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= psy5489
(94 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3FCS|A Chain A, Structure Of Complete Ectodomain Of Integrin Aiibb3
pdb|3FCS|C Chain C, Structure Of Complete Ectodomain Of Integrin Aiibb3
Length = 959
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 31/84 (36%), Positives = 42/84 (50%), Gaps = 9/84 (10%)
Query: 12 TEMVGSYELLLGQHQEVLLNVSTHNAGESAYEAQLFIAHHPHLSYI-----GLEGQRGAL 66
T V LL+G + L + N GE AYEA+L + H P ++ +EG +
Sbjct: 615 TASVTGSPLLVGADNVLELQMDAANEGEGAYEAELAV-HLPQGAHYMRALSNVEGFERLI 673
Query: 67 CNPYN---TSLVVCALGNPFKKNA 87
CN T +V+C LGNP KKNA
Sbjct: 674 CNQKKENETRVVLCELGNPMKKNA 697
>pdb|4G1M|A Chain A, Re-Refinement Of Alpha V Beta 3 Structure
Length = 959
Score = 38.5 bits (88), Expect = 0.001, Method: Composition-based stats.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 7/73 (9%)
Query: 19 ELLLGQHQEVLLNVSTHNAGESAYEAQLFIAHHPHLSYIGLEGQRGALC-------NPYN 71
++ +G + L V N GE AYEA+L ++ +IG+ AL
Sbjct: 616 KIYIGDDNPLTLIVKAQNQGEGAYEAELIVSIPLQADFIGVVRNNEALARLSCAFKTENQ 675
Query: 72 TSLVVCALGNPFK 84
T VVC LGNP K
Sbjct: 676 TRQVVCDLGNPMK 688
>pdb|4G1E|A Chain A, Crystal Structure Of Integrin Alpha V Beta 3 With
Coil-Coiled Tag
Length = 998
Score = 38.5 bits (88), Expect = 0.001, Method: Composition-based stats.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 7/73 (9%)
Query: 19 ELLLGQHQEVLLNVSTHNAGESAYEAQLFIAHHPHLSYIGLEGQRGALC-------NPYN 71
++ +G + L V N GE AYEA+L ++ +IG+ AL
Sbjct: 616 KIYIGDDNPLTLIVKAQNQGEGAYEAELIVSIPLQADFIGVVRNNEALARLSCAFKTENQ 675
Query: 72 TSLVVCALGNPFK 84
T VVC LGNP K
Sbjct: 676 TRQVVCDLGNPMK 688
>pdb|3IJE|A Chain A, Crystal Structure Of The Complete Integrin Alhavbeta3
Ectodomain Plus An Alpha/beta Transmembrane Fragment
Length = 967
Score = 38.5 bits (88), Expect = 0.001, Method: Composition-based stats.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 7/73 (9%)
Query: 19 ELLLGQHQEVLLNVSTHNAGESAYEAQLFIAHHPHLSYIGLEGQRGALC-------NPYN 71
++ +G + L V N GE AYEA+L ++ +IG+ AL
Sbjct: 616 KIYIGDDNPLTLIVKAQNQGEGAYEAELIVSIPLQADFIGVVRNNEALARLSCAFKTENQ 675
Query: 72 TSLVVCALGNPFK 84
T VVC LGNP K
Sbjct: 676 TRQVVCDLGNPMK 688
>pdb|1JV2|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
pdb|1M1X|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1U8C|A Chain A, A Novel Adaptation Of The Integrin Psi Domain Revealed
From Its Crystal Structure
Length = 957
Score = 38.5 bits (88), Expect = 0.001, Method: Composition-based stats.
Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 7/73 (9%)
Query: 19 ELLLGQHQEVLLNVSTHNAGESAYEAQLFIAHHPHLSYIGLEGQRGALC-------NPYN 71
++ +G + L V N GE AYEA+L ++ +IG+ AL
Sbjct: 616 KIYIGDDNPLTLIVKAQNQGEGAYEAELIVSIPLQADFIGVVRNNEALARLSCAFKTENQ 675
Query: 72 TSLVVCALGNPFK 84
T VVC LGNP K
Sbjct: 676 TRQVVCDLGNPMK 688
>pdb|3C2H|A Chain A, Crystal Structure Of Sys-1 At 2.6a Resolution
pdb|3C2H|B Chain B, Crystal Structure Of Sys-1 At 2.6a Resolution
Length = 619
Score = 27.3 bits (59), Expect = 2.3, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 3 PQSLSVRESTEMVGSYELLLGQHQEVL 29
P L ++ + M+GSY L+ GQ+ E L
Sbjct: 221 PTGLIIKLNAVMIGSYRLIAGQNPETL 247
>pdb|3K6S|A Chain A, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|C Chain C, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|E Chain E, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|G Chain G, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K71|A Chain A, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|C Chain C, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|E Chain E, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|G Chain G, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K72|A Chain A, Structure Of Integrin Alphax Beta2
pdb|3K72|C Chain C, Structure Of Integrin Alphax Beta2
Length = 1095
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 16 GSYELLLGQHQEVLLNVSTHNAGESAYEAQLFIAHHPHLSYIGL-EGQR 63
G LL+G + E+ V N GE +Y + +H LSY + EGQ+
Sbjct: 770 GLKSLLVGSNLELNAEVMVWNDGEDSYGTTITFSHPAGLSYRYVAEGQK 818
>pdb|1Q9J|A Chain A, Structure Of Polyketide Synthase Associated Protein 5 From
Mycobacterium Tuberculosis
pdb|1Q9J|B Chain B, Structure Of Polyketide Synthase Associated Protein 5 From
Mycobacterium Tuberculosis
Length = 422
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 40 SAYEAQLFIAHHPHLSYIG--LEGQRGALC 67
+ Y QL I HH H++ G LE R LC
Sbjct: 382 AVYAGQLIIEHHGHIAEPGKSLEAIRSLLC 411
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
0.316 0.131 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,808,614
Number of Sequences: 62578
Number of extensions: 94220
Number of successful extensions: 182
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 170
Number of HSP's gapped (non-prelim): 8
length of query: 94
length of database: 14,973,337
effective HSP length: 61
effective length of query: 33
effective length of database: 11,156,079
effective search space: 368150607
effective search space used: 368150607
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)