BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15646074|ref|NP_208256.1| ABC transporter,
ATP-binding protein (HI1087) [Helicobacter pylori 26695]
(261 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1B0U|A Chain A, Atp-Binding Subunit Of The Histidine Pe... 144 8e-36
pdb|1L2T|A Chain A, Dimeric Structure Of Mj0796, A Bacteria... 116 2e-27
pdb|1F3O|A Chain A, Crystal Structure Of Mj0796 Atp-Binding... 115 5e-27
pdb|1G29|1 Chain 1, Malk >gi|12084695|pdb|1G29|2 Chain 2, Malk 96 3e-21
pdb|1GAJ|A Chain A, Crystal Structure Of A Nucleotide-Free ... 86 4e-18
pdb|1G6H|A Chain A, Crystal Structure Of The Adp Conformati... 86 4e-18
pdb|1JI0|A Chain A, Crystal Structure Analysis Of The Abc T... 86 6e-18
pdb|1JJ7|A Chain A, Crystal Structure Of The C-Terminal Atp... 84 2e-17
pdb|1JSQ|A Chain A, Structure Of Msba From Escherichia Coli... 74 2e-14
pdb|1L7V|C Chain C, Bacterial Abc Transporter Involved In B... 39 5e-04
pdb|1E69|A Chain A, Smc Head Domain From Thermotoga Maritim... 33 0.043
pdb|1II8|B Chain B, Crystal Structure Of The P. Furiosus Ra... 29 0.63
pdb|1F2U|B Chain B, Crystal Structure Of Rad50 Abc-Atpase >... 29 0.63
pdb|1E0J|B Chain B, Gp4d Helicase From Phage T7 Adpnp Compl... 27 2.4
pdb|1CR1|A Chain A, Crystal Structure Of The Helicase Domai... 27 2.4
pdb|1KZL|A Chain A, Riboflavin Synthase From S.Pombe Bound ... 25 6.9
pdb|1H2R|L Chain L, Three-Dimensional Structure Of Ni-Fe Hy... 25 6.9
pdb|1J8M|F Chain F, Signal Recognition Particle Conserved G... 25 6.9
pdb|1J8Y|F Chain F, Signal Recognition Particle Conserved G... 25 6.9
pdb|1H2A|L Chain L, Single Crystals Of Hydrogenase From Des... 25 6.9
pdb|1G7T|A Chain A, X-Ray Structure Of Translation Initiati... 25 9.1
>pdb|1B0U|A Chain A, Atp-Binding Subunit Of The Histidine Permease From
Salmonella Typhimurium
Length = 262
Score = 144 bits (364), Expect = 8e-36
Identities = 88/246 (35%), Positives = 135/246 (54%), Gaps = 11/246 (4%)
Query: 10 IEVKDLHSAFGSTIIHRGVSFSVHKGEVMAILGGSGSGKSTLLRCMILLNRPTKGEVLLF 69
+ V DLH +G + +GVS G+V++I+G SGSGKST LRC+ L +P++G +++
Sbjct: 7 LHVIDLHKRYGGHEVLKGVSLQARAGDVISIIGSSGSGKSTFLRCINFLEKPSEGAIIVN 66
Query: 70 GEDI-------WKLKEAEQQKIF---NRCGICFQFGALYSSLTVLENVGVMLEQYGAYSK 119
G++I +LK A++ ++ R + FQ L+S +TVLENV Q SK
Sbjct: 67 GQNINLVRDKDGQLKVADKNQLRLLRTRLTMVFQHFNLWSHMTVLENVMEAPIQVLGLSK 126
Query: 120 KIVEEISKMWIEKVGLPPRAYHLYPYELSGGMKKRVGIARAMATNPEILFLDEPTSGLDP 179
