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= 047503
(920 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 52.8 bits (125), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 79/334 (23%), Positives = 136/334 (40%), Gaps = 51/334 (15%)
Query: 197 VALVGQGGIGKTTLAGKLFNNQYVMNHFDCRA----WITVGRECMKKDLLIKMIKEFHQL 252
V + G G GK+ LA + + ++ C W++VG++ K LL+K+ +L
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLE--GCFPGGVHWVSVGKQ-DKSGLLMKLQNLCTRL 206
Query: 253 TGQSALGE---MNNMEEKDLIIAVRQYLHDKNYMIVLDDVWKIELWGDVEHALLDNKKGS 309
+ + +N E KD + + H ++ +++LDDVW + W L
Sbjct: 207 DQDESFSQRLPLNIEEAKDRLRILMLRKHPRS-LLILDDVW--DSW-----VLKAFDSQC 258
Query: 310 RIMLTTRHKAVADFCKQSSFVQVHE--LEALPAVEAWRLFCRKAFASVSDGGCPPELEKL 367
+I+LTTR K+V D +V E L +E LF A +L +
Sbjct: 259 QILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKA---------DLPEQ 309
Query: 368 SHEIVAKCGGLPLAIVAVGGLLSTKHGSVSEWRRSLEGLGSKL------GSDPHLKICSR 421
+H I+ +C G PL + +G LL + W L+ L +K S +
Sbjct: 310 AHSIIKECKGSPLVVSLIGALL---RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDE 366
Query: 422 VLSEGYHDLPHHLKSCLLYFGLFPQGYSISCARLIRLWIAEGFVPYSTRPPSEQLGEEYL 481
+S L +K + + + L LW E +E++ E+ L
Sbjct: 367 AMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME----------TEEV-EDIL 415
Query: 482 SELIDRSLVHVSRRARSCR--VHDLMHEIILEKT 513
E +++SL+ R +S R +HDL + + EK
Sbjct: 416 QEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKN 449
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 99/425 (23%), Positives = 177/425 (41%), Gaps = 58/425 (13%)
Query: 106 FFCFINVLKLHHGIASKIEVIKSSLADIQRRERHYSFRSIEQGSVSRTRNVISHD--PRV 163
+ F N L LH G +++S L + S + + G S R V+ P+
Sbjct: 68 YISFYNAL-LHEGYKDLAALLQSGLPLVSSS----SGKDTDGGITSFVRTVLCEGGVPQR 122
Query: 164 GSLFIEDDEVVGIESARDILIGWLVNGRKQRSVVALVGQGGIGKTTLAGKLFNNQYVMNH 223
+F+ ++V + W +NG + V + G G GK+ LA + + ++
Sbjct: 123 PVIFVTRKKLVHAIQQK----LWKLNG--EPGWVTIYGMAGCGKSVLAAEAVRDHSLLE- 175
Query: 224 FDCRA----WITVGRECMKKDLLIKMIKEFHQLTGQSALGE---MNNMEEKDLIIAVRQY 276
C + W+++G++ K LL+K+ +L + + + +N E KD + +
Sbjct: 176 -GCFSGGVHWVSIGKQ-DKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLR 233
Query: 277 LHDKNYMIVLDDVWKIELWGDVEHALLDNKKGSRIMLTTRHKAVADFCKQSSFVQVHE-- 334
H ++ +++LDDVW + W V A DN+ +I+LTTR K+V D V E
Sbjct: 234 KHPRS-LLILDDVW--DPW--VLKAF-DNQ--CQILLTTRDKSVTDSVMGPKHVVPVESG 285
Query: 335 LEALPAVEAWRLFCRKAFASVSDGGCPPELEKLSHEIVAKCGGLPLAIVAVGGLLSTKHG 394
L +E LF ++ P E +H I+ +C G PL + +G LL
Sbjct: 286 LGREKGLEILSLF-----VNMKKEDLPAE----AHSIIKECKGSPLVVSLIGALLRDFPN 336
Query: 395 SVSEWRRSLEGLGSKL---GSDPHLKICSRVLSEGYHDLPHHLKSCLLYFGLFPQGYSIS 451
+ + R L+ K S + +S L +K + + +
Sbjct: 337 RWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVP 396
Query: 452 CARLIRLWIAEGFVPYSTRPPSEQLGEEYLSELIDRSLVHVSRRARS-C-RVHDLMHEII 509
L LW E +E++ E+ L E +++SL+ +R +S C +HDL + +
