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= psy1550
(264 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IKO|B Chain B, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|E Chain E, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|H Chain H, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
Length = 442
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 52/135 (38%), Gaps = 24/135 (17%)
Query: 25 DAVKGGTWLATSTNGKLGILLNVLGENSRPNGRDRGPL-VVKYVEGQKSAEEYLTDLKKE 83
D V+ S NG L +L++ LG N P RD L + K+ G S ++ ++ + K
Sbjct: 192 DVVRASKLAIESKNGHLSVLISYLGSND-PRIRDLAELQLQKWSTGGCSIDKNISKIYKL 250
Query: 84 TEENVFNGFH-----------IVLLELTLQSTNI--YHFSNIA---------PLDSPSTK 121
+ F G + LL LTL I Y ++ P D P
Sbjct: 251 LSGSPFEGLFSLKELESEFSWLCLLNLTLCYGQIDEYSLESLVQSHLDKFSLPYDDPIGV 310
Query: 122 VTNVTNKQENKDHVY 136
+ + EN + +Y
Sbjct: 311 IFQLYAANENTEKLY 325
>pdb|3BG0|B Chain B, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|C Chain C, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|F Chain F, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|G Chain G, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|B Chain B, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|C Chain C, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|F Chain F, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|G Chain G, Architecture Of A Coat For The Nuclear Pore Membrane
Length = 442
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 52/135 (38%), Gaps = 24/135 (17%)
Query: 25 DAVKGGTWLATSTNGKLGILLNVLGENSRPNGRDRGPL-VVKYVEGQKSAEEYLTDLKKE 83
D V+ S NG L +L++ LG N P RD L + K+ G S ++ ++ + K
Sbjct: 192 DVVRASKLAIESKNGHLSVLISYLGSND-PRIRDLAELQLQKWSTGGCSIDKNISKIYKL 250
Query: 84 TEENVFNGFH-----------IVLLELTLQSTNI--YHFSNIA---------PLDSPSTK 121
+ F G + LL LTL I Y ++ P D P
Sbjct: 251 LSGSPFEGLFSLKELESEFSWLCLLNLTLCYGQIDEYSLESLVQSHLDKFSLPYDDPIGV 310
Query: 122 VTNVTNKQENKDHVY 136
+ + EN + +Y
Sbjct: 311 IFQLYAANENTEKLY 325
>pdb|2E52|A Chain A, Crystal Structural Analysis Of Hindiii Restriction
Endonuclease In Complex With Cognate Dna At 2.0 Angstrom
Resolution
pdb|2E52|C Chain C, Crystal Structural Analysis Of Hindiii Restriction
Endonuclease In Complex With Cognate Dna At 2.0 Angstrom
Resolution
pdb|2E52|B Chain B, Crystal Structural Analysis Of Hindiii Restriction
Endonuclease In Complex With Cognate Dna At 2.0 Angstrom
Resolution
pdb|2E52|D Chain D, Crystal Structural Analysis Of Hindiii Restriction
Endonuclease In Complex With Cognate Dna At 2.0 Angstrom
Resolution
Length = 300
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 80 LKKETEENV--FNGFHI-VLLELTLQSTNIYHFSNIAPLDSPSTKVTNVTNKQEN 131
K+ +ENV F+ H+ +LL+L L+ TNI+ F + +K T+V++ + N
Sbjct: 157 FKQSLDENVLLFSWEHLAILLQLDLEETNIFSFEQLWNFPKKQSKKTSVSDAENN 211
>pdb|3A4K|A Chain A, Crystal Structural Analysis Of Hindiii Restriction
Endonuclease In Complex With Cognate Dna And Divalent
Cations At 2.17 Angstrom Resolution
pdb|3A4K|C Chain C, Crystal Structural Analysis Of Hindiii Restriction
Endonuclease In Complex With Cognate Dna And Divalent
Cations At 2.17 Angstrom Resolution
pdb|3A4K|B Chain B, Crystal Structural Analysis Of Hindiii Restriction
Endonuclease In Complex With Cognate Dna And Divalent
Cations At 2.17 Angstrom Resolution
pdb|3A4K|D Chain D, Crystal Structural Analysis Of Hindiii Restriction
Endonuclease In Complex With Cognate Dna And Divalent
Cations At 2.17 Angstrom Resolution
Length = 301
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 80 LKKETEENV--FNGFHI-VLLELTLQSTNIYHFSNIAPLDSPSTKVTNVTNKQEN 131
K+ +ENV F+ H+ +LL+L L+ TNI+ F + +K T+V++ + N
Sbjct: 158 FKQSLDENVLLFSWEHLAILLQLDLEETNIFSFEQLWNFPKKQSKKTSVSDAENN 212
>pdb|3JRO|A Chain A, Nup84-Nup145c-Sec13 Edge Element Of The Npc Lattice
Length = 753
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 52/135 (38%), Gaps = 24/135 (17%)
Query: 25 DAVKGGTWLATSTNGKLGILLNVLGENSRPNGRDRGPL-VVKYVEGQKSAEEYLTDLKKE 83
D V+ S NG L +L++ LG N P RD L + K+ G S ++ ++ + K
Sbjct: 501 DVVRASKLAIESKNGHLSVLISYLGSND-PRIRDLAELQLQKWSTGGCSIDKNISKIYKL 559
Query: 84 TEENVFNGFH-----------IVLLELTLQSTNI--YHFSNIA---------PLDSPSTK 121
+ F G + LL LTL I Y ++ P D P
Sbjct: 560 LSGSPFEGLFSLKELESEFSWLCLLNLTLCYGQIDEYSLESLVQSHLDKFSLPYDDPIGV 619
Query: 122 VTNVTNKQENKDHVY 136
+ + EN + +Y
Sbjct: 620 IFQLYAANENTEKLY 634
>pdb|3H1T|A Chain A, The Fragment Structure Of A Putative Hsdr Subunit Of A
Type I Restriction Enzyme From Vibrio Vulnificus Yj016
Length = 590
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 5/74 (6%)
Query: 137 GFGNSQCTSQPFQKVIFGKEKFAEIVNKFNRKSESQN-LIQNILDLMKNKQSNYPDPEID 195
G C + +V+ +F +IV + R E L NI+D + N+ DP+ D
Sbjct: 512 GVDAPTCKNVVLARVVNSXSEFKQIVGRGTRLREDYGKLWFNIIDYTGSATQNFADPDFD 571
Query: 196 RKAEAD----MDED 205
E + +DED
Sbjct: 572 GYPEIEDEVVIDED 585
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
0.315 0.132 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,214,926
Number of Sequences: 62578
Number of extensions: 335446
Number of successful extensions: 674
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 668
Number of HSP's gapped (non-prelim): 11
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)