Score E
Sequences producing significant alignments: (bits) Value
gi|3322921 (AE001237) exonuclease, putative [Treponema pall... 140 2e-32
sp|P23479|SBCD_BACSU EXONUCLEASE SBCD HOMOLOG 110 2e-23
sp|O51769|SBCD_BORBU EXONUCLEASE SBCD HOMOLOG >gi|2688778 (... 100 2e-20
gi|2984155 (AE000761) ATP-dependent dsDNA exonuclease [Aqui... 95 1e-18
gb|AAB18122.1| (U73857) exonuclease SbcD [Escherichia coli] 95 1e-18
sp|P13457|SBCD_ECOLI EXONUCLEASE SBCD >gi|78529|pir||JS0349... 95 1e-18
emb|CAA70669| (Y09476) SbcD [Bacillus subtilis] 92 6e-18
pir||C39432 hypothetical protein (AddB 3' region) - Bacillu... 87 2e-16
gb|AAF11473.1|AE002031_2 (AE002031) exonuclease SbcD, putat... 81 2e-14
sp|O68033|SBCD_RHOCA EXONUCLEASE SBCD HOMOLOG >gi|3128267 (... 80 2e-14
gb|AAD36702.1|AE001806_12 (AE001806) exonuclease, putative ... 68 1e-10
gi|2649563 (AE001032) DNA repair protein RAD32 (rad32) [Arc... 59 7e-08
emb|CAB50130.1| (AJ248286) DNA REPAIR PROTEIN RAD32 (RAD32)... 59 9e-08
dbj|BAA30026| (AP000004) 413aa long hypothetical protein [P... 59 9e-08
dbj|BAA10181| (D64000) hypothetical protein [Synechocystis ... 50 3e-05
emb|CAB00917| (Z77137) hypothetical protein Rv1277 [Mycobac... 48 2e-04
gi|2621616 (AE000837) Rad32 related protein [Methanobacteri... 47 2e-04
pir||B64465 hypothetical protein MJ1323 - Methanococcus jan... 46 4e-04
emb|CAA74422| (Y14078) Hypothetical protein [Bacillus subti... 45 0.001
gb|AAD55951.1|AF178433_1 (AF178433) DNA repair and meiosis ... 44 0.003
emb|CAA98292.1| (Z73978) predicted using Genefinder; Simila... 42 0.007
ref|NP_005581.1|| meiotic recombination (S. cerevisiae) 11 ... 42 0.010
gi|3322921 (AE001237) exonuclease, putative [Treponema pallidum]
Length = 391
Score = 140 bits (349), Expect = 2e-32
Identities = 104/302 (34%), Positives = 157/302 (51%), Gaps = 21/302 (6%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESV 60
MK LHT+D H+G+TL+ SL QK + +L Q+ +IIAGD+Y+R VPSAESV
Sbjct: 1 MKILHTADLHLGKTLHEVSLFASQKKMLGDLCTLLAQDNYAALIIAGDIYDRCVPSAESV 60
Query: 61 ITFNQMLREM-NIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHLRTSLEEAFIP---- 115
F+ L+ + + + PIY+I GNHD A+RLS+A++ L + + EE+ P
Sbjct: 61 SLFSSFLQNIKRSMPRLPIYLIPGNHDSAQRLSFAQELLKQQGVFIAQDPEESTRPHLLC 120
Query: 116 VETKETQIFLLPFFDPMDARIYFSNQGLDEEDTK-QIKTIDDAMTLVISKMKSQFNNKKN 174
E + Q+FLLPF A Y LDEE+T I T + + +++ +
Sbjct: 121 HEGETVQLFLLPFLH-AGAFSY-----LDEENTTCLIHTQSELLQEASRRLQRAVSLDTP 174
Query: 175 QVLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALGHIHTRLASPSDKVQ 234
+LV H ++ I SE P VG + F F YVALGH+H + ++++
Sbjct: 175 SILVAHLFT---QKGISCESERPF-VGNAVYADPHWFDFFTYVALGHLH-KCQKITERMY 229
Query: 235 YSGSPVKFNTKEASTQKGIFVVEI----KEKMLNSNFLPLQVKTDLVVLEEEWEQLISRD 290
YSGSP+ ++ EA+TQK VEI K ++ LPL+ L + + + L + D
Sbjct: 230 YSGSPLPYSFDEANTQKVALSVEIHCNTKGFPIHVTPLPLEPLIPLRTIRDSFHALYTGD 289
Query: 291 FY 292
Y
Sbjct: 290 RY 291
sp|P23479|SBCD_BACSU EXONUCLEASE SBCD HOMOLOG
Length = 325
Score = 110 bits (273), Expect = 2e-23
Identities = 82/265 (30%), Positives = 129/265 (47%), Gaps = 11/265 (4%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESV 60
M+ LHT+DWH+G+TL G S L EQ +++ ++ K Q+D I++AGD ++ P A +
Sbjct: 1 MRILHTADWHLGKTLEGRSRLSEQADVLDELNTIVKDEQIDAIVMAGDAFDTVNPPALAE 60