Sbjct: 397 TKVLCVLWDLE----------TEEV-EDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFL 445
Query: 510 LEKTK 514
EK +
Sbjct: 446 TEKNR 450
>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 = 50.4 bits (119), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 79/334 (23%), Positives = 136/334 (40%), Gaps = 51/334 (15%)
Query: 197 VALVGQGGIGKTTLAGKLFNNQYVMNHFDCRA----WITVGRECMKKDLLIKMIKEFHQL 252
V + G G GK+ LA + + ++ C W++VG++ K LL+K+ +L
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLE--GCFPGGVHWVSVGKQ-DKSGLLMKLQNLCTRL 212
Query: 253 TGQSALGE---MNNMEEKDLIIAVRQYLHDKNYMIVLDDVWKIELWGDVEHALLDNKKGS 309
+ + +N E KD + + H ++ +++LDDVW + W L
Sbjct: 213 DQDESFSQRLPLNIEEAKDRLRILMLRKHPRS-LLILDDVW--DSW-----VLKAFDSQC 264
Query: 310 RIMLTTRHKAVADFCKQSSFVQVHE--LEALPAVEAWRLFCRKAFASVSDGGCPPELEKL 367
+I+LTTR K+V D +V E L +E LF A +L +
Sbjct: 265 QILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKA---------DLPEQ 315
Query: 368 SHEIVAKCGGLPLAIVAVGGLLSTKHGSVSEWRRSLEGLGSKL------GSDPHLKICSR 421
+H I+ +C G PL + +G LL + W L+ L +K S +
Sbjct: 316 AHSIIKECKGSPLVVSLIGALL---RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDE 372
Query: 422 VLSEGYHDLPHHLKSCLLYFGLFPQGYSISCARLIRLWIAEGFVPYSTRPPSEQLGEEYL 481
+S L +K + + + L LW E +E++ E+ L
Sbjct: 373 AMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME----------TEEV-EDIL 421
Query: 482 SELIDRSLVHVSRRARSCR--VHDLMHEIILEKT 513
E +++SL+ R +S R +HDL + + EK
Sbjct: 422 QEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKN 455
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 49.7 bits (117), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 98/425 (23%), Positives = 176/425 (41%), Gaps = 58/425 (13%)
Query: 106 FFCFINVLKLHHGIASKIEVIKSSLADIQRRERHYSFRSIEQGSVSRTRNVISHD--PRV 163
+ F N L LH G +++S L + S + + G S R V+ P+
Sbjct: 75 YISFYNAL-LHEGYKDLAALLQSGLPLVSSS----SGKDTDGGITSFVRTVLCEGGVPQR 129
Query: 164 GSLFIEDDEVVGIESARDILIGWLVNGRKQRSVVALVGQGGIGKTTLAGKLFNNQYVMNH 223
+F+ ++V + W +NG + V + G G GK+ LA + + ++
Sbjct: 130 PVIFVTRKKLVHAIQQK----LWKLNG--EPGWVTIYGMAGCGKSVLAAEAVRDHSLLE- 182
Query: 224 FDCRA----WITVGRECMKKDLLIKMIKEFHQLTGQSALGE---MNNMEEKDLIIAVRQY 276
C + W+++G++ K LL+K+ +L + + + +N E KD + +
Sbjct: 183 -GCFSGGVHWVSIGKQ-DKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLR 240
Query: 277 LHDKNYMIVLDDVWKIELWGDVEHALLDNKKGSRIMLTTRHKAVADFCKQSSFVQVHE-- 334
H ++ +++LDDVW + W V A DN+ +I+LTT K+V D V E
Sbjct: 241 KHPRS-LLILDDVW--DPW--VLKAF-DNQ--CQILLTTSDKSVTDSVMGPKHVVPVESG 292
Query: 335 LEALPAVEAWRLFCRKAFASVSDGGCPPELEKLSHEIVAKCGGLPLAIVAVGGLLSTKHG 394
L +E LF ++ P E +H I+ +C G PL + +G LL
Sbjct: 293 LGREKGLEILSLF-----VNMKKEDLPAE----AHSIIKECKGSPLVVSLIGALLRDFPN 343
Query: 395 SVSEWRRSLEGLGSKL---GSDPHLKICSRVLSEGYHDLPHHLKSCLLYFGLFPQGYSIS 451
+ + R L+ K S + +S L +K + + +
Sbjct: 344 RWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVP 403
Query: 452 CARLIRLWIAEGFVPYSTRPPSEQLGEEYLSELIDRSLVHVSRRARS-C-RVHDLMHEII 509
