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= 007311
(608 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F67|A Chain A, Three Dimensional Structure Of The Double Mutant Of
Upf0176 Protein Lpg2838 From Legionella Pneumophila At
The Resolution 1.8a, Northeast Structural Genomics
Consortium (Nesg) Target Lgr82
Length = 265
Score = 119 bits (298), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 80/255 (31%), Positives = 123/255 (48%), Gaps = 32/255 (12%)
Query: 16 YYKYSTIPDLNSLFTFYESNCSQLGLLGRVRLAPHGVNVTVGGKLSSLESHIDAVKSISL 75
+YK+ + D SL + ++G+ G + LA GVN G D ++S S
Sbjct: 20 FYKFIPLNDFRSLREPILTKXHEIGIKGTIILAHEGVNGGFAGNREQXNVFYDYLRSDSR 79
Query: 76 FEGTDFKLASSDYPLNGKVAHECGFTSLSIRIVKELVTFSSHPLLNPPDVSNAGRHLSAV 135
F FK + + F +++ KE+VT + +P NAG +LS
Sbjct: 80 FADLHFKETYDN---------KNPFDKAKVKLRKEIVTXGVQKV-DPS--YNAGTYLSPE 127
Query: 136 EFHSILQSTGQVLDKENATDDKKLVLLDARNLYETRIGKFRTPSVETLDPEIRQFSDLPT 195
E+H +Q D ++LLD RN YE +G F+ ++P+I F + P
Sbjct: 128 EWHQFIQ-------------DPNVILLDTRNDYEYELGTFKN----AINPDIENFREFPD 170
Query: 196 WIDNNAEQLQGKHVLMYCTGGIRCEMASAYVRSKGAGFENVFQLYGGIQRYLEQFPDG-G 254
++ N + K + +CTGGIRCE +AY K GFE+V+QL+ GI YLE P+
Sbjct: 171 YVQRNLIDKKDKKIAXFCTGGIRCEKTTAY--XKELGFEHVYQLHDGILNYLESIPESES 228
Query: 255 FFKGKNFVFDHRISV 269
++GK FVFD R++V
Sbjct: 229 LWEGKCFVFDDRVAV 243
>pdb|1YCD|A Chain A, Crystal Structure Of Yeast Fsh1/yhr049w, A Member Of The
Serine Hydrolase Family
pdb|1YCD|B Chain B, Crystal Structure Of Yeast Fsh1/yhr049w, A Member Of The
Serine Hydrolase Family
Length = 243
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 59/267 (22%), Positives = 110/267 (41%), Gaps = 67/267 (25%)
Query: 374 RILCLHGFRQNASSFKGRTASLAKKLKNI-AEFVFIDAP-----HELPFIYQTSNVSSVI 427
++L LHGF QN F +++ + K LK + +IDAP +LPF + +
Sbjct: 7 KLLFLHGFLQNGKVFSEKSSGIRKLLKKANVQCDYIDAPVLLEKKDLPFEMDDEKWQATL 66
Query: 428 QNGPPPPSENCKKRFAWFVAPDFSGKRETNWKLADGPFDPHQYQQQTDGLDVSLAYLKTI 487
+ AWF + S + + ++GL + ++K
Sbjct: 67 ---------DADVNRAWFYHSEISHELDI-----------------SEGLKSVVDHIKA- 99
Query: 488 FSQEGPFDGILGFSQGAAMAASVCAQW-ERLKGEIDFRFAILCSGFALHSAEFEH----- 541
GP+DGI+G SQGAA+++ + + E + F+ +++ SG++ + EH
Sbjct: 100 ---NGPYDGIVGLSQGAALSSIITNKISELVPDHPQFKVSVVISGYSFTEPDPEHPGELR 156
Query: 542 ------------RSINCPSLHIFGGDLGNDRQVANQASKELAKAFEEGCS------VIIE 583
+ + I+G +D+ V + SK L + + + + E
Sbjct: 157 ITEKFRDSFAVKPDMKTKMIFIYG---ASDQAVPSVRSKYLYDIYLKAQNGNKEKVLAYE 213
Query: 584 HDCGHIIPTRS----PYIDEIKSFLQR 606
H GH++P + P +++I S LQ
Sbjct: 214 HPGGHMVPNKKDIIRPIVEQITSSLQE 240
>pdb|2NTS|P Chain P, Crystal Structure Of Sek-Hvb5.1
Length = 240
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 42/88 (47%), Gaps = 4/88 (4%)
Query: 203 QLQGKHVLMYCTGGIRCEMASAYVRSKGAGFENVFQLYGGIQRYLEQFPDGGFFKGKNFV 262
+ +G+ V + C+ S Y ++ G G + +F+ + QR FP G F G+ F
Sbjct: 11 KTRGQQVTLSCSPISGHRSVSWYQQTPGQGLQFLFEYFNETQRNKGNFP--GRFSGRQFS 68
Query: 263 FDHRISVGSSDADIMGSCL-LCSSSFDD 289
+ R + S ++ S L LC+SS D
Sbjct: 69 -NSRSEMNVSTLELGDSALYLCASSLAD 95
>pdb|1ZGL|P Chain P, Crystal Structure Of 3a6 Tcr Bound To MbpHLA-Dr2a
pdb|1ZGL|R Chain R, Crystal Structure Of 3a6 Tcr Bound To MbpHLA-Dr2a
pdb|1ZGL|T Chain T, Crystal Structure Of 3a6 Tcr Bound To MbpHLA-Dr2a
pdb|1ZGL|V Chain V, Crystal Structure Of 3a6 Tcr Bound To MbpHLA-Dr2a
Length = 249
Score = 33.5 bits (75), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 42/88 (47%), Gaps = 4/88 (4%)
Query: 203 QLQGKHVLMYCTGGIRCEMASAYVRSKGAGFENVFQLYGGIQRYLEQFPDGGFFKGKNFV 262
+ +G+ V + C+ S Y ++ G G + +F+ + QR FP G F G+ F
Sbjct: 15 KTRGQQVTLSCSPISGHRSVSWYQQTPGQGLQFLFEYFNETQRNKGNFP--GRFSGRQFS 72
Query: 263 FDHRISVGSSDADIMGSCL-LCSSSFDD 289
+ R + S ++ S L LC+SS D
Sbjct: 73 -NSRSEMNVSTLELGDSALYLCASSLAD 99
>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 = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 21/45 (46%), Gaps = 9/45 (20%)
Query: 458 WKLADGPFDPHQYQQQTDGLDVSLAYLKT---------IFSQEGP 493
WKL+ FDP Y +TD V +A LK I SQ GP
Sbjct: 124 WKLSSILFDPVSYPYKTDNDQVKMALLKKERHCRLTSWIVSQIGP 168
>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 = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 21/45 (46%), Gaps = 9/45 (20%)
Query: 458 WKLADGPFDPHQYQQQTDGLDVSLAYLKT---------IFSQEGP 493
WKL+ FDP Y +TD V +A LK I SQ GP
Sbjct: 124 WKLSSILFDPVSYPYKTDNDQVKMALLKKERHCRLTSWIVSQIGP 168
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
0.320 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,548,574
Number of Sequences: 62578
Number of extensions: 788651
Number of successful extensions: 1861
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1853
Number of HSP's gapped (non-prelim): 7
length of query: 608
length of database: 14,973,337
effective HSP length: 104
effective length of query: 504
effective length of database: 8,465,225
effective search space: 4266473400
effective search space used: 4266473400
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)