Query: 61 ITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHL--RTSLEEAFIPVET 118
F + L ++ K PI +I+GNHD RLS A N +HL + E I V +
Sbjct: 61 QLFYESLSALSDRGKRPIVVIAGNHDNPDRLSAASPLTHENGIHLIGYPTTEPIHIEVPS 120
Query: 119 KETQIFLLPFFDPMDARIYFSNQGL-DEEDTKQIKT-IDDAMTLVISKMKSQFNNKKNQV 176
+ + P +AR+ N+ L D D K ++ D + M S+F ++
Sbjct: 121 AGELLAVGALAYPSEARL---NEVLSDTFDEKLLRDHYDVKIRQAFEHMTSRFRTDAVKI 177
Query: 177 LVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALGHIH--TRLASPSDKVQ 234
+H V+ + I T S V + S AD YVALGH+H + +
Sbjct: 178 AASHIYVAGETKPI-QTGRLKSAV-XYTVAAESLPADAAYVALGHLHRPQTIKRARTLAR 235
Query: 235 YSGSPVKFNTKEASTQKGIFVVEIK 259
YSGSP+ ++ EA K + +V+ K
Sbjct: 236 YSGSPLAYSFSEAGYAKSVTIVDAK 260
sp|O51769|SBCD_BORBU EXONUCLEASE SBCD HOMOLOG >gi|2688778 (AE001181) exonuclease SbcD
(sbcD) [Borrelia burgdorferi]
Length = 413
Score = 100 bits (247), Expect = 2e-20
Identities = 90/380 (23%), Positives = 171/380 (44%), Gaps = 32/380 (8%)
Query: 2 KFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESVI 61
K LHTSDWHIG+ + FS+L+EQK +L K+ +D +++AGD+Y+ P E
Sbjct: 5 KILHTSDWHIGKKIENFSILKEQKNFLYFLLEFIKKENIDLLLVAGDVYDSKRPGFEEQR 64
Query: 62 TFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHLRTSL--EEAFIPVETK 119
N E++ +ISGNHD LS K L N L T +E + ++
Sbjct: 65 LVNNFFYELSFTSCKWCVVISGNHDKKDYLSINKKLLSRFNFFLITEYDSDEQIVLLKDN 124
Query: 120 ETQIFLLPFFDPMDARIYFSNQ-----GLDEEDTKQ--IKTIDDAMTLVISKMKSQFNNK 172
F++ ++ R+ GL+++ + + ++ +++A IS + + NK
Sbjct: 125 GNLKFIVVCLPHINERLILGQNFDNIFGLEDQYSSKLFLENLENAYREKISNLSNFLENK 184
Query: 173 KN---QVLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFAD-FDYVALGHIHTRLAS 228
++L+ H +S+ +GG + + F + F YVALGHIH +
Sbjct: 185 YKGIPKILMAH--------SFFGSSKKIDTLGGSYIIPFNVFGNGFSYVALGHIH-KFMK 235
Query: 229 PSDKVQYSGSPVKFNTKEASTQKGIFVVEIKE-KMLNSNFLPLQVKTDLVVLEEEWEQLI 287
D + YSGSP++++ E + K I V+ + K++ P+ + L+ + +++
Sbjct: 236 LRDNIVYSGSPMQYSFNE-TCDKYINVLHFNDNKLILQEAFPVPIFNKLIFAKGSLNEVL 294
Query: 288 SRDFYERQPLNKAWFAITIKNFDRTKLVGQNLRAQLQKI----YGTIIELDYQFEKKQLT 343
DF ++ F I +K + + V + + + + ++ + Y Q
Sbjct: 295 --DFLANSKKEES-FTIYLK-IELNEAVDTSAEESIYDLARLNFMNLVSISYSLPSSQDL 350
Query: 344 RSRSQDIETLDNVEILSSFY 363
+ S I L+ +E+ ++
Sbjct: 351 QDDSNFIGELEVLEMDEKYF 370
gi|2984155 (AE000761) ATP-dependent dsDNA exonuclease [Aquifex aeolicus]
Length = 379
Score = 94.8 bits (232), Expect = 1e-18
Identities = 97/397 (24%), Positives = 184/397 (45%), Gaps = 33/397 (8%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAES- 59
M+ +H SD H G+ L S E+ YA Q++ K+N+ D +++AGD++++A P E+
Sbjct: 1 MRLIHLSDIHAGKNLGRVSRNEDVVYALNQVVDFCKENKPDLVLVAGDVFDKANPDNEAK 60
Query: 60 --VITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHL--RTSLEEAFIP 115
+ F L +NI P +ISGNHD + + K L ++++ + +LEE +
Sbjct: 61 EIIFDFFLKLHSLNI----PSVVISGNHDSYEFMKSLKKLLQVIDVYVVPKPNLEECVLD 116
Query: 116 VETKETQIFLLPFFDPMDARIYFSNQGLDEEDTKQIKTIDDAMTLVISKMKSQFNNKKNQ 175
V K +I LP+ + + G D + + + ++ A+ + K+K + +
Sbjct: 117 V--KGLKIACLPY----PSERVLTRAGEDSKLSYAV-LVEKAIKYLYEKVK----DAPLK 165
Query: 176 VLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFAD-FDYVALGHIH--TRLASPSDK 232
VL++H ++ K +E + + + S + FDYVALGH+H R+
Sbjct: 166 VLLSHLFIAGSK---YTRTEREATITDYYAVEPSAIPEGFDYVALGHVHRYQRIEKAPTH 222
Query: 233 VQYSGSPVKFNTKEASTQKGIFVVEIKE-KMLNSNFLPLQVKTDLVVLEEEWEQLISRDF 291
V Y+GS + + EA +K VE+KE + + + L +K L E E
Sbjct: 223 VYYTGSLFQLDFSEAGQEKFFNFVELKEGEPPHVEAIKLSLKNPLHTFEINQENYAKELE 282
Query: 292 YERQPLNKAWFAITIKNFDRTKLVGQNLRAQL-QKIYGTIIELDYQFEKKQLTRSRSQDI 350
+ + +K+ + LV + ++ L +K+ + + KK+L R +I
Sbjct: 283 KIKDVQGYIKVHLIVKDKTKMHLVAEKVKEALGEKLIKLELLTPEEAIKKRLEEER--EI 340
Query: 351 ETLDNVEILSSFYKFTTGETLDDVQTAIIESTFNELE 387
+ L+ +++ ++K + G +V II++ LE
Sbjct: 341 QKLNLLDLYRDYFKESYGR---EVPQEIIKTVSQLLE 374
gb|AAB18122.1| (U73857) exonuclease SbcD [Escherichia coli]
Length = 408
Score = 94.8 bits (232), Expect = 1e-18
Identities = 100/411 (24%), Positives = 180/411 (43%), Gaps = 36/411 (8%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESV 60
M+ LHTSDWH+G+ S E + + +L A+ +QVD II+AGD+++ P + +
Sbjct: 9 MRILHTSDWHLGQNFYSKSREAEHQAFLDWLLETAQTHQVDAIIVAGDVFDTGSPPSYAR 68
Query: 61 ITFNQMLREMNIIEK-FPIYMISGNHDGAKRLSYAKDWLDYNNLHLRTSLEEA--FIPVE 117
+N+ + +N+ + + +++GNHD L+ ++D + + N + S A +P
Sbjct: 69 TLYNRFV--VNLQQTGCHLVVLAGNHDSVATLNESRDIMAFLNTTVVASAGHAPQILPRR 126
Query: 118 --TKETQIFLLPFFDPMDARIYFSNQGLDEEDTKQ--IKTIDDAMTLVISKMKSQFNNKK 173
T + +PF P D I S GL+ + +Q + I D + ++
Sbjct: 127 DGTPGAVLCPIPFLRPRD--IITSQAGLNGIEKQQHLLAAITDYYQQHYADACKLRGDQP 184
Query: 174 NQVLVTHF--AVSPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALGHIH-TRLASPS 230
++ T V K + V +G L F DY+ALGHIH ++
Sbjct: 185 LPIIATGHLTTVGASKSDAV----RDIYIGTLDAFPAQNFPPADYIALGHIHRAQIIGGM 240
Query: 231 DKVQYSGSPVKFNTKEASTQKGIFVVEIK----EKMLNSNFLPLQ----VKTDLVVLEEE 282
+ V+Y GSP+ + E K + +V E + N N Q +K DL + +
Sbjct: 241 EHVRYCGSPIPLSFDECGKSKYVHLVTFSNGKLESVENLNVPVTQPMAVLKGDLASITAQ 300
Query: 283 WEQLISRDFYERQPLNKAWFAITIKNFDRTKLVGQNLRAQLQKIYGTIIELDYQFEKKQL 342
EQ RD + P+ W I I + + + ++A + + ++ + E+++
Sbjct: 301 LEQW--RDVSQEPPV---WLDIEITTDEYLHDIQRKIQALTESLPVEVLLVRRSREQRER 355
Query: 343 TRSRSQDIETLDNVEILSSFYKFTTGETLDDVQTA----IIESTFNELEGE 389
+ SQ ETL + + F + E LD+ Q + +T + L GE
Sbjct: 356 VLA-SQQRETLSELSVEEVFNRRLALEELDESQQQRLQHLFTTTLHTLAGE 405
sp|P13457|SBCD_ECOLI EXONUCLEASE SBCD >gi|78529|pir||JS0349 hypothetical 45K protein
(sbcC 5' region) - Escherichia coli
>gi|42913|emb|CAA34103| (X15981) ORF 45 peptide (AA
1-400) [Escherichia coli] >gi|1786598 (AE000146)
ATP-dependent dsDNA exonuclease [Escherichia coli]
>gi|1586770|prf||2204364B sbcD gene [Escherichia coli]
Length = 400
Score = 94.8 bits (232), Expect = 1e-18
Identities = 100/411 (24%), Positives = 180/411 (43%), Gaps = 36/411 (8%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESV 60
M+ LHTSDWH+G+ S E + + +L A+ +QVD II+AGD+++ P + +
Sbjct: 1 MRILHTSDWHLGQNFYSKSREAEHQAFLDWLLETAQTHQVDAIIVAGDVFDTGSPPSYAR 60
Query: 61 ITFNQMLREMNIIEK-FPIYMISGNHDGAKRLSYAKDWLDYNNLHLRTSLEEA--FIPVE 117
+N+ + +N+ + + +++GNHD L+ ++D + + N + S A +P
Sbjct: 61 TLYNRFV--VNLQQTGCHLVVLAGNHDSVATLNESRDIMAFLNTTVVASAGHAPQILPRR 118
Query: 118 --TKETQIFLLPFFDPMDARIYFSNQGLDEEDTKQ--IKTIDDAMTLVISKMKSQFNNKK 173
T + +PF P D I S GL+ + +Q + I D + ++
Sbjct: 119 DGTPGAVLCPIPFLRPRD--IITSQAGLNGIEKQQHLLAAITDYYQQHYADACKLRGDQP 176
Query: 174 NQVLVTHF--AVSPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALGHIH-TRLASPS 230
++ T V K + V +G L F DY+ALGHIH ++
Sbjct: 177 LPIIATGHLTTVGASKSDAV----RDIYIGTLDAFPAQNFPPADYIALGHIHRAQIIGGM 232
Query: 231 DKVQYSGSPVKFNTKEASTQKGIFVVEIK----EKMLNSNFLPLQ----VKTDLVVLEEE 282
+ V+Y GSP+ + E K + +V E + N N Q +K DL + +
Sbjct: 233 EHVRYCGSPIPLSFDECGKSKYVHLVTFSNGKLESVENLNVPVTQPMAVLKGDLASITAQ 292
Query: 283 WEQLISRDFYERQPLNKAWFAITIKNFDRTKLVGQNLRAQLQKIYGTIIELDYQFEKKQL 342
EQ RD + P+ W I I + + + ++A + + ++ + E+++
Sbjct: 293 LEQW--RDVSQEPPV---WLDIEITTDEYLHDIQRKIQALTESLPVEVLLVRRSREQRER 347
Query: 343 TRSRSQDIETLDNVEILSSFYKFTTGETLDDVQTA----IIESTFNELEGE 389
+ SQ ETL + + F + E LD+ Q + +T + L GE
Sbjct: 348 VLA-SQQRETLSELSVEEVFNRRLALEELDESQQQRLQHLFTTTLHTLAGE 397
emb|CAA70669| (Y09476) SbcD [Bacillus subtilis]
Length = 246
Score = 92.4 bits (226), Expect = 6e-18
Identities = 65/210 (30%), Positives = 104/210 (48%), Gaps = 10/210 (4%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESV 60
M+ LHT+DWH+G+TL G S L EQ +++ ++ K Q+D I++AGD ++ P A +
Sbjct: 1 MRILHTADWHLGKTLEGRSRLSEQADVLDELNTIVKDEQIDAIVMAGDAFDTVNPPALAE 60
Query: 61 ITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHL--RTSLEEAFIPVET 118
F + L ++ K PI +I+GNHD RLS A N +HL + E I V +
Sbjct: 61 QLFYESLSALSDRGKRPIVVIAGNHDNPDRLSAASPLTHENGIHLIGYPTTEPIHIEVPS 120
Query: 119 KETQIFLLPFFDPMDARIYFSNQGL-DEEDTKQIKT-IDDAMTLVISKMKSQFNNKKNQV 176
+ + P +AR+ N+ L D D K ++ D + M S+F ++
Sbjct: 121 AGELLAVGALAYPSEARL---NEVLSDTFDEKLLRDHYDVKIRQAFEHMTSRFRTDAVKI 177
Query: 177 LVTHFAVSPHKEEIVLTSETPSKVGGLSTL 206
+H V+ + SE P +VGG T+
Sbjct: 178 AASHIYVAGGNQ---TDSERPIEVGGAYTV 204
pir||C39432 hypothetical protein (AddB 3' region) - Bacillus subtilis
>gi|142441 (M63489) ORF 3; putative [Bacillus subtilis]
>gi|2633400|emb|CAB12904| (Z99109) exonuclease SbcD
homolog [Bacillus subtilis]
Length = 253
Score = 87.0 bits (212), Expect = 2e-16
Identities = 59/194 (30%), Positives = 96/194 (49%), Gaps = 7/194 (3%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESV 60
M+ LHT+DWH+G+TL G S L EQ +++ ++ K Q+D I++AGD ++ P A +
Sbjct: 1 MRILHTADWHLGKTLEGRSRLSEQADVLDELNTIVKDEQIDAIVMAGDAFDTVNPPALAE 60
Query: 61 ITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHL--RTSLEEAFIPVET 118
F + L ++ K PI +I+GNHD RLS A N +HL + E I V +
Sbjct: 61 QLFYESLSALSDRGKRPIVVIAGNHDNPDRLSAASPLTHENGIHLIGYPTTEPIHIEVPS 120
Query: 119 KETQIFLLPFFDPMDARIYFSNQGL-DEEDTKQIKT-IDDAMTLVISKMKSQFNNKKNQV 176
+ + P +AR+ N+ L D D K ++ D + M S+F ++
Sbjct: 121 AGELLAVGALAYPSEARL---NEVLSDTFDEKLLRDHYDVKIRQAFEHMTSRFRTDAVKI 177
Query: 177 LVTHFAVSPHKEEI 190
+H V+ + I
Sbjct: 178 AASHIYVAGETKPI 191
gb|AAF11473.1|AE002031_2 (AE002031) exonuclease SbcD, putative [Deinococcus radiodurans]
Length = 416
Score = 80.8 bits (196), Expect = 2e-14
Identities = 96/405 (23%), Positives = 165/405 (40%), Gaps = 31/405 (7%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAE-- 58
M+ LHT+D+H GR L GF E A +I LA+ + D ++++GDL++ PSA+
Sbjct: 24 MRVLHTADFHAGRLLKGFDRTPEIHDALVEIAGLARTERADAVLVSGDLFDTGNPSADAE 83
Query: 59 -SVITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHL-------RTSLE 110
+V F LR+ I P +I+GNHD A RL L + + + ++
Sbjct: 84 AAVFDFFLRLRDAGI----PGVVIAGNHDSAARLDSVAGLLGWVGIQVVAQPSGDPLAMV 139
Query: 111 EAFIPVETKETQIFLLPFFDPMDARIYFSNQGLDEEDTKQIKTIDDAMTLVISKMKSQFN 170
+ ++ LP+ + R+ + L + Q + + M + ++ F
Sbjct: 140 REVATKSGERLRVGALPYLS--ERRLVKAVDVLGGDLGAQRQKYRENMGFFLRELGRGFE 197