L LW E +E++ E+ L E +++SL+ +R +S C +HDL + +
Sbjct: 404 TKVLCVLWDLE----------TEEV-EDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFL 452
Query: 510 LEKTK 514
EK +
Sbjct: 453 TEKNR 457
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 44.3 bits (103), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 52/104 (50%), Gaps = 3/104 (2%)
Query: 559 FLNVDKLPGSFMTKLVAEFKLM---KVLDFEDAPIEFLPEEVGNLFHLHYLSVRNTKVKV 615
FL L G+ +T+L AE K + +VLD + LP E+G+ F L Y + V
Sbjct: 248 FLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTT 307
Query: 616 LPKSIGRLLNLQTLDLKHSLVTQLPVEIKNLKKLRYLLVYHSDN 659
LP G L NLQ L ++ + + + ++I K + L+ Y DN
Sbjct: 308 LPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDN 351
Score = 38.9 bits (89), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 43/87 (49%), Gaps = 9/87 (10%)
Query: 598 GNLFHLHYLS---VRNTKVKVLPKSIGRLLNLQTLDLKHSLVTQLPVEIKNLKKLRYLLV 654
N+F +L+ + + LP I L NL+ LDL H+ +T LP E+ + +L+Y
Sbjct: 241 ANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYF-- 298
Query: 655 YHSDNGTHERGVKIQEGFGSLTDLQKL 681
Y DN + FG+L +LQ L
Sbjct: 299 YFFDNMV----TTLPWEFGNLCNLQFL 321
>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp
Analogue
Length = 180
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 31/47 (65%), Gaps = 5/47 (10%)
Query: 197 VALVGQGGIGKTTLAGKLFNNQYVMNHFDCRAWITVGRECMKKDLLI 243
V L+G GG+GK++L N+YV N FD +A+ T+G E + +DL +
Sbjct: 10 VILLGDGGVGKSSLM-----NRYVTNKFDSQAFHTIGVEFLNRDLEV 51
>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A
Novel Antiviral Drug Target
pdb|1WMS|B Chain B, High Resolution Crystal Structure Of Human Rab9 Gtpase: A
Novel Antiviral Drug Target
Length = 177
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 5/54 (9%)
Query: 190 GRKQRSVVALVGQGGIGKTTLAGKLFNNQYVMNHFDCRAWITVGRECMKKDLLI 243
G+ V L+G GG+GK++L N+YV N FD + + T+G E + KDL +
Sbjct: 3 GKSSLFKVILLGDGGVGKSSLM-----NRYVTNKFDTQLFHTIGVEFLNKDLEV 51
>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer
With An Active Conformation Of Switch Ii
pdb|1S8F|B Chain B, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer
With An Active Conformation Of Switch Ii
Length = 177
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 5/54 (9%)
Query: 190 GRKQRSVVALVGQGGIGKTTLAGKLFNNQYVMNHFDCRAWITVGRECMKKDLLI 243
G+ V L+G GG+GK++L N+YV N FD + + T+G E + KDL +
Sbjct: 5 GKSSLFKVILLGDGGVGKSSLM-----NRYVTNKFDTQLFHTIGVEFLNKDLEV 53
>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase
Length = 179
Score = 39.7 bits (91), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 32/54 (59%), Gaps = 5/54 (9%)
Query: 190 GRKQRSVVALVGQGGIGKTTLAGKLFNNQYVMNHFDCRAWITVGRECMKKDLLI 243
G+ + L+G GG+GK++L N+YV N FD + + T+G E + KDL +
Sbjct: 7 GKSSLFKIILLGDGGVGKSSLM-----NRYVTNKFDSQLFHTIGVEFLNKDLEV 55
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 50/93 (53%), Gaps = 4/93 (4%)
