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= 013555
(441 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NTY|A Chain A, Rop4-Gdp-Prone8
pdb|2NTY|B Chain B, Rop4-Gdp-Prone8
pdb|2WBL|A Chain A, Three-Dimensional Structure Of A Binary Rop-Prone Complex
pdb|2WBL|B Chain B, Three-Dimensional Structure Of A Binary Rop-Prone Complex
Length = 365
Score = 324 bits (831), Expect = 6e-89, Method: Compositional matrix adjust.
Identities = 169/346 (48%), Positives = 221/346 (63%), Gaps = 25/346 (7%)
Query: 87 EKSDTDLSEVEMMKERFAKLLLGEDMSGGGKGVCTALAISNAITNLSATVFGELWRLEPL 146
++S+ +++EMMK+RFAKLLLGEDMSGGGKGV +ALA+SNAITNL+A++FGE +L+P+
Sbjct: 2 KRSERQQADMEMMKDRFAKLLLGEDMSGGGKGVSSALALSNAITNLAASIFGEQTKLQPM 61
Query: 147 APQKKAMWRREMQWLLCVSDSIVELVPSIQQFPGGGTYEVMATRPRSDLYMNLPALKKLD 206
++A W++E+ WLL V+D IVE VPS Q G E+M TR R DL MN+PAL+KLD
Sbjct: 62 PQDRQARWKKEIDWLLSVTDHIVEFVPSQQTSKDGVCTEIMVTRQRGDLLMNIPALRKLD 121
Query: 207 AMLIGMLDGF-CETEFWYXXXXXXXXXXXXXXAFSSMVPSGRPSVRHEEKWWLPCPKVPQ 265
AMLI LD F EFWY R +KWWLP KVP
Sbjct: 122 AMLIDTLDNFRGHNEFWYVSRDSEEGQQARND-------------RTNDKWWLPPVKVPP 168
Query: 266 NGLSEDVRKKLQQCRDCTNQILKAAMAINSSVLAEMEIPAAYLETLPKNGKACLGDIIYR 325
GLSE R+ L +D Q+ KAAMAIN+ VL+EMEIP +Y+++LPKNG+A LGD IY+
Sbjct: 169 GGLSEPSRRMLYFQKDSVTQVQKAAMAINAQVLSEMEIPESYIDSLPKNGRASLGDSIYK 228
Query: 326 YITADQFSPECLLDCLDLSSEHHTLEVANRIEAAVHVWKQKDQXXXXXXXXXXXXXWGGK 385
IT + F PE L LD+S+EH L++ NRIEA+V +WK+K WG
Sbjct: 229 SITEEWFDPEQFLAMLDMSTEHKVLDLKNRIEASVVIWKRK------LHTKDTKSSWGSA 282
Query: 386 VKGLVADSEKNHSLAHRAETLLHSLRLRFPGLPQTALDMNKIQYNK 431
V EK RAET+L L+ +FPGLPQ++LD++KIQ+NK
Sbjct: 283 VS-----LEKRELFEERAETILVLLKQKFPGLPQSSLDISKIQFNK 323
>pdb|2NTX|A Chain A, Prone8
pdb|2NTX|B Chain B, Prone8
Length = 365
Score = 283 bits (723), Expect = 2e-76, Method: Compositional matrix adjust.