Query: 171 NKKNQVLVTHFAV-----SPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALGHIH-T 224
+L+ H + S + L V GL +Q YVALGHIH
Sbjct: 198 PGAVNMLMAHTTMDGAVPSGSERTFQLDLTNAYTVSGLQLPPGAQ-----YVALGHIHKP 252
Query: 225 RLASPSDKVQYSGSPVKFNTKEASTQKGIFVVEIKE-KMLNSNFLPLQVKTDLVVLEEEW 283
+ S + Y GS ++ + EA +K I ++E++ + +PL DL + +
Sbjct: 253 QTVSDAPLACYPGSVIQLDFGEAGEKKQINLIEVEAGRPARVEGIPLASGRDLRTVYVDL 312
Query: 284 EQLISRDFYERQPLNKAWFAITIKNFDRTKLVGQNLRAQLQKIYGTIIELDYQFEKKQLT 343
+ + R + + ++ T L G R +ELD Q E +
Sbjct: 313 DNVERRLGEVKASGFTGLLKVVVRAPAGTALPGLKDRVLNITPNALSVELDAQQEDLAVP 372
Query: 344 RSRSQDIETLDNVEILSSFYKFTTGETLDDVQTAIIESTFNELEG 388
R E L +E+ +++ GE DDV+ A + EG
Sbjct: 373 ELRR---EGLTLMELFERYWQEKRGELPDDVRAAFQTAESQAREG 414
sp|O68033|SBCD_RHOCA EXONUCLEASE SBCD HOMOLOG >gi|3128267 (AF010496) exonuclease SbcD
homolog [Rhodobacter capsulatus]
Length = 405
Score = 80.4 bits (195), Expect = 2e-14
Identities = 65/273 (23%), Positives = 116/273 (41%), Gaps = 19/273 (6%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESV 60
M+ LHT+DWHIG+TLNG+S E + + + QVD +++AGD+++ PS E+
Sbjct: 1 MRILHTADWHIGQTLNGWSREAEHRAFLADLGEILLAEQVDALLVAGDVFDGLNPSGEAQ 60
Query: 61 -ITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHL---------RTSLE 110
+ + + + + I + SGNHD A+RL + L +H+ L+
Sbjct: 61 RLLYAALAGYVRANPRLQIVLTSGNHDPAQRLEAPEAVLRELGVHVLGTLSRGPGGMDLD 120
Query: 111 EAFIPVETK----ETQIFLLPFFDPMDARIYFSNQGLDEEDTKQIKTIDDAMTLVISKMK 166
IP+ + Q+ LPF D + G +E + A+
Sbjct: 121 RHLIPLRDRAGQIRAQVLALPFLRQAD--LPGLRLGAEEGTEGAVTAALRALLAETVARA 178
Query: 167 SQFNNKKNQVLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFAD-FDYVALGHIHTR 225
+ + + H + E +E +GG + F +VALGH+H
Sbjct: 179 AAIAGTLPLIAMAHLTCAGGLES--AGAERRILIGGDHAVPPDVFPPALAHVALGHLHRP 236
Query: 226 LASPSDKVQYSGSPVKFNTKEASTQKGIFVVEI 258
+ +V+YSG+P + E G+ ++++
Sbjct: 237 QSLDGGRVRYSGAPFPLSASEIGYDHGVTLLDL 269
gb|AAD36702.1|AE001806_12 (AE001806) exonuclease, putative [Thermotoga maritima]
Length = 385
Score = 67.9 bits (163), Expect = 1e-10
Identities = 71/275 (25%), Positives = 122/275 (43%), Gaps = 42/275 (15%)
Query: 1 MKFLHTSDWHIGRT----LNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGD-LYERAVP 55
+K LHTSDWH+G T EE K A ++++ A++ +VD I++ GD L+ R P
Sbjct: 7 LKILHTSDWHLGVTSWTSSRPVDRREELKKALDKVVEEAEKREVDLILLTGDLLHSRNNP 66
Query: 56 SAESVITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHLRTSLEEAFIP 115
S ++ L+ M + P+ ++ GNHD K L +++ + + + +
Sbjct: 67 SVVALHDLLDYLKRM--MRTAPVVVLPGNHDW-KGLKLFGNFVTSISSDITFVMSFEPVD 123
Query: 116 VETKETQ-IFLLPFFDPMDARIYFSNQG---------LDEEDTKQIKTIDDAMTLVISKM 165
VE K Q + +LPF P ++ N+G L++ + +K D A+ +
Sbjct: 124 VEAKRGQKVRILPFPYPDESEALRKNEGDFRFFLESRLNKLYEEALKKEDFAIFM----- 178
Query: 166 KSQFNNKKNQVLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALGHIHT- 224
+ + L + + +E I+ + PS V DY ALGHIH+
Sbjct: 179 ----GHFTVEGLAGYAGIEQGREIIINRALIPSVV--------------DYAALGHIHSF 220
Query: 225 RLASPSDKVQYSGSPVKFNTKEASTQKGIFVVEIK 259
R Y GS ++ + E + +KG VE+K
Sbjct: 221 REIQKQPLTIYPGSLIRIDFGEEADEKGAVFVELK 255
gi|2649563 (AE001032) DNA repair protein RAD32 (rad32) [Archaeoglobus
fulgidus]
Length = 443
Score = 58.9 bits (140), Expect = 7e-08
Identities = 67/265 (25%), Positives = 112/265 (41%), Gaps = 52/265 (19%)
Query: 1 MKFLHTSDWHIG-RTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAES 59