Query: 582 VLDFEDAPIEFLPEEVGNLFHLHYLSVRNTKVKV-LPKSIGRLLNLQTLDL-KHSLVTQL 639
+LDF D E +P + N +L+++S+ N ++ +PK IGRL NL L L +S +
Sbjct: 472 ILDFNDLTGE-IPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 530
Query: 640 PVEIKNLKKLRYL-LVYHSDNGTHERGVKIQEG 671
P E+ + + L +L L + NGT + Q G
Sbjct: 531 PAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSG 563
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 50/93 (53%), Gaps = 4/93 (4%)
Query: 582 VLDFEDAPIEFLPEEVGNLFHLHYLSVRNTKVKV-LPKSIGRLLNLQTLDL-KHSLVTQL 639
+LDF D E +P + N +L+++S+ N ++ +PK IGRL NL L L +S +
Sbjct: 469 ILDFNDLTGE-IPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 527
Query: 640 PVEIKNLKKLRYL-LVYHSDNGTHERGVKIQEG 671
P E+ + + L +L L + NGT + Q G
Sbjct: 528 PAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSG 560
>pdb|3QFL|A Chain A, Coiled-Coil Domain-Dependent Homodimerization Of
Intracellular Mla Immune Receptors Defines A Minimal
Functional Module For Triggering Cell Death
Length = 115
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 43/86 (50%), Gaps = 5/86 (5%)
Query: 4 AAVNLVIETLGSLLVQEINLLGSTKQEVQSIKNELESIRSFLKDXXXXXXXXXXXXXXXX 63
AA++ +I LG LL +E L K+ ++ + ELES + L
Sbjct: 1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESXNAAL-----IKIGEVPREQLDS 55
Query: 64 GVKTWVKQVREEAFRIEDVIDEYILK 89
K W +VRE ++ IEDV+D+++++
Sbjct: 56 QDKLWADEVRELSYVIEDVVDKFLVQ 81
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 37.7 bits (86), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 46/92 (50%), Gaps = 10/92 (10%)
Query: 576 EFKLMKVLDFEDAPIEFLPEEVGNLFHLHYLSVRN-TKVKVLPKSIGR---------LLN 625
+F ++ L P+ LP + +L L LS+R ++ LP+ + L+N
Sbjct: 125 QFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVN 184
Query: 626 LQTLDLKHSLVTQLPVEIKNLKKLRYLLVYHS 657
LQ+L L+ + + LP I NL+ L+ L + +S
Sbjct: 185 LQSLRLEWTGIRSLPASIANLQNLKSLKIRNS 216
Score = 37.7 bits (86), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 37/156 (23%), Positives = 68/156 (43%), Gaps = 28/156 (17%)
Query: 582 VLDFEDAPIEFLPEEVGNLFHLHYLSVRNTKVKVLPKSIGRLLNLQTLDLKHSLVTQLPV 641
L+ P+ P++ L HL + ++ + LP + + L+TL L + + LP
Sbjct: 85 ALELRSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPA 144
Query: 642 EIKNLKKLRYLLVYHSDNGTHERGVKIQEGFGSLTDL----QKLYIVQANSTIXXXXXXX 697
I +L +LR L + T ++ E S TD Q L +Q+
Sbjct: 145 SIASLNRLRELSIRACPELT-----ELPEPLAS-TDASGEHQGLVNLQS----------- 187
Query: 698 XXXXXXGIQLTNDDGKNLCASIADMENLESLTVEST 733
++L ++L ASIA+++NL+SL + ++
Sbjct: 188 -------LRLEWTGIRSLPASIANLQNLKSLKIRNS 216
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%)
Query: 580 MKVLDFEDAPIEFLPEEVGNLFHLHYLSVRNTKVKVLPKSIGRLLNLQTLDLK 632
++ L E I LP + NL +L L +RN+ + L +I L L+ LDL+
Sbjct: 185 LQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLR 237
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 37.7 bits (86), Expect = 0.029, Method: Composition-based stats.
