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= psy140
(184 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AGJ|A Chain A, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|C Chain C, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|E Chain E, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|G Chain G, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
Length = 437
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 47/110 (42%), Gaps = 20/110 (18%)
Query: 10 PVAVWEFEGEILVLHHPTTISSRYQAMVHCGSIRQTASILSMSA--------------EC 55
P EFE I V+ HP+ I+ Y ++H + ++ I+ + A +
Sbjct: 320 PTVAEEFEARIFVIWHPSAITVGYTPVIHVHTASVSSRIIEIKAKLDPKTGQVVEQNPQF 379
Query: 56 LRTGDKAAVHFRFI------KHPEYLRAGQRMVFREGRTKAVGNVTKVLP 99
L+ GD A V F+ + K E + G+ + RT +G VT V P
Sbjct: 380 LKAGDAAIVRFKPVKPLVVEKFSEIPQLGRFAMRDMNRTVGIGIVTDVKP 429
>pdb|3VMF|A Chain A, Archaeal Protein
Length = 440
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 47/110 (42%), Gaps = 20/110 (18%)
Query: 10 PVAVWEFEGEILVLHHPTTISSRYQAMVHCGSIRQTASILSMSA--------------EC 55
P EFE I V+ HP+ I+ Y ++H + ++ I+ + A +
Sbjct: 323 PTVAEEFEARIFVIWHPSAITVGYTPVIHVHTASVSSRIIEIKAKLDPKTGQVVEQNPQF 382
Query: 56 LRTGDKAAVHFRFI------KHPEYLRAGQRMVFREGRTKAVGNVTKVLP 99
L+ GD A V F+ + K E + G+ + RT +G VT V P
Sbjct: 383 LKAGDAAIVRFKPVKPLVVEKFSEIPQLGRFAMRDMNRTVGIGIVTDVKP 432
>pdb|3E1Y|E Chain E, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|F Chain F, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|G Chain G, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|H Chain H, Crystal Structure Of Human Erf1ERF3 COMPLEX
Length = 204
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/106 (23%), Positives = 49/106 (46%), Gaps = 24/106 (22%)
Query: 16 FEGEILVLHHPTTISSRYQAMVHCGSIRQTASILSMSAECL---RTGDKAAVHFRFIKHP 72
F+ +I+++ H + I Y A++H + + I ++ CL ++G+K+ RF+K
Sbjct: 98 FDAQIVIIEHKSIICPGYNAVLHIHTCIEEVEITALI--CLVDKKSGEKSKTRPRFVKQD 155
Query: 73 EYLRA-------------------GQRMVFREGRTKAVGNVTKVLP 99
+ A G+ + EG+T A+G V K++P
Sbjct: 156 QVCIARLRTAGTICLETFKDFPQMGRFTLRDEGKTIAIGKVLKLVP 201
>pdb|3KGX|A Chain A, Crystal Structure Of Putative Aminotransferase
(Aah25799.1) From Mus Musculus At 1.80 A Resolution
pdb|3KGX|B Chain B, Crystal Structure Of Putative Aminotransferase
(Aah25799.1) From Mus Musculus At 1.80 A Resolution
pdb|3KGW|A Chain A, Crystal Structure Of Putative Aminotransferase
(Aah25799.1) From Mus Musculus At 1.65 A Resolution
pdb|3KGW|B Chain B, Crystal Structure Of Putative Aminotransferase
(Aah25799.1) From Mus Musculus At 1.65 A Resolution
Length = 393
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 19/73 (26%)
Query: 13 VWEFEGEILVLHHPTTISSRYQAMVHCGSIRQTASILSMSA--ECLRTGDKAAVHFR--- 67
+W EGE V+HH T ++S Y +R++ ++++ C R +A H
Sbjct: 251 LWGCEGETRVIHHTTPVTSLY-------CLRESLALIAEQGLENCWRRHREATAHLHKHL 303
Query: 68 -------FIKHPE 73
F+K PE
Sbjct: 304 QEMGLKFFVKDPE 316
>pdb|3IYU|X Chain X, Atomic Model Of An Infectious Rotavirus Particle
pdb|3IYU|Y Chain Y, Atomic Model Of An Infectious Rotavirus Particle
pdb|3IYU|Z Chain Z, Atomic Model Of An Infectious Rotavirus Particle
Length = 776
Score = 28.1 bits (61), Expect = 2.6, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 81 MVFREGRTKAVGNVTKVLPPSGHQGNYSHLSRTKANKMLSHRAQPNKTWALSPVTEKPEV 140
++ RE + + LPP + N L+ + N ++SHRAQ N+ +S + E+
Sbjct: 207 IIPREEESTCTEYINNGLPPIQNTRNIVPLALSARN-IISHRAQANEDIVVSKTSLWKEM 265
Query: 141 KTPRDL 146
+ RD+
Sbjct: 266 QYNRDI 271
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
0.317 0.131 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,462,922
Number of Sequences: 62578
Number of extensions: 201613
Number of successful extensions: 469
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 465
Number of HSP's gapped (non-prelim): 6
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
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: 48 (23.1 bits)