MKF H +D H+G N E+ AF+ I A ++ D ++IAGDL+ R++PS +
Sbjct: 1 MKFAHIADVHLGYEQYNQPWRAEDFAKAFKVIAEKAVESNADFVVIAGDLFHRSLPSPRT 60
Query: 60 V---ITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHLRTSLEEAFIPV 116
+ + M R+ NI P++ + GNHD R D + HL SL
Sbjct: 61 IKEAVETLWMFRKENI----PVFAVEGNHDKTSR--------DISAYHLLESLG------ 102
Query: 117 ETKETQIFLLPFFDPMDARIYFSN-QGLDEEDTKQIKTIDDAMTLVISKMKSQFNNKK-- 173
LL + N + L ++ +K + D + ++ + +S++ +K
Sbjct: 103 --------LLNVLGLRRNPVRGENVESLRIQNVYLVKGVVDDVEILGDRHRSKWQLEKVL 154
Query: 174 --------NQVLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALGHIHTR 225
VLV H AV KE + + + + L ++ + Y A GHIH
Sbjct: 155 PLLKPQSDKSVLVLHQAV---KEVVDIDLDMAYE------LTINDLPEASYYAFGHIHLP 205
Query: 226 LASPSD--KVQYSGSPVKFNTKEAS 248
D + Y GS +++ +EAS
Sbjct: 206 KIYEFDGKAIAYPGSVERYDLREAS 230
emb|CAB50130.1| (AJ248286) DNA REPAIR PROTEIN RAD32 (RAD32) [Pyrococcus abyssi]
Length = 423
Score = 58.6 bits (139), Expect = 9e-08
Identities = 81/314 (25%), Positives = 126/314 (39%), Gaps = 76/314 (24%)
Query: 1 MKFLHTSDWHIG-RTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAES 59
+KF H +D H+G N EE AFE + + +VD I+IAGDL+ + PS +
Sbjct: 11 IKFAHLADVHLGYEQFNRSQRAEEFAKAFEDAIKICVDEKVDFIVIAGDLFNSSRPSPGT 70
Query: 60 VITFNQML---REMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHLRTSLEEAFIPV 116
+ T ++L R+ NI P++ I GNHD +R + LHL LE+
Sbjct: 71 IKTAVKILQIPRDNNI----PVFAIEGNHDRTQR--------GPSILHL---LED----- 110
Query: 117 ETKETQIFLLPFFDPMDARIYFSNQGLDEEDTKQIKTIDDAMTLV--------------- 161
+ LL D ++ N+ L E TK + V
Sbjct: 111 ------LGLLYVLGVRDEKV--ENEYLTSEKTKAGWLVKGMYKDVEIHGMKYMSAAWFEG 162
Query: 162 -ISKMKSQFNNKKNQVLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALG 220
I KS F + + +LV H V + + P+ LS ++ + + Y ALG
Sbjct: 163 NIELFKSMFRPEGDAILVLHQGVRE-----ITENNYPNYSSELSLSDLPK--GYLYYALG 215
Query: 221 HIHTRLASPSD--KVQYSGSPVKFN---------------TKEASTQKGIFVVE-IKEKM 262
HIH R D V Y GS +++ +E KG ++VE K +
Sbjct: 216 HIHKRFELTYDDAPVVYPGSLERWDFGDYSLKLTWNGFQFKEEVGVDKGFYIVEDFKPRF 275
Query: 263 LNSN---FLPLQVK 273
+ N F+ + +K
Sbjct: 276 IRINARDFIDVHIK 289
dbj|BAA30026| (AP000004) 413aa long hypothetical protein [Pyrococcus horikoshii]
Length = 413
Score = 58.6 bits (139), Expect = 9e-08
Identities = 61/247 (24%), Positives = 103/247 (41%), Gaps = 30/247 (12%)
Query: 1 MKFLHTSDWHIG-RTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAES 59
MKF H +D H+G N EE F++ L + + VD IIIAGDL+ + PS +
Sbjct: 1 MKFAHLADVHLGYEQFNKPQRAEEFANTFKKALEMCVKESVDFIIIAGDLFNSSRPSPGT 60
Query: 60 VITFNQML---REMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHLRTSLEEAFIPV 116
+ T ++L +E NI P++ I GNHD +R + LHL L ++ +
Sbjct: 61 IKTAIKLLQIPKENNI----PVFAIEGNHDRTQR--------GPSVLHLLEDLGLLYV-I 107
Query: 117 ETKETQIFLLPFFDPMDARIYFSNQGLDEEDTKQIKTIDDA-MTLVISKMKSQFNNKKNQ 175
++ ++ + D + +K + A ++ K F ++
Sbjct: 108 GLRQERVENEYLTSERVGNYWLVKGVYDNLEIHGMKYMSSAWFEANLNFFKGIFRPDEDA 167
Query: 176 VLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALGHIHTRLASPSDKVQY 235
+LV H + E++ + K+ L + Y ALGH+H R + Y
Sbjct: 168 ILVLHQGIRDITEKVFPSYSAELKLSDLP-------RGYLYYALGHVHKRF-----ETNY 215
Query: 236 SGSPVKF 242
SPV +
Sbjct: 216 GDSPVVY 222
dbj|BAA10181| (D64000) hypothetical protein [Synechocystis sp.]