Identities = 33/101 (32%), Positives = 49/101 (48%), Gaps = 5/101 (4%)
Query: 751 LEHLYLVGS-MKNLPDWIF-KLKNLVRIGLYWSELTNDPMNVLQALPNLLELRLRDAYDY 808
L +L L G+ +++LP+ +F KL NL + L ++L + P V L NL L L Y
Sbjct: 87 LTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYL---YHN 143
Query: 809 EKLHFKDGWFPRLQRLVLLDLKGVTLMMIDKGAMPCLRELK 849
+ G F +L L LDL L + +G L +LK
Sbjct: 144 QLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLK 184
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 34.7 bits (78), Expect = 0.28, Method: Composition-based stats.
Identities = 33/102 (32%), Positives = 50/102 (49%), Gaps = 7/102 (6%)
Query: 751 LEHLYLVGS-MKNLPDWIF-KLKNLVRIGLYWSELTNDPMNVLQALPNLLELRLRDAYDY 808
L +L L G+ +++LP+ +F KL NL + L ++L + P V L NL L L +
Sbjct: 87 LTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLA----H 142
Query: 809 EKLH-FKDGWFPRLQRLVLLDLKGVTLMMIDKGAMPCLRELK 849
+L G F +L L LDL L + +G L +LK
Sbjct: 143 NQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLK 184
>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 = 33.5 bits (75), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 31/132 (23%), Positives = 57/132 (43%), Gaps = 15/132 (11%)
Query: 181 DILIGWLVNGRKQRSVVALVGQGGIGKTTLAGKLFNNQYVMNHFDCRAWITVGRECMKKD 240
D+L + G+ + L G G+GKT L +L NN H + VG + +
Sbjct: 136 DLLAPYAKGGK-----IGLFGGAGVGKTVLIQELINN-VAQEHGGLSVFAGVGERTREGN 189
Query: 241 LLIKMIKEFHQLTGQS-ALGEMNNMEEKDLIIA-----VRQYLHDK---NYMIVLDDVWK 291
L +K+ ++ S G+MN L +A + +Y D+ + ++ +D++++
Sbjct: 190 DLYHEMKDSGVISKTSMVFGQMNEPPGARLRVALTGLTMAEYFRDREGQDVLLFIDNIFR 249
Query: 292 IELWGDVEHALL 303
G ALL
Sbjct: 250 FTQAGSEVSALL 261
>pdb|3KJE|A Chain A, Empty State Of Cooc1
pdb|3KJG|A Chain A, Adp-Bound State Of Cooc1
pdb|3KJG|B Chain B, Adp-Bound State Of Cooc1
pdb|3KJH|A Chain A, Zn-Bound State Of Cooc1
pdb|3KJI|A Chain A, Zn And Adp Bound State Of Cooc1
pdb|3KJI|B Chain B, Zn And Adp Bound State Of Cooc1
Length = 254
Score = 31.2 bits (69), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 38/136 (27%), Positives = 61/136 (44%), Gaps = 21/136 (15%)
Query: 197 VALVGQGGIGKTTLAGKL-------FNNQYVMN-HFDCRAWITVG---RECMKKDLLIKM 245
+A+ G+GG+GKTT+A L ++ Y ++ D T+G E LI+M
Sbjct: 3 LAVAGKGGVGKTTVAAGLIKIMASDYDKIYAVDGDPDSCLGQTLGLSIEEAYAITPLIEM 62
Query: 246 IKEFHQLTGQSALGEMNNMEEKDLIIAVRQYLHDKNYMIVLDDVWK---------IELWG 296
E + TG L +N + DL R Y+ DK ++I + ++ K G
Sbjct: 63 KDEIREKTGDGGLLILNPKVDGDLDKYGR-YIDDKIFLIRMGEIKKGGSQCYCRENSFLG 121
Query: 297 DVEHALLDNKKGSRIM 312
V AL +KK + +M
Sbjct: 122 SVVSALFLDKKEAVVM 137
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 44/130 (33%), Positives = 63/130 (48%), Gaps = 10/130 (7%)
Query: 751 LEHLYLVGS-MKNLPDWIFK-LKNLVRIGLYWSELTNDPMNVLQALPNLLELRLRDAYDY 808
L LYL + ++ LP IFK LKNL + + ++L P+ V L NL ELRL D
Sbjct: 63 LRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRL-DRNQL 121
Query: 809 EKLHFKDGWFPRLQRLVLLDLKGVTLMMIDKGA---MPCLRELKIGPCPLLKEIPAG-IE 864
+ L + F L +L L L L + KG + L+EL++ LK +P G +
Sbjct: 122 KSLPPR--VFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYN-NQLKRVPEGAFD 178
Query: 865 HLRNLEILKF 874
L L+ LK
Sbjct: 179 KLTELKTLKL 188
>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1T91|B Chain B, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1T91|C Chain C, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1T91|D Chain D, Crystal Structure Of Human Small Gtpase Rab7(Gtp)