E + ++ KVG+ RA YP LSGG ++RV IARA+A P++L DEPTS LDP
Sbjct: 127 HDARERALKYLAKVGIDERAQGKYPVHLSGGQQQRVSIARALAMEPDVLLFDEPTSALDP 186
Query: 180 YSAGKFDELIMTLKESLQLTVVMITHDLDSVHDCVDRFIMLKDGLLEFNGDLKDFIKKAQ 239
G+ ++ L E + T+V++TH++ I L G +E GD + Q
Sbjct: 187 ELVGEVLRIMQQLAEEGK-TMVVVTHEMGFARHVSSHVIFLHQGKIEEEGDPEQVFGNPQ 245
Query: 240 TQGLDE 245
+ L +
Sbjct: 246 SPRLQQ 251
>pdb|1L2T|A Chain A, Dimeric Structure Of Mj0796, A Bacterial Abc Transporter
Cassette
pdb|1L2T|B Chain B, Dimeric Structure Of Mj0796, A Bacterial Abc Transporter
Cassette
Length = 235
Score = 116 bits (291), Expect = 2e-27
Identities = 84/233 (36%), Positives = 132/233 (56%), Gaps = 8/233 (3%)
Query: 9 LIEVKDLHSAF--GSTIIH--RGVSFSVHKGEVMAILGGSGSGKSTLLRCMILLNRPTKG 64
+I++K++ + G II+ + V+ ++ +GE ++I+G SGSGKST+L + L++PT+G
Sbjct: 1 MIKLKNVTKTYKMGEEIIYALKNVNLNIKEGEFVSIMGPSGSGKSTMLNIIGCLDKPTEG 60
Query: 65 EVLLFGEDIWKLKEAEQQKIF-NRCGICFQFGALYSSLTVLENVGVML--EQYGAYSKKI 121
EV + L + E KI ++ G FQ L LT LENV + L + GA S +
Sbjct: 61 EVYIDNIKTNDLDDDELTKIRRDKIGFVFQQFNLIPLLTALENVELPLIFKYRGAMSGEE 120
Query: 122 VEEISKMWIEKVGLPPRAYHLYPYELSGGMKKRVGIARAMATNPEILFLDEPTSGLDPYS 181
+ + ++ L R + P +LSGG ++RV IARA+A NP I+ D+PT LD +
Sbjct: 121 RRKRALECLKMAELEERFANHKPNQLSGGQQQRVAIARALANNPPIILADQPTGALDSKT 180
Query: 182 AGKFDELIMTLKESLQLTVVMITHDLDSVHDCVDRFIMLKDGLLEFNGDLKDF 234
K +L+ L E TVV++THD+ +V +R I LKDG +E L+ F
Sbjct: 181 GEKIMQLLKKLNEEDGKTVVVVTHDI-NVARFGERIIYLKDGEVEREEKLRGF 232
>pdb|1F3O|A Chain A, Crystal Structure Of Mj0796 Atp-Binding Cassette
Length = 235
Score = 115 bits (288), Expect = 5e-27
Identities = 85/232 (36%), Positives = 129/232 (54%), Gaps = 8/232 (3%)
Query: 10 IEVKDLHSAF--GSTIIH--RGVSFSVHKGEVMAILGGSGSGKSTLLRCMILLNRPTKGE 65
I++K++ + G II+ + V+ ++ +GE ++I G SGSGKST L + L++PT+GE
Sbjct: 2 IKLKNVTKTYKXGEEIIYALKNVNLNIKEGEFVSIXGPSGSGKSTXLNIIGCLDKPTEGE 61
Query: 66 VLLFGEDIWKLKEAEQQKIF-NRCGICFQFGALYSSLTVLENVGVML--EQYGAYSKKIV 122
V + L + E KI ++ G FQ L LT LENV + L + GA S +
Sbjct: 62 VYIDNIKTNDLDDDELTKIRRDKIGFVFQQFNLIPLLTALENVELPLIFKYRGAXSGEER 121
Query: 123 EEISKMWIEKVGLPPRAYHLYPYELSGGMKKRVGIARAMATNPEILFLDEPTSGLDPYSA 182
+ + ++ L R + P +LSGG ++RV IARA+A NP I+ DEPT LD +
Sbjct: 122 RKRALECLKXAELEERFANHKPNQLSGGQQQRVAIARALANNPPIILADEPTGALDSKTG 181
Query: 183 GKFDELIMTLKESLQLTVVMITHDLDSVHDCVDRFIMLKDGLLEFNGDLKDF 234
K +L+ L E TVV++THD+ +V +R I LKDG +E L+ F
Sbjct: 182 EKIXQLLKKLNEEDGKTVVVVTHDI-NVARFGERIIYLKDGEVEREEKLRGF 232
>pdb|1G29|1 Chain 1, Malk
pdb|1G29|2 Chain 2, Malk
Length = 372
Score = 96.3 bits (238), Expect = 3e-21
Identities = 66/222 (29%), Positives = 111/222 (49%), Gaps = 11/222 (4%)
Query: 10 IEVKDLHSAFGSTIIHRGVSFSVHKGEVMAILGGSGSGKSTLLRCMILLNRPTKGEVLLF 69
+ + D+ FG R +S V GE M +LG SG GK+T LR + L P++G++ +
Sbjct: 4 VRLVDVWKVFGEVTAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQIYI- 62
Query: 70 GEDIWKLKEAEQQKIF-----NRCGICFQFGALYSSLTVLENVGVMLEQYGAYSKKIVEE 124
G+ KL ++ IF + FQ ALY +TV +N+ L+ ++I +
Sbjct: 63 GD---KLVADPEKGIFVPPKDRDIAMVFQSYALYPHMTVYDNIAFPLKLRKVPRQEIDQR 119
Query: 125 ISKMWIEKVGLPPRAYHLYPYELSGGMKKRVGIARAMATNPEILFLDEPTSGLDPYSAGK 184
+ ++ E +GL + P ELSGG ++RV + RA+ P++ +DEP S LD +
Sbjct: 120 VREV-AELLGLT-ELLNRKPRELSGGQRQRVALGRAIVRKPQVFLMDEPLSNLDAKLRVR 177
Query: 185 FDELIMTLKESLQLTVVMITHDLDSVHDCVDRFIMLKDGLLE 226
+ L+ L +T + +THD DR ++ G+L+
Sbjct: 178 MRAELKKLQRQLGVTTIYVTHDQVEAMTMGDRIAVMNRGVLQ 219
>pdb|1GAJ|A Chain A, Crystal Structure Of A Nucleotide-Free Atp-Binding
Cassette From An Abc Transporter
Length = 257
Score = 85.9 bits (211), Expect = 4e-18
Identities = 73/243 (30%), Positives = 119/243 (48%), Gaps = 22/243 (9%)
Query: 9 LIEVKDLHSAFGSTIIHRGVSFSVHKGEVMAILGGSGSGKSTLLRCMILLNRPTKGEVLL 68
++ +++ FG GVS SV+KG+V I+G +GSGKSTL+ + + +G V
Sbjct: 7 ILRTENIVKYFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYF 66
Query: 69 FGEDIWKLKEAEQQKIFNRCGI--CFQFGALYSSLTVLENVGVMLEQYGAYSKKIVEEIS 126
+DI + AE GI FQ +TVLEN +++ + +
Sbjct: 67 ENKDITNKEPAE----LYHYGIVRTFQTPQPLKEMTVLEN--LLIGEINPGESPLNSLFY 120
Query: 127 KMWIEK-VGLPPRAY---------HLYPY---ELSGGMKKRVGIARAMATNPEILFLDEP 173
K WI K + +A+ HLY ELSGG K V I RA+ TNP+++ +D+P
Sbjct: 121 KKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKMIVMDQP 180
Query: 174 TSGLDPYSAGKFDELIMTLKESLQLTVVMITHDLDSVHDCVDRFIMLKDGLLEFNGDLKD 233
+G+ P A ++ LK + +T ++I H LD V + +D ++ +G + G ++
Sbjct: 181 IAGVAPGLAHDIFNHVLELK-AKGITFLIIEHRLDIVLNYIDHLYVMFNGQIIAEGRGEE 239
Query: 234 FIK 236
IK
Sbjct: 240 EIK 242
>pdb|1G6H|A Chain A, Crystal Structure Of The Adp Conformation Of Mj1267, An
Atp- Binding Cassette Of An Abc Transporter
Length = 257
Score = 85.9 bits (211), Expect = 4e-18
Identities = 74/243 (30%), Positives = 119/243 (48%), Gaps = 22/243 (9%)
Query: 9 LIEVKDLHSAFGSTIIHRGVSFSVHKGEVMAILGGSGSGKSTLLRCMILLNRPTKGEVLL 68
++ +++ FG GVS SV+KG+V I+G +GSGKSTL+ + + +G V
Sbjct: 7 ILRTENIVKYFGEFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYF 66
Query: 69 FGEDIWKLKEAEQQKIFNRCGI--CFQFGALYSSLTVLENVGVMLEQYGAYSKKIVEEIS 126
+DI + AE GI FQ +TVLEN +++ + +
Sbjct: 67 ENKDITNKEPAE----LYHYGIVRTFQTPQPLKEMTVLEN--LLIGEICPGESPLNSLFY 120
Query: 127 KMWIEK-VGLPPRAY---------HLYPY---ELSGGMKKRVGIARAMATNPEILFLDEP 173
K WI K + +A+ HLY ELSGG K V I RA+ TNP+++ +DEP
Sbjct: 121 KKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKMIVMDEP 180
Query: 174 TSGLDPYSAGKFDELIMTLKESLQLTVVMITHDLDSVHDCVDRFIMLKDGLLEFNGDLKD 233
+G+ P A ++ LK + +T ++I H LD V + +D ++ +G + G ++
Sbjct: 181 IAGVAPGLAHDIFNHVLELK-AKGITFLIIEHRLDIVLNYIDHLYVMFNGQIIAEGRGEE 239
Query: 234 FIK 236
IK
Sbjct: 240 EIK 242
>pdb|1JI0|A Chain A, Crystal Structure Analysis Of The Abc Transporter From
Thermotoga Maritima
Length = 240
Score = 85.5 bits (210), Expect = 6e-18
Identities = 58/196 (29%), Positives = 102/196 (51%), Gaps = 18/196 (9%)
Query: 6 NQVLIEVKDLHSAFGSTIIHRGVSFSVHKGEVMAILGGSGSGKSTLLRCMILLNRPTKGE 65
+ +++EV+ LH +G+ +G+ V +G+++ ++G +G+GK+T L + L R KG+
Sbjct: 3 SDIVLEVQSLHVYYGAIHAIKGIDLKVPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKGK 62
Query: 66 VLLFGEDIWKLKEAEQQKIFNRCGICF--QFGALYSSLTVLENVGVMLEQYGAYSKKIVE 123
++ G+DI + + NR GI + ++ LTV EN+ GAY++K E
Sbjct: 63 IIFNGQDITN----KPAHVINRXGIALVPEGRRIFPELTVYENL-----XXGAYNRKDKE 113
Query: 124 EISK--MWIEKVGLPPRAYHLYPY---ELSGGMKKRVGIARAMATNPEILFLDEPTSGLD 178
I + WI L PR LSGG ++ + I RA+ + P++L DEP+ GL
Sbjct: 114 GIKRDLEWI--FSLFPRLKERLKQLGGTLSGGEQQXLAIGRALXSRPKLLXXDEPSLGLA 171
Query: 179 PYSAGKFDELIMTLKE 194
P + E+I + +
Sbjct: 172 PILVSEVFEVIQKINQ 187
>pdb|1JJ7|A Chain A, Crystal Structure Of The C-Terminal Atpase Domain Of Human
Tap1
Length = 260
Score = 84.0 bits (206), Expect = 2e-17
Identities = 66/241 (27%), Positives = 122/241 (50%), Gaps = 22/241 (9%)
Query: 9 LIEVKDLHSAFGS---TIIHRGVSFSVHKGEVMAILGGSGSGKSTLLRCMILLNRPTKGE 65
L++ +D+ A+ + ++ +G++F++ GEV A++G +GSGKST+ + L +PT G+
Sbjct: 14 LVQFQDVSFAYPNRPDVLVLQGLTFTLRPGEVTALVGPNGSGKSTVAALLQNLYQPTGGQ 73
Query: 66 VLLFGEDIWKLKEAEQQKIFNRCGICFQFGALYSSLTVLENVGVMLEQYGAYSKKIVEEI 125
+LL G+ L + E + + + Q ++ ++ EN+ YG K +EEI
Sbjct: 74 LLLDGKP---LPQYEHRYLHRQVAAVGQEPQVFGR-SLQENIA-----YGLTQKPTMEEI 124
Query: 126 SKMWIEK-----VGLPPRAYHLYPYE----LSGGMKKRVGIARAMATNPEILFLDEPTSG 176
+ ++ + P+ Y E LSGG ++ V +ARA+ P +L LD+ TS
Sbjct: 125 TAAAVKSGAHSFISGLPQGYDTEVDEAGSQLSGGQRQAVALARALIRKPCVLILDDATSA 184
Query: 177 LDPYSAGKFDELIMTLKESLQLTVVMITHDLDSVHDCVDRFIMLKDGLLEFNGDLKDFIK 236
LD S + ++L+ E +V++IT L V D + L+ G + G + ++
Sbjct: 185 LDANSQLQVEQLLYESPERYSRSVLLITQHLSLVEQ-ADHILFLEGGAIREGGTHQQLME 243
Query: 237 K 237
K
Sbjct: 244 K 244
>pdb|1JSQ|A Chain A, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|B Chain B, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|C Chain C, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|D Chain D, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|E Chain E, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|F Chain F, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|G Chain G, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
pdb|1JSQ|H Chain H, Structure Of Msba From Escherichia Coli: A Homolog Of The
Multidrug Resistance Atp Binding Cassette (Abc)
Transporters
Length = 582
Score = 73.9 bits (180), Expect = 2e-14
Identities = 62/218 (28%), Positives = 111/218 (50%), Gaps = 17/218 (7%)
Query: 26 RGVSFSVHKGEVMAILGGSGSGKSTLLRCMILLNRPTKGEVLLFGEDIWKLKEAEQQKIF 85
R ++ + G+ +A++G SGSGKST+ + +GE+L+ G D L+E +
Sbjct: 360 RNINLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGEILMDGHD---LREYTLASLR 416
Query: 86 NRCGICFQFGALYSSLTVLENVGVMLEQYGAYSKKIVEEISKM-----WIEKV--GLPPR 138
N+ + Q L++ TV N+ + YS++ +EE ++M +I K+ GL
Sbjct: 417 NQVALVSQNVHLFND-TVANNIAYARTEQ--YSREQIEEAARMAYAMDFINKMDNGLDT- 472
Query: 139 AYHLYPYELSGGMKKRVGIARAMATNPEILFLDEPTSGLDPYSAGKFDELIMTLKESLQL 198
LSGG ++R+ IARA+ + IL LDE TS LD S + L+++
Sbjct: 473 VIGENGVLLSGGQRQRIAIARALLRDSPILILDEATSALDTESERAIQAALDELQKN--R 530
Query: 199 TVVMITHDLDSVHDCVDRFIMLKDGLLEFNGDLKDFIK 236
T ++I H L ++ + D ++++DG++ G D ++
Sbjct: 531 TSLVIAHRLSTI-EKADEIVVVEDGVIVERGTHNDLLE 567
>pdb|1L7V|C Chain C, Bacterial Abc Transporter Involved In B12 Uptake
pdb|1L7V|D Chain D, Bacterial Abc Transporter Involved In B12 Uptake
Length = 249
Score = 39.3 bits (90), Expect = 5e-04
Identities = 50/208 (24%), Positives = 89/208 (42%), Gaps = 29/208 (13%)
Query: 28 VSFSVHKGEVMAILGGSGSGKSTLLRCMILLNRPTKGEVLLFGE--DIWKLKEAEQQKIF 85
+S V GE++ ++G +G+GKSTLL KG + G+ + W + + +
Sbjct: 19 LSGEVRAGEILHLVGPNGAGKSTLL-ARXAGXTSGKGSIQFAGQPLEAWSATKLALHRAY 77
Query: 86 NRCGICFQFGA-LYSSLTVLENVGVMLEQYGAYSKKIVEEISKMWI--EKVGLPPRAYHL 142
F ++ LT L Q+ +++ +++ +K+G
Sbjct: 78 LSQQQTPPFATPVWHYLT--------LHQHDKTRTELLNDVAGALALDDKLGRSTN---- 125
Query: 143 YPYELSGGMKKRVGIARAM-----ATNP--EILFLDEPTSGLDPYSAGKFDELIMTLKES 195
+LSGG +RV +A + NP ++L LDEP + LD D+++ L +
Sbjct: 126 ---QLSGGEWQRVRLAAVVLQITPQANPAGQLLLLDEPXNSLDVAQQSALDKILSALCQQ 182
Query: 196 LQLTVVMITHDLDSVHDCVDRFIMLKDG 223
L +V +HDL+ R +LK G
Sbjct: 183 -GLAIVXSSHDLNHTLRHAHRAWLLKGG 209
>pdb|1E69|A Chain A, Smc Head Domain From Thermotoga Maritima
pdb|1E69|B Chain B, Smc Head Domain From Thermotoga Maritima
pdb|1E69|C Chain C, Smc Head Domain From Thermotoga Maritima
pdb|1E69|D Chain D, Smc Head Domain From Thermotoga Maritima
pdb|1E69|E Chain E, Smc Head Domain From Thermotoga Maritima
pdb|1E69|F Chain F, Smc Head Domain From Thermotoga Maritima
Length = 322
Score = 32.7 bits (73), Expect = 0.043
Identities = 27/65 (41%), Positives = 36/65 (54%), Gaps = 8/65 (12%)
Query: 147 LSGGMKKRVGIA---RAMATNPEILF-LDEPTSGLDPYSAGKFDELIMTLKESLQLT-VV 201
LSGG K VG+A M P + LDE S LD Y+A +F L LKE+ + T +
Sbjct: 220 LSGGEKALVGLALLFALMEIKPSPFYVLDEVDSPLDDYNAERFKRL---LKENSKHTQFI 276
Query: 202 MITHD 206
+ITH+
Sbjct: 277 VITHN 281
>pdb|1II8|B Chain B, Crystal Structure Of The P. Furiosus Rad50 Atpase Domain
Length = 174
Score = 28.9 bits (63), Expect = 0.63
Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 8/80 (10%)
Query: 147 LSGGMKKRVGIARAMATNP------EILFLDEPTSGLDPYSAGKFDELIMTLKESLQLTV 200
LSGG + +G+A +A + +L LDEPT LD K ++ + + V
Sbjct: 84 LSGGERIALGLAFRLAMSLYLAGEISLLILDEPTPYLDEERRRKLITIMERYLKKIP-QV 142
Query: 201 VMITHDLDSVHDCVDRFIML 220
++++HD + + D D I +
Sbjct: 143 ILVSHD-EELKDAADHVIRI 161
>pdb|1F2U|B Chain B, Crystal Structure Of Rad50 Abc-Atpase
pdb|1F2T|B Chain B, Crystal Structure Of Atp-Free Rad50 Abc-Atpase
pdb|1F2U|D Chain D, Crystal Structure Of Rad50 Abc-Atpase
Length = 148
Score = 28.9 bits (63), Expect = 0.63
Identities = 22/80 (27%), Positives = 39/80 (48%), Gaps = 8/80 (10%)
Query: 147 LSGGMKKRVGIARAMATNP------EILFLDEPTSGLDPYSAGKFDELIMTLKESLQLTV 200
LSGG + +G+A +A + +L LDEPT LD K ++ + + V
Sbjct: 58 LSGGERIALGLAFRLAMSLYLAGEISLLILDEPTPYLDEERRRKLITIMERYLKKIP-QV 116
Query: 201 VMITHDLDSVHDCVDRFIML 220
++++HD + + D D I +
Sbjct: 117 ILVSHD-EELKDAADHVIRI 135
>pdb|1E0J|B Chain B, Gp4d Helicase From Phage T7 Adpnp Complex
pdb|1E0J|C Chain C, Gp4d Helicase From Phage T7 Adpnp Complex
pdb|1E0J|E Chain E, Gp4d Helicase From Phage T7 Adpnp Complex
pdb|1E0J|F Chain F, Gp4d Helicase From Phage T7 Adpnp Complex
pdb|1E0K|A Chain A, Gp4d Helicase From Phage T7
pdb|1E0K|B Chain B, Gp4d Helicase From Phage T7
pdb|1E0K|C Chain C, Gp4d Helicase From Phage T7
pdb|1E0K|D Chain D, Gp4d Helicase From Phage T7
pdb|1E0K|E Chain E, Gp4d Helicase From Phage T7
pdb|1E0K|F Chain F, Gp4d Helicase From Phage T7
pdb|1E0J|A Chain A, Gp4d Helicase From Phage T7 Adpnp Complex
pdb|1E0J|D Chain D, Gp4d Helicase From Phage T7 Adpnp Complex
Length = 289
Score = 26.9 bits (58), Expect = 2.4
Identities = 11/19 (57%), Positives = 14/19 (72%)
Query: 35 GEVMAILGGSGSGKSTLLR 53
GEV+ + GSG GKST +R
Sbjct: 45 GEVIMVTSGSGMGKSTFVR 63
>pdb|1CR1|A Chain A, Crystal Structure Of The Helicase Domain Of The Gene 4
Protein Of Bacteriophage T7: Complex With Dttp
pdb|1CR4|A Chain A, Crystal Structure Of The Helicase Domain Of The Gene 4
Protein Of Bacteriophage T7: Complex With Dtdp
pdb|1CR2|A Chain A, Crystal Structure Of The Helicase Domain Of The Gene 4
Protein Of Bacteriophage T7: Complex With Datp
pdb|1CR0|A Chain A, Crystal Structure Of The Helicase Domain Of The Gene4
Protein Of Bacteriophage T7
Length = 296
Score = 26.9 bits (58), Expect = 2.4
Identities = 11/19 (57%), Positives = 14/19 (72%)
Query: 35 GEVMAILGGSGSGKSTLLR 53
GEV+ + GSG GKST +R
Sbjct: 35 GEVIMVTSGSGMGKSTFVR 53
>pdb|1KZL|A Chain A, Riboflavin Synthase From S.Pombe Bound To
Carboxyethyllumazine
Length = 208
Score = 25.4 bits (54), Expect = 6.9
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 107 VGVMLEQYGAYSKKIVEEISKMWIEK 132
V V ++Q G Y++K+VE WI+K
Sbjct: 180 VNVEVDQIGKYTEKLVEAHIADWIKK 205
>pdb|1H2R|L Chain L, Three-Dimensional Structure Of Ni-Fe Hydrogenase From
Desulfivibrio Vulgaris Miyazaki F In The Reduced Form At
1.4 A Resolution
Length = 534
Score = 25.4 bits (54), Expect = 6.9
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 4/58 (6%)
Query: 65 EVLLFGEDIWKLKEAEQQKIFNRCGICFQFGALYSSLTVLENVGVMLEQYGAYSKKIV 122
E++L G D + Q+ CG+C AL S+ V VGV + + Y + +V
Sbjct: 44 EIILKGRDPRDAQHFTQRT----CGVCTYTHALASTRCVDNAVGVHIPKNATYIRNLV 97
>pdb|1J8M|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens
Length = 297
Score = 25.4 bits (54), Expect = 6.9
Identities = 35/168 (20%), Positives = 65/168 (37%), Gaps = 20/168 (11%)
Query: 37 VMAILGGSGSGKSTLLRCMILLNRPTKGEVLLFGEDIWKLKEAEQQKIFNRCGICFQFGA 96
V+ ++G G+GK+T + + +V L G D+++ EQ + Q G
Sbjct: 100 VIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQ---------QLG- 149
Query: 97 LYSSLTVLENVGVMLEQYGAYSKKIVEEISKMWIEKVGLPPRAYHLYPYELSGGMKKRVG 156
+ +GV + YG +K V I+K +EK + G +
Sbjct: 150 --------QQIGVPV--YGEPGEKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAA 199
Query: 157 IARAMATNPEILFLDEPTSGLDPYSAGKFDELIMTLKESLQLTVVMIT 204