Length = 416
Score = 50.0 bits (117), Expect = 3e-05
Identities = 68/297 (22%), Positives = 111/297 (36%), Gaps = 36/297 (12%)
Query: 1 MKFLHTSDWHIGRTLNGFS------------LLEEQKYAFEQILSLAKQNQVDGIIIAGD 48
+K LH SD H+G +GFS LE+ + + A D ++ GD
Sbjct: 2 LKVLHLSDIHLG---SGFSHGHINPATGLNTRLEDFIQSLRLCIDRAIAEPADVVLFGGD 58
Query: 49 LYERAVPSAESVITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHLR-- 106
+ A P F R + + P ++ GNHD + S Y L +
Sbjct: 59 AFPDATPPPYVQEAFAAEFRRLADAD-IPTVLLVGNHDQHSQGSGGASLCIYRTLAVPGF 117
Query: 107 ---TSLEEAFIPVETKETQIFLLPFFDPMDARIYFSNQGLDEE--DTKQIKTIDDAMTLV 161
L IP + QI LP+ +GL E + +K + +
Sbjct: 118 IVGDRLATHLIPTANGDLQIVTLPWLTRSTLLTRPETEGLSLEAINLLLLKKLQPILEGE 177
Query: 162 ISKMKSQFNNKKNQVLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQF--ADFDYVAL 219
I + Q +L+ H + +E VG T+ ++ +FDYVAL
Sbjct: 178 IRSLDPQLPT----ILLAHLMA----DRATFGAEKTLSVGKGFTIPLALINRPEFDYVAL 229
Query: 220 GHIHT-RLASPSDK--VQYSGSPVKFNTKEASTQKGIFVVEIKEKMLNSNFLPLQVK 273
GH+H + +P + + Y GS + + E KG +EI + ++ F PL +
Sbjct: 230 GHVHKHQNLNPHNNPPIVYPGSIERVDFGEEKEDKGYIWLEISKGKVDWQFCPLPAR 286
emb|CAB00917| (Z77137) hypothetical protein Rv1277 [Mycobacterium tuberculosis]
Length = 417
Score = 47.6 bits (111), Expect = 2e-04
Identities = 28/92 (30%), Positives = 49/92 (52%), Gaps = 10/92 (10%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKY------AFEQILSLAKQNQVDGIIIAGDLYERAV 54
M+FLHT+DW +G T + + + +Y A + +LA + +++AGD++E
Sbjct: 35 MRFLHTADWQLGMTRHFLAGDAQPRYSAARRDAVAGLKALAADVGAEFVVVAGDVFEHNQ 94
Query: 55 PSAESVITFNQMLREMNIIEKFPIYMISGNHD 86
+ + V Q L M +I P+Y++ GNHD
Sbjct: 95 LAPQIV---GQSLEAMRVI-GLPVYLLPGNHD 122
gi|2621616 (AE000837) Rad32 related protein [Methanobacterium
thermoautotrophicum]
Length = 587
Score = 47.3 bits (110), Expect = 2e-04
Identities = 32/85 (37%), Positives = 44/85 (51%), Gaps = 2/85 (2%)
Query: 2 KFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESVI 61
+F H SD H+G + L E + AF L A Q VD +IIAGDL+ +P+ E+V
Sbjct: 172 RFAHLSDCHLGAQKHP-DLRELEFEAFRMALDDALQKDVDFMIIAGDLFHSNIPNMETVK 230
Query: 62 TFNQMLREMNIIEKFPIYMISGNHD 86
LR + PIY+ G+HD
Sbjct: 231 RATLELRRVR-EAGVPIYVNYGSHD 254
pir||B64465 hypothetical protein MJ1323 - Methanococcus jannaschii >gi|1591963
(U67572) DNA repair protein RAD32 (rad32) [Methanococcus
jannaschii]
Length = 366
Score = 46.5 bits (108), Expect = 4e-04
Identities = 65/316 (20%), Positives = 127/316 (39%), Gaps = 69/316 (21%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKY-AFEQILSLAKQNQVDGIIIAGDLYERAVPSAES 59
M F+H +D H+G E+ Y +F+ + + + D ++ +GDL+ P ++
Sbjct: 1 MMFVHIADNHLGYRQYNLDDREKDIYDSFKLCIKKILEIKPDVVLHSGDLFNDLRPPVKA 60
Query: 60 VITFNQMLREMNIIEKFPIYMISGNHDGAKRL------SYAKDW---LDYNNLHLRTSLE 110
+ Q ++++ +Y+++GNH+ +RL + KD+ LD ++ + + E
Sbjct: 61 LRIAMQAFKKLHE-NNIKVYIVAGNHEMPRRLGEESPLALLKDYVKILDGKDV-INVNGE 118
Query: 111 EAFIPVETKETQIFLLPFFDPMDARIYFSNQGLDEEDTKQIKTIDDAMTLVISKMKSQFN 170
E FI Y+ + EE ++K + S+
Sbjct: 119 EIFI-------------------CGTYYHKKSKREEMLDKLKNFE-----------SEAK 148
Query: 171 NKKNQVLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALGHIHTRLASPS 230
N K ++L+ H ++P+ I L E L F Y ALGHIH R+
Sbjct: 149 NYKKKILMLHQGINPY---IPLDYE----------LEHFDLPKFSYYALGHIHKRILERF 195
Query: 231 DK--VQYSGSPVKFNTKE----ASTQKGIFVVEIKEKMLNSNFLPLQVKTDLVVLEEEWE 284
+ + YSGS E KG ++V+ L+ +D+ ++ E
Sbjct: 196 NDGILAYSGSTEIIYRNEYEDYKKEGKGFYLVDFSGNDLDI--------SDIEKIDIECR 247
Query: 285 QLISRDFYERQPLNKA 300
+ + + +++ N+A
Sbjct: 248 EFVEVNIKDKKSFNEA 263
emb|CAA74422| (Y14078) Hypothetical protein [Bacillus subtilis]
>gi|2633327|emb|CAB12831| (Z99109) similar to
hypothetical proteins [Bacillus subtilis]
Length = 408
Score = 44.9 bits (104), Expect = 0.001
