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= 002544
(910 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1DG3|A Chain A, Structure Of Human Guanylate Binding Protein-1 In
Nucleotide Free Form
pdb|1F5N|A Chain A, Human Guanylate Binding Protein-1 In Complex With The Gtp
Analogue, Gmppnp
Length = 592
Score = 118 bits (295), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 125/472 (26%), Positives = 223/472 (47%), Gaps = 48/472 (10%)
Query: 2 FIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKT-----TPSELGQFSPIFVWLLRDF 56
F+YN +G I++ A+D+L VT++T IR ++S + ++ F P FVW LRDF
Sbjct: 126 FVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENENEVEDSADFVSFFPDFVWTLRDF 185
Query: 57 YLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNE 116
LDL D + +TP +YL +L+ +G+ + N R IR FP ++CF RP+ +
Sbjct: 186 SLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVFDRPV-HR 244
Query: 117 NELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDAI 175
+L +L+++ + L PEF + ++F ++ K + G + GP L + +Y++AI
Sbjct: 245 RKLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLVLTYVNAI 304
Query: 176 NNGAVPTISSSWQSVEEAECRRAYDSATETYMSTFDRSK--PPEEVA-LGEAHEAAVQKA 232
++G +P + ++ ++ + E A A Y + P E + L + H + ++A
Sbjct: 305 SSGDLPCMENAVLALAQIENSAAVQKAIAHYEQQMGQKVQLPTESLQELLDLHRDSEREA 364
Query: 233 LAVYNAGAVGVGLARKKYEGLLQKFFRKAFEDH-----KKNVYMEADIRCSSAIQ----S 283
+ V+ + + K + L QK E K+N +D RCS +Q
Sbjct: 365 IEVF------IRSSFKDVDHLFQKELAAQLEKKRDDFCKQNQEASSD-RCSGLLQVIFSP 417
Query: 284 MERKLRAACHSSDASIDNVVKVLDGLISE-YETSCHGPGKWQKLATFL--QQSSEGPILD 340
+E +++A +S V+ L L + YE G + L T+L ++S IL
Sbjct: 418 LEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKESMTDAILQ 477
Query: 341 LVKRLID---QIGSERSSLMLKYRSIEDNMKLL-------KKQLEDSERYKSEYLKRYDD 390
+ L + +I ER +K S + + K+L ++ +E ER E+LK+ +
Sbjct: 478 TDQTLTEKEKEIEVER----VKAESAQASAKMLHEMQRKNEQMMEQKERSYQEHLKQLTE 533
Query: 391 AI-NDKKKLADDYTSRIN-NLQGENISLREKSSSLSKTVDSLKNEISDWKRK 440
+ ND+ +L + + LQ + L+E K +KNEI D + K
Sbjct: 534 KMENDRVQLLKEQERTLALKLQEQEQLLKE---GFQKESRIMKNEIQDLQTK 582
>pdb|2B8W|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GmpALF4
pdb|2B8W|B Chain B, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GmpALF4
pdb|2B92|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GdpALF3
pdb|2B92|B Chain B, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GdpALF3
pdb|2BC9|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With Non-Hydrolysable Gtp Analogue Gppnhp
pdb|2D4H|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With Gmp
pdb|2D4H|B Chain B, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With Gmp
Length = 328
Score = 108 bits (269), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 60/191 (31%), Positives = 108/191 (56%), Gaps = 7/191 (3%)
Query: 2 FIYNQMGGIDESAIDRLSLVTQMTKHIRIRASGGKT-----TPSELGQFSPIFVWLLRDF 56
F+YN +G I++ A+D+L VT++T IR ++S + ++ F P FVW LRDF
Sbjct: 137 FVYNSIGTINQQAMDQLYYVTELTHRIRSKSSPDENENEVEDSADFVSFFPDFVWTLRDF 196
Query: 57 YLDLVEDNRKITPRDYLEIALRPVQGSGRDIAAKNEIRDSIRALFPDRECFTLVRPLSNE 116
LDL D + +TP +YL +L+ +G+ + N R IR FP ++CF RP+ +
Sbjct: 197 SLDLEADGQPLTPDEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVFDRPV-HR 255
Query: 117 NELQRLDQISLDRLRPEFRAGLDALTKFVFERTRPKQV-GATVLTGPVLIGITESYLDAI 175
+L +L+++ + L PEF + ++F ++ K + G + GP L + +Y++AI
Sbjct: 256 RKLAQLEKLQDEELDPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLVLTYVNAI 315
Query: 176 NNGAVPTISSS 186
++G +P + ++
Sbjct: 316 SSGDLPCMENA 326
>pdb|4GF2|A Chain A, Crystal Structure Of Plasmodium Falciparum Erythrocyte
Binding Antigen 140 (Pfeba-140BAEBL)
Length = 615
Score = 32.7 bits (73), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 43/160 (26%), Positives = 73/160 (45%), Gaps = 16/160 (10%)
Query: 296 DASIDNVVKVLDGLISEYETSCHGPGKWQKLATFLQQSSEGPILDLVKRLIDQIGS-ERS 354
D + +NV KV+ ++ ET C K+QK+ FL+ E D ++ ++I S E
Sbjct: 447 DENKENVWKVMSAVLKNKET-CKDYDKFQKIPQFLRWFKEWGD-DFCEKRKEKIYSFESF 504
Query: 355 SLMLKYRSIEDNMKLLKKQLEDSERY----KSEYLKRYDDAINDKKKLADDYTSRINNLQ 410
+ K + ++N K + + +++ KSEY K+ D DK K D + N +
Sbjct: 505 KVECKKKDCDENT--CKNKCSEYKKWIDLKKSEYEKQVDKYTKDKNKKMYDNIDEVKNKE 562
Query: 411 GENISLREKSSSL------SKTVDSLKNEISDWKRKYDQV 444
N+ L+EKS K + NE D +K D++
Sbjct: 563 A-NVYLKEKSKECKDVNFDDKIFNEAPNEYEDMCKKCDEI 601
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 414 ISLREKSSSLSKTVDSLKNEISDWKRKY--DQV 444
I LR++ S SK VD ++ SDWK+ + DQV
Sbjct: 2658 ICLRQQVPSFSKLVDHIQQNSSDWKQFFGKDQV 2690
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 30.0 bits (66), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 414 ISLREKSSSLSKTVDSLKNEISDWKRKY--DQV 444
I LR++ S SK VD ++ SDWK+ + DQV
Sbjct: 2536 ICLRQQVPSFSKLVDHIQQNSSDWKQFFGKDQV 2568
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
0.313 0.128 0.347
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,666,408
Number of Sequences: 62578
Number of extensions: 749889
Number of successful extensions: 1887
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 1857
Number of HSP's gapped (non-prelim): 55
length of query: 910
length of database: 14,973,337
effective HSP length: 108
effective length of query: 802
effective length of database: 8,214,913
effective search space: 6588360226
effective search space used: 6588360226
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (26.2 bits)