Identities = 161/346 (46%), Positives = 210/346 (60%), Gaps = 25/346 (7%)
Query: 87 EKSDTDLSEVEMMKERFAKLLLGEDMSGGGKGVCTALAISNAITNLSATVFGELWRLEPL 146
++S+ ++ E K+RFAKLLLGED SGGGKGV +ALA+SNAITNL+A++FGE +L+P
Sbjct: 2 KRSERQQADXEXXKDRFAKLLLGEDXSGGGKGVSSALALSNAITNLAASIFGEQTKLQPX 61
Query: 147 APQKKAMWRREMQWLLCVSDSIVELVPSIQQFPGGGTYEVMATRPRSDLYMNLPALKKLD 206
++A W++E+ WLL V+D IVE VPS Q G E+ TR R DL N+PAL+KLD
Sbjct: 62 PQDRQARWKKEIDWLLSVTDHIVEFVPSQQTSKDGVCTEIXVTRQRGDLLXNIPALRKLD 121
Query: 207 AMLIGMLDGF-CETEFWYXXXXXXXXXXXXXXAFSSMVPSGRPSVRHEEKWWLPCPKVPQ 265
A LI LD F EFWY R +KWWLP KVP
Sbjct: 122 AXLIDTLDNFRGHNEFWYVSRDSEEGQQARND-------------RTNDKWWLPPVKVPP 168
Query: 266 NGLSEDVRKKLQQCRDCTNQILKAAMAINSSVLAEMEIPAAYLETLPKNGKACLGDIIYR 325
GLSE R+ L +D Q+ KAA AIN+ VL+E EIP +Y+++LPKNG+A LGD IY+
Sbjct: 169 GGLSEPSRRXLYFQKDSVTQVQKAAXAINAQVLSEXEIPESYIDSLPKNGRASLGDSIYK 228
Query: 326 YITADQFSPECLLDCLDLSSEHHTLEVANRIEAAVHVWKQKDQXXXXXXXXXXXXXWGGK 385
IT + F PE L LD S+EH L++ NRIEA+V +WK+K WG
Sbjct: 229 SITEEWFDPEQFLAXLDXSTEHKVLDLKNRIEASVVIWKRK------LHTKDTKSSWGSA 282
Query: 386 VKGLVADSEKNHSLAHRAETLLHSLRLRFPGLPQTALDMNKIQYNK 431
V EK RAET+L L+ +FPGLPQ++LD++KIQ+NK
Sbjct: 283 VS-----LEKRELFEERAETILVLLKQKFPGLPQSSLDISKIQFNK 323
>pdb|3MFF|A Chain A, 1f1e8hu Tcr
pdb|3MFF|C Chain C, 1f1e8hu Tcr
Length = 200
Score = 32.7 bits (73), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 147 APQKKAMWRREMQWLLC-VSDSIVELVPSIQQFPGGGTYEVMATRPRSD 194
+PQ +W E L C +S + P QQFPG G ++A R SD
Sbjct: 5 SPQSLTVWEGETTILNCSYENSAFDYFPWYQQFPGEGPALLIAIRSVSD 53
>pdb|1KJ2|A Chain A, Murine Alloreactive Scfv Tcr-peptide-mhc Class I Molecule
Complex
pdb|1KJ2|D Chain D, Murine Alloreactive Scfv Tcr-peptide-mhc Class I Molecule
Complex
Length = 111
Score = 32.7 bits (73), Expect = 0.43, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 147 APQKKAMWRREMQWLLC-VSDSIVELVPSIQQFPGGGTYEVMATRPRSD 194
+PQ +W E L C DS P QQFPG G +++ R SD
Sbjct: 6 SPQSLTVWEGETAILNCSYEDSTFNYFPWYQQFPGEGPALLISIRSVSD 54
>pdb|1KB5|A Chain A, Murine T-Cell Receptor Variable DomainFAB COMPLEX
Length = 115
Score = 32.7 bits (73), Expect = 0.45, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 147 APQKKAMWRREMQWLLC-VSDSIVELVPSIQQFPGGGTYEVMATRPRSD 194
+PQ +W E L C DS P QQFPG G +++ R SD
Sbjct: 6 SPQSLTVWEGETAILNCSYEDSTFNYFPWYQQFPGEGPALLISIRSVSD 54
>pdb|3RDT|A Chain A, Crystal Structure Of 809.B5 Tcr Complexed With Mhc Class
Ii I-Ab3K Peptide
Length = 205
Score = 32.0 bits (71), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 147 APQKKAMWRREMQWLLC-VSDSIVELVPSIQQFPGGGTYEVMATRPRSD 194
+PQ +W E L C +S + P QQFPG G ++A R SD
Sbjct: 7 SPQSLTVWEGETAILNCSYENSAFDYFPWYQQFPGEGPALLIAIRSVSD 55
>pdb|3C6L|A Chain A, Crystal Structure Of Mouse Mhc Class Ii I-Ab3K PEPTIDE
Complexed With Mouse Tcr 2w20
pdb|3C6L|E Chain E, Crystal Structure Of Mouse Mhc Class Ii I-Ab3K PEPTIDE
Complexed With Mouse Tcr 2w20
Length = 185
Score = 31.6 bits (70), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 147 APQKKAMWRREMQWLLC-VSDSIVELVPSIQQFPGGGTYEVMATRPRSD 194
+PQ +W E L C DS + P QFPG ++A RP S+
Sbjct: 6 SPQSLTVWEGETAILNCSYEDSTFDYFPWYHQFPGESPALLIAIRPVSN 54
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
0.318 0.133 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,882,163
Number of Sequences: 62578
Number of extensions: 402401
Number of successful extensions: 744
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 735
Number of HSP's gapped (non-prelim): 10
length of query: 441
length of database: 14,973,337
effective HSP length: 102
effective length of query: 339
effective length of database: 8,590,381
effective search space: 2912139159
effective search space used: 2912139159
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)