Identities = 65/284 (22%), Positives = 110/284 (37%), Gaps = 58/284 (20%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYA---------FEQILSLAKQNQVDGIIIAGDLYE 51
+ F+H +D H+ G S L E +A ++ A + VD I++AGDL++
Sbjct: 5 LTFIHAADLHLDSPFYGISHLPEPIFARIKESTFASVRHMIDAAVREHVDFILLAGDLFD 64
Query: 52 RAVPSAESVITFN---QMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHLRTS 108
A S ++ + + LRE I +Y+I GNHD +W + N+H+ +S
Sbjct: 65 EANRSLKAQLFLKKQFERLRECGI----SVYVIFGNHDHLGGEWTPIEWPE--NVHIFSS 118
Query: 109 L---EEAFIPVETKETQIFLLPFFDPMDARIYFSNQGLDEEDTKQIKTIDDAMTLVISKM 165
E++F + I+ + AR NQ + + DA I +
Sbjct: 119 AVPEEKSFFKEGRRIASIYGFSY----QARALMENQ------AARYRRSTDA-PFHIGML 167
Query: 166 KSQFNNKKNQVLVTHFAVSPHKEEIVLTSETPSKVGGLSTLNVSQFADFDYVALGHIHTR 225
+ + H P + ++ S DY ALGHIH R
Sbjct: 168 HGTLSGSEG-----HDPYCPFTHDDLVKS------------------GMDYWALGHIHKR 204
Query: 226 --LASPSDKVQYSGSPVKFNTKEASTQKGIFVVEIKEKMLNSNF 267
L++ V Y G+ + KE KG ++V + ++ F
Sbjct: 205 QVLSAEHPAVIYPGNTQARHIKETG-DKGYYLVHVTNGDISYEF 247
gb|AAD55951.1|AF178433_1 (AF178433) DNA repair and meiosis protein Mre11 [Coprinus cinereus]
Length = 731
Score = 43.8 bits (101), Expect = 0.003
Identities = 29/109 (26%), Positives = 53/109 (48%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESV 60
+K L +D HIG ++ F +IL LA +N+VD I++AGDL+ PS + +
Sbjct: 23 IKILLATDNHIGYLERDPIRGQDSINTFREILQLAVKNEVDFILLAGDLFHENKPSRDCL 82
Query: 61 ITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAKDWLDYNNLHLRTSL 109
+LRE + +K + + D K ++ ++Y + + S+
Sbjct: 83 YQTLALLREYTLGDKPIQVELLSDPDEGKAAGFSFPAINYEDPNFNISI 131
emb|CAA98292.1| (Z73978) predicted using Genefinder; Similarity to Human MRE11
protein (TR:G1049320); cDNA EST EMBL:D65231 comes from
this gene; cDNA EST EMBL:D68586 comes from this gene;
cDNA EST yk323f11.3 comes from this gene; cDNA EST yk...
Length = 772
Score = 42.2 bits (97), Expect = 0.007
Identities = 28/94 (29%), Positives = 46/94 (48%), Gaps = 9/94 (9%)
Query: 1 MKFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESV 60
+K L +D H G N ++ + FE++L +A + +VD I++ GDL+ PS E
Sbjct: 110 IKILVATDIHCGYGENKANIHMDAVNTFEEVLQIATEQKVDMILLGGDLFHENNPSREVQ 169
Query: 61 ITFNQMLREMNIIEKFPIYMISGNHDGAKRLSYA 94
Q+LR+ Y ++GN + LS A
Sbjct: 170 HRVTQLLRQ---------YCLNGNPIALEFLSDA 194
ref|NP_005581.1|| meiotic recombination (S. cerevisiae) 11 homolog A
>gi|6226647|sp|P49959|MR11_HUMAN DOUBLE-STRAND BREAK
REPAIR PROTEIN MRE11A (MRE11 HOMOLOG 1) >gi|3912938
(U37359) MRE11 homologue hMre11 [Homo sapiens]
Length = 680
Score = 41.8 bits (96), Expect = 0.010
Identities = 28/109 (25%), Positives = 58/109 (52%), Gaps = 3/109 (2%)
Query: 2 KFLHTSDWHIGRTLNGFSLLEEQKYAFEQILSLAKQNQVDGIIIAGDLYERAVPSAESVI 61
K L +D H+G + + ++IL LA++N+VD I++ GDL+ PS +++
Sbjct: 14 KILVATDIHLGFMEKDAARGNDTFVTLDEILRLAQENEVDFILLGGDLFHENKPSRKTLH 73
Query: 62 TFNQMLREMNIIEKFPIYMISGNHDGAKRLSYAK-DWLDYNNLHLRTSL 109
T ++LR+ + ++ + I D + ++K W++Y + +L S+
Sbjct: 74 TCLELLRKYCMGDRPVQFEILS--DQSVNFGFSKFPWVNYQDGNLNISI 120
Posted date: Mar 2, 2000 12:24 PM
Number of letters in database: 140,871,481
Number of sequences in database: 457,798
Lambda K H
0.317 0.134 0.374
Gapped
Lambda K H
0.270 0.0470 0.230
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 102053246
Number of Sequences: 457798
Number of extensions: 4186476
Number of successful extensions: 12298
Number of sequences better than 1.0e-02: 22
Number of HSP's better than 0.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 12247
Number of HSP's gapped (non-prelim): 34
length of query: 390
length of database: 140,871,481
effective HSP length: 59
effective length of query: 331
effective length of database: 113,861,399
effective search space: 37688123069
effective search space used: 37688123069
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.7 bits)
S2: 96 (41.8 bits)