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= 007279
(609 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An Inhibitory Fab
pdb|1TAU|A Chain A, Taq Polymerase (E.C.2.7.7.7)DNAB-Octylglucoside Complex
Length = 832
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 18/82 (21%)
Query: 531 KQVIGVTESGETITLAEMVETGWSVMDCCWSLKKKSSKEGH----------LFELLGNRM 580
+Q+ + E + + LA + G+ D SL KK+ KEG+ L++LL +R+
Sbjct: 94 RQLALIKELVDLLGLARLEVPGYEADDVLASLAKKAEKEGYEVRILTADKDLYQLLSDRI 153
Query: 581 VCIYHVLASLQSPLSYLSGPCW 602
HVL P YL P W
Sbjct: 154 ----HVL----HPEGYLITPAW 167
>pdb|1TAQ|A Chain A, Structure Of Taq Dna Polymerase
Length = 832
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 18/82 (21%)
Query: 531 KQVIGVTESGETITLAEMVETGWