BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 046345
(1462 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 56/239 (23%), Positives = 104/239 (43%), Gaps = 20/239 (8%)
Query: 181 IGVYGMGGVGKTTLVKQVAK-QVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
+ +YGM G GK+ L + + + + F V D + KL +L M
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQ-NLCMRLDQ 208
Query: 240 NENTFQKAYRLCERLKKEKKVLIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIILT 299
E+ Q+ E K +VL++ + + L LD V P+ K ++ C I+LT
Sbjct: 209 EESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPW-----VLKAFDNQCQILLT 263
Query: 300 SRNRDLLEKDMKSQKNFLIEV-LSKDEALQLFECIVGDSAKTSAIQPIADEIVERCEGLP 358
+R++ + + M + +E L +++ L++ V + K + A I++ C+G P
Sbjct: 264 TRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV--NMKKEDLPAEAHSIIKECKGSP 321
Query: 359 VALSTIANALKSKSLDFWKDALYRLRSSNAREIHGMRANVFTSIELSYNLLEIEEAKSL 417
+ +S I L+ DF Y LR ++ +R + SY+ ++EA S+
Sbjct: 322 LVVSLIGALLR----DFPNRWAYYLRQLQNKQFKRIRKSS------SYDYEALDEAMSI 370
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/165 (24%), Positives = 76/165 (46%), Gaps = 27/165 (16%)
Query: 254 LKKEKKVLIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIILTSRNRDLLEKDMKSQ 313
L+K + L+ILD++W L K +S C I+LT+R++ + + M +
Sbjct: 232 LRKHPRSLLILDDVWDSWVL--------------KAFDSQCQILLTTRDKSVTDSVMGPK 277
Query: 314 KNFLIE-VLSKDEALQLFECIVGDSAKTSAIQPIADEIVERCEGLPVALSTIANALKSKS 372
+E L K++ L++ V + K + + A I++ C+G P+ +S I L+
Sbjct: 278 YVVPVESSLGKEKGLEILSLFV--NMKKADLPEQAHSIIKECKGSPLVVSLIGALLR--- 332
Query: 373 LDFWKDALYRLRSSNAREIHGMRANVFTSIELSYNLLEIEEAKSL 417
DF Y L+ ++ +R + SY+ ++EA S+
Sbjct: 333 -DFPNRWEYYLKQLQNKQFKRIRKSS------SYDYEALDEAMSI 370
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 55/239 (23%), Positives = 103/239 (43%), Gaps = 20/239 (8%)
Query: 181 IGVYGMGGVGKTTLVKQVAK-QVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
+ +YGM G GK+ L + + + + F V D + KL +L M
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQ-NLCMRLDQ 215
Query: 240 NENTFQKAYRLCERLKKEKKVLIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIILT 299
E+ Q+ E K +VL++ + + L LD V P+ K ++ C I+LT
Sbjct: 216 EESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPW-----VLKAFDNQCQILLT 270
Query: 300 SRNRDLLEKDMKSQKNFLIEV-LSKDEALQLFECIVGDSAKTSAIQPIADEIVERCEGLP 358
+ ++ + + M + +E L +++ L++ V + K + A I++ C+G P
Sbjct: 271 TSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV--NMKKEDLPAEAHSIIKECKGSP 328
Query: 359 VALSTIANALKSKSLDFWKDALYRLRSSNAREIHGMRANVFTSIELSYNLLEIEEAKSL 417
+ +S I L+ DF Y LR ++ +R + SY+ ++EA S+
Sbjct: 329 LVVSLIGALLR----DFPNRWAYYLRQLQNKQFKRIRKSS------SYDYEALDEAMSI 377
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 40/165 (24%), Positives = 76/165 (46%), Gaps = 27/165 (16%)
Query: 254 LKKEKKVLIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIILTSRNRDLLEKDMKSQ 313
L+K + L+ILD++W L K +S C I+LT+R++ + + M +
Sbjct: 238 LRKHPRSLLILDDVWDSWVL--------------KAFDSQCQILLTTRDKSVTDSVMGPK 283
Query: 314 KNFLIE-VLSKDEALQLFECIVGDSAKTSAIQPIADEIVERCEGLPVALSTIANALKSKS 372
+E L K++ L++ V + K + + A I++ C+G P+ +S I L+
Sbjct: 284 YVVPVESSLGKEKGLEILSLFV--NMKKADLPEQAHSIIKECKGSPLVVSLIGALLR--- 338
Query: 373 LDFWKDALYRLRSSNAREIHGMRANVFTSIELSYNLLEIEEAKSL 417
DF Y L+ ++ +R + SY+ ++EA S+
Sbjct: 339 -DFPNRWEYYLKQLQNKQFKRIRKSS------SYDYEALDEAMSI 376
>pdb|3AYX|A Chain A, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In An H2-Reduced Condition
pdb|3AYX|C Chain C, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In An H2-Reduced Condition
pdb|3AYY|A Chain A, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In A Ferricyanide-Oxidized
Condition
pdb|3AYY|C Chain C, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In A Ferricyanide-Oxidized
Condition
pdb|3AYZ|A Chain A, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In An Air-Oxidized Condition
pdb|3AYZ|C Chain C, Membrane-Bound Respiratory [nife] Hydrogenase From
Hydrogenovibrio Marinus In An Air-Oxidized Condition
Length = 596
Score = 35.8 bits (81), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 5/72 (6%)
Query: 407 NLLEIEEAKSLFLLCGLYSEGHAIQVPSLLRYGMGLCLFENVYKLEEARSRVHTLIDILK 466
N++EI+E+ + GHA++V L RY + +E +++VHT ++
Sbjct: 385 NIIEIDESAKYSWIKSPRWRGHAVEVGPLARY-----ILAYAQGVEYVKTQVHTSLNRFN 439
Query: 467 ASCLLSDGDAED 478
A C L D + +D
Sbjct: 440 AVCRLLDPNHKD 451
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 35.8 bits (81), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 48/102 (47%), Gaps = 3/102 (2%)
Query: 573 KVLDFTGIHFSSLPS-SLGRLTSLQTLCLHWCELEDI--AIVGQLKKLEILSFRDSDIKE 629
K LD SSLPS + RLT L+ L L+ +L+ + I +LK LE L D+ ++
Sbjct: 40 KKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQA 99
Query: 630 LPLEIGXXXXXXXXXXXXCWSLEVIAPNVISKLSRLEELYMG 671
LP+ + L+ + P V L++L L +G
Sbjct: 100 LPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLG 141
>pdb|1YQT|A Chain A, Rnase-L Inhibitor
Length = 538
Score = 33.1 bits (74), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 28/47 (59%), Gaps = 7/47 (14%)
Query: 153 VKDYEAFDSRMKVFQDVVEAAKDDKLNIIGVYGMGGVGKTTLVKQVA 199
VKDY +F R++V E + K +IG+ G G+GKTT VK +A
Sbjct: 294 VKDYGSF--RLEV-----EPGEIKKGEVIGIVGPNGIGKTTFVKXLA 333
>pdb|1SQ0|B Chain B, Crystal Structure Of The Complex Of The Wild-Type Von
Willebrand Factor A1 Domain And Glycoprotein Ib Alpha At
2.6 Angstrom Resolution
Length = 288
Score = 32.7 bits (73), Expect = 1.7, Method: Composition-based stats.
Identities = 29/92 (31%), Positives = 43/92 (46%), Gaps = 12/92 (13%)
Query: 552 DGSFPI---------SMQMSDLFFEGTEGLKVLDFTGIHFSSLP-SSLGRLTSLQTLCLH 601
DG+ P+ +Q L + L VLD + +SLP +L L LQ L L
Sbjct: 73 DGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLK 132
Query: 602 WCELEDI--AIVGQLKKLEILSFRDSDIKELP 631
EL+ + ++ KLE LS ++D+ ELP
Sbjct: 133 GNELKTLPPGLLTPTPKLEKLSLANNDLTELP 164
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 32.3 bits (72), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 14/68 (20%)
Query: 566 FEGTEGLKVLDFTGIHFSSLPSSLGRLTSLQTLCLHWCELED--------------IAIV 611
F GL+ LD T H S LPS L L++L+ L L + E+ ++I
Sbjct: 274 FHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIK 333
Query: 612 GQLKKLEI 619
G K+LE+
Sbjct: 334 GNTKRLEL 341
>pdb|3BK7|A Chain A, Structure Of The Complete Abce1RNAASE-L Inhibitor Protein
From Pyrococcus Abysii
Length = 607
Score = 32.3 bits (72), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 25/47 (53%), Gaps = 7/47 (14%)
Query: 153 VKDYEAFDSRMKVFQDVVEAAKDDKLNIIGVYGMGGVGKTTLVKQVA 199
VKDY +F VE + K +IG+ G G+GKTT VK +A
Sbjct: 364 VKDYGSFKLE-------VEPGEIRKGEVIGIVGPNGIGKTTFVKMLA 403
Score = 30.0 bits (66), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 5/40 (12%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVM-----EDKSFDKVVMA 214
++G+ G G GKTT VK +A Q++ ++ S+D V+ A
Sbjct: 119 VVGIVGPNGTGKTTAVKILAGQLIPNLCEDNDSWDNVIRA 158
>pdb|1U94|A Chain A, Crystal Structure Of E. Coli Reca In A Compressed Helical
Filament Form 2
pdb|1U98|A Chain A, "crystal Structure Of E. Coli Reca In A Compressed Helical
Filament Form3"
pdb|1U99|A Chain A, "crystal Structures Of E. Coli Reca In A Compressed
Helical Filament Form 4"
pdb|1XMS|A Chain A, "e. Coli Reca In Complex With Mnamp-Pnp"
pdb|1XMV|A Chain A, "e. Coli Reca In Complex With Mgadp"
Length = 356
Score = 32.0 bits (71), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 65 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 121
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 122 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 174
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 175 MSQAMRKLAGNLKQSNTLLI 194
>pdb|3J15|B Chain B, Model Of Ribosome-Bound Archaeal Pelota And Abce1
Length = 593
Score = 32.0 bits (71), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 25/47 (53%), Gaps = 7/47 (14%)
Query: 153 VKDYEAFDSRMKVFQDVVEAAKDDKLNIIGVYGMGGVGKTTLVKQVA 199
VKDY +F VE + K +IG+ G G+GKTT VK +A
Sbjct: 350 VKDYGSFKLE-------VEPGEIRKGEVIGIVGPNGIGKTTFVKMLA 389
>pdb|2QGZ|A Chain A, Crystal Structure Of A Putative Primosome Component From
Streptococcus Pyogenes Serotype M3. Northeast Structural
Genomics Target Dr58
Length = 308
Score = 32.0 bits (71), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 145 PRSTGHIQVKDYEAFD-SRMKVFQ---DVVEAAKDDKLNIIGVYGMGGVGKTTLVKQVAK 200
P+S HI + D + + SRM+ F D VE + + +YG G+GK+ L+ +A
Sbjct: 115 PKSYRHIHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAH 174
Query: 201 QVMEDKSFDKVVM 213
++ E K ++
Sbjct: 175 ELSEKKGVSTTLL 187
>pdb|2REC|A Chain A, Reca Hexamer Model, Electron Microscopy
pdb|2REC|B Chain B, Reca Hexamer Model, Electron Microscopy
pdb|2REC|C Chain C, Reca Hexamer Model, Electron Microscopy
pdb|2REC|D Chain D, Reca Hexamer Model, Electron Microscopy
pdb|2REC|E Chain E, Reca Hexamer Model, Electron Microscopy
pdb|2REC|F Chain F, Reca Hexamer Model, Electron Microscopy
Length = 353
Score = 32.0 bits (71), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 62 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 118
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 119 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 171
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 172 MSQAMRKLAGNLKQSNTLLI 191
>pdb|1N03|A Chain A, Model For Active Reca Filament
pdb|1N03|B Chain B, Model For Active Reca Filament
pdb|1N03|C Chain C, Model For Active Reca Filament
pdb|1N03|D Chain D, Model For Active Reca Filament
pdb|1N03|E Chain E, Model For Active Reca Filament
pdb|1N03|F Chain F, Model For Active Reca Filament
pdb|1N03|G Chain G, Model For Active Reca Filament
pdb|1REA|A Chain A, Structure Of The Reca Protein-Adp Complex
pdb|2REB|A Chain A, The Structure Of The E. Coli Reca Protein Monomer And
Polymer
Length = 352
Score = 32.0 bits (71), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 61 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 117
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 118 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 170
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 171 MSQAMRKLAGNLKQSNTLLI 190
>pdb|3CMV|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|B Chain B, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|C Chain C, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|D Chain D, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|E Chain E, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|F Chain F, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|G Chain G, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|H Chain H, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 1357
Score = 32.0 bits (71), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 36 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 92
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 93 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 145
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 146 MSQAMRKLAGNLKQSNTLLI 165
Score = 32.0 bits (71), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 385 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 441
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 442 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 494
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 495 MSQAMRKLAGNLKQSNTLLI 514
Score = 32.0 bits (71), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 734 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 790
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 791 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 843
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 844 MSQAMRKLAGNLKQSNTLLI 863
Score = 32.0 bits (71), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 1084 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 1140
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 1141 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 1193
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 1194 MSQAMRKLAGNLKQSNTLLI 1213
>pdb|3CMU|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 2050
Score = 32.0 bits (71), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 36 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 92
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 93 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 145
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 146 MSQAMRKLAGNLKQSNTLLI 165
Score = 32.0 bits (71), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 385 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 441
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 442 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 494
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 495 MSQAMRKLAGNLKQSNTLLI 514
Score = 32.0 bits (71), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 734 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 790
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 791 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 843
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 844 MSQAMRKLAGNLKQSNTLLI 863
Score = 32.0 bits (71), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 1083 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 1139
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 1140 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 1192
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 1193 MSQAMRKLAGNLKQSNTLLI 1212
Score = 32.0 bits (71), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 1429 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 1485
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 1486 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 1538
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 1539 MSQAMRKLAGNLKQSNTLLI 1558
Score = 32.0 bits (71), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 1777 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 1833
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 1834 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 1886
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 1887 MSQAMRKLAGNLKQSNTLLI 1906
>pdb|3CMT|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMT|D Chain D, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMW|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMW|C Chain C, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMX|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMX|D Chain D, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 1706
Score = 31.6 bits (70), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 36 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 92
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 93 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 145
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 146 MSQAMRKLAGNLKQSNTLLI 165
Score = 31.6 bits (70), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 385 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 441
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 442 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 494
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 495 MSQAMRKLAGNLKQSNTLLI 514
Score = 31.6 bits (70), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 734 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 790
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 791 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 843
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 844 MSQAMRKLAGNLKQSNTLLI 863
Score = 31.6 bits (70), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 1084 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 1140
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 1141 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 1193
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 1194 MSQAMRKLAGNLKQSNTLLI 1213
Score = 31.6 bits (70), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 180 IIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQKIQDKLAFDLGMEFGL 239
I+ +YG GKTTL QV + + AE P + + KL D+
Sbjct: 1433 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR---KLGVDIDNLLCS 1489
Query: 240 NENTFQKAYRLCERLKKEKKV-LIILDNIWTKLELDVVGIPYGDVEKERKDDESGCTIIL 298
+T ++A +C+ L + V +I++D++ P ++E E D G +
Sbjct: 1490 QPDTGEQALEICDALARSGAVDVIVVDSVAAL-------TPKAEIEGEIGDSHMGLAARM 1542
Query: 299 TSRNRDLLEKDMKSQKNFLI 318
S+ L ++K LI
Sbjct: 1543 MSQAMRKLAGNLKQSNTLLI 1562
>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli
Length = 295
Score = 31.6 bits (70), Expect = 3.1, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 7/57 (12%)
Query: 152 QVKDYEAFDSRMKVFQDVVEAAKDDKLNIIG-------VYGMGGVGKTTLVKQVAKQ 201
Q++D EA +K + A D+ LN+ G + G+ GVGKTT + ++A+Q
Sbjct: 60 QLRDAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTTTIGKLARQ 116
>pdb|2XXA|B Chain B, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
pdb|2XXA|D Chain D, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
Length = 302
Score = 31.6 bits (70), Expect = 3.3, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 7/57 (12%)
Query: 152 QVKDYEAFDSRMKVFQDVVEAAKDDKLNIIG-------VYGMGGVGKTTLVKQVAKQ 201
Q++D EA +K + A D+ LN+ G + G+ GVGKTT + ++A+Q
Sbjct: 65 QLRDAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTTTIGKLARQ 121
>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp
Receptor Ftsy
Length = 309
Score = 31.6 bits (70), Expect = 3.3, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 7/57 (12%)
Query: 152 QVKDYEAFDSRMKVFQDVVEAAKDDKLNIIG-------VYGMGGVGKTTLVKQVAKQ 201
Q++D EA +K + A D+ LN+ G + G+ GVGKTT + ++A+Q
Sbjct: 66 QLRDAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTTTIGKLARQ 122
>pdb|1YE8|A Chain A, Crystal Structure Of Thep1 From The Hyperthermophile
Aquifex Aeolicus
Length = 178
Score = 31.2 bits (69), Expect = 3.9, Method: Composition-based stats.
Identities = 47/175 (26%), Positives = 73/175 (41%), Gaps = 46/175 (26%)
Query: 181 IGVYGMGGVGKTTLVKQVAKQV-----------MEDKSFDKVVMAEVTQTPDHQKIQDKL 229
I + G GVGKTTLVK++ +++ + D K + T +KI
Sbjct: 3 IIITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKKKIFSSK 62
Query: 230 AF---DLGMEFGLNENTF--------QKAYRLCERLKKEKKVLIILDNI-----WTKLEL 273
F L +G+N F ++AYR KK+++ +II+D I ++K
Sbjct: 63 FFTSKKLVGSYGVNVQYFEELAIPILERAYR---EAKKDRRKVIIIDEIGKXELFSKKFR 119
Query: 274 DVV-------------GIPYGDVE---KERKDDESGCTIILTSRNRDLLEKDMKS 312
D+V IP DV KE + I LT NRD++ +D+ S
Sbjct: 120 DLVRQIXHDPNVNVVATIPIRDVHPLVKEIRRLPGAVLIELTPENRDVILEDILS 174
>pdb|3OZX|A Chain A, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
pdb|3OZX|B Chain B, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
Length = 538
Score = 30.8 bits (68), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 9/58 (15%)
Query: 166 FQDVVEAAKDDKLNIIGVYGMGGVGKTTLVKQVAKQVMEDKSFDKVVMAEVTQTPDHQ 223
FQ VV+ + + IIG+ G G+GKTT + + ++ D E + TP+ Q
Sbjct: 282 FQLVVDNGEAKEGEIIGILGPNGIGKTTFARILVGEITAD---------EGSVTPEKQ 330
>pdb|2QE7|D Chain D, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
pdb|2QE7|E Chain E, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
pdb|2QE7|F Chain F, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
Length = 462
Score = 30.4 bits (67), Expect = 7.6, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 5/64 (7%)
Query: 142 RPTPRSTGHIQVKDYEAFDSRMKVFQDVVEAAKDDKLNIIGVYGMGGVGKTTLVKQVAKQ 201
RP P + D E ++ +KV + AK K IG++G GVGKT L++++
Sbjct: 113 RPAPEFE-ELSTAD-EILETGIKVIDLLAPYAKGGK---IGLFGGAGVGKTVLIQELINN 167
Query: 202 VMED 205
V ++
Sbjct: 168 VAQE 171
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.137 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,057,527
Number of Sequences: 62578
Number of extensions: 1549161
Number of successful extensions: 3975
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 3934
Number of HSP's gapped (non-prelim): 67
length of query: 1462
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1351
effective length of database: 8,027,179
effective search space: 10844718829
effective search space used: 10844718829
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: 58 (26.9 bits)