pdb|1YHN|A Chain A, Structure Basis Of Rilp Recruitment By Rab7
Length = 207
Score = 30.4 bits (67), Expect = 4.5, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 5/47 (10%)
Query: 197 VALVGQGGIGKTTLAGKLFNNQYVMNHFDCRAWITVGRECMKKDLLI 243
V ++G G+GKT+L NQYV F + T+G + + K++++
Sbjct: 11 VIILGDSGVGKTSLM-----NQYVNKKFSNQYKATIGADFLTKEVMV 52
>pdb|1VG1|A Chain A, Gdp-bound Rab7
pdb|1VG9|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|D Chain D, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|F Chain F, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|H Chain H, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
Length = 185
Score = 30.4 bits (67), Expect = 4.5, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 5/47 (10%)
Query: 197 VALVGQGGIGKTTLAGKLFNNQYVMNHFDCRAWITVGRECMKKDLLI 243
V ++G G+GKT+L NQYV F + T+G + + K++++
Sbjct: 11 VIILGDSGVGKTSLM-----NQYVNKKFSNQYKATIGADFLTKEVMV 52
>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|B Chain B, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|C Chain C, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|D Chain D, Structure Of Gtp-Bound L129f Mutant Rab7
pdb|3LAW|E Chain E, Structure Of Gtp-Bound L129f Mutant Rab7
Length = 207
Score = 30.4 bits (67), Expect = 4.5, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 5/47 (10%)
Query: 197 VALVGQGGIGKTTLAGKLFNNQYVMNHFDCRAWITVGRECMKKDLLI 243
V ++G G+GKT+L NQYV F + T+G + + K++++
Sbjct: 11 VIILGDSGVGKTSLM-----NQYVNKKFSNQYKATIGADFLTKEVMV 52
>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex
With Monoprenylated Rab7 Protein
pdb|1VG8|A Chain A, Gppnhp-Bound Rab7
pdb|1VG8|B Chain B, Gppnhp-Bound Rab7
pdb|1VG8|C Chain C, Gppnhp-Bound Rab7
pdb|1VG8|D Chain D, Gppnhp-Bound Rab7
Length = 207
Score = 30.4 bits (67), Expect = 4.5, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 5/47 (10%)
Query: 197 VALVGQGGIGKTTLAGKLFNNQYVMNHFDCRAWITVGRECMKKDLLI 243
V ++G G+GKT+L NQYV F + T+G + + K++++
Sbjct: 11 VIILGDSGVGKTSLM-----NQYVNKKFSNQYKATIGADFLTKEVMV 52
>pdb|1F48|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1IHU|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase In Complex With
Mg-Adp-Alf3
pdb|1II0|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II9|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
pdb|1II9|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
Length = 589
Score = 29.3 bits (64), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 18/25 (72%)
Query: 190 GRKQRSVVALVGQGGIGKTTLAGKL 214
R + ++ L+G+GG+GKTT+A +
Sbjct: 323 ARNEHGLIMLMGKGGVGKTTMAAAI 347
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
0.322 0.138 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,950,579
Number of Sequences: 62578
Number of extensions: 1058720
Number of successful extensions: 3042
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 3004
Number of HSP's gapped (non-prelim): 56
length of query: 920
length of database: 14,973,337
effective HSP length: 108
effective length of query: 812
effective length of database: 8,214,913
effective search space: 6670509356
effective search space used: 6670509356
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)