+ M E + DE T +D K +L ++ ++ ++IT
Sbjct: 200 LLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIIT 247
>pdb|1J8Y|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens T112a Mutant
Length = 297
Score = 25.4 bits (54), Expect = 6.9
Identities = 35/168 (20%), Positives = 65/168 (37%), Gaps = 20/168 (11%)
Query: 37 VMAILGGSGSGKSTLLRCMILLNRPTKGEVLLFGEDIWKLKEAEQQKIFNRCGICFQFGA 96
V+ ++G G+GK+T + + +V L G D+++ EQ + Q G
Sbjct: 100 VIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQ---------QLG- 149
Query: 97 LYSSLTVLENVGVMLEQYGAYSKKIVEEISKMWIEKVGLPPRAYHLYPYELSGGMKKRVG 156
+ +GV + YG +K V I+K +EK + G +
Sbjct: 150 --------QQIGVPV--YGEPGEKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAA 199
Query: 157 IARAMATNPEILFLDEPTSGLDPYSAGKFDELIMTLKESLQLTVVMIT 204
+ M E + DE T +D K +L ++ ++ ++IT
Sbjct: 200 LLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIIT 247
>pdb|1H2A|L Chain L, Single Crystals Of Hydrogenase From Desulfovibrio Vulgaris
Length = 567
Score = 25.4 bits (54), Expect = 6.9
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 4/58 (6%)
Query: 65 EVLLFGEDIWKLKEAEQQKIFNRCGICFQFGALYSSLTVLENVGVMLEQYGAYSKKIV 122
E++L G D + Q+ CG+C AL S+ V VGV + + Y + +V
Sbjct: 62 EIILKGRDPRDAQHFTQRT----CGVCTYTHALASTRCVDNAVGVHIPKNATYIRNLV 115
>pdb|1G7T|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B
Complexed With Gdpnp
pdb|1G7S|A Chain A, X-Ray Structure Of Translation Initiation Factor If2EIF5B
Complexed With Gdp
Length = 594
Score = 25.0 bits (53), Expect = 9.1
Identities = 13/47 (27%), Positives = 24/47 (50%), Gaps = 1/47 (2%)
Query: 110 MLEQYGAYSKKIVEEISKMWIEKVGLPPRAYHLYPYELSGGMKKRVG 156
++E+Y + + I EE K W+E + + P + L P + K +G
Sbjct: 437 LMEEYEEWVRGIEEEKKKKWMEAI-IKPASIRLIPKLVFRQSKPAIG 482
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.320 0.139 0.408
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,556,050
Number of Sequences: 13198
Number of extensions: 63248
Number of successful extensions: 225
Number of sequences better than 10.0: 21
Number of HSP's better than 10.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 200
Number of HSP's gapped (non-prelim): 22
length of query: 261
length of database: 2,899,336
effective HSP length: 86
effective length of query: 175
effective length of database: 1,764,308
effective search space: 308753900
effective search space used: 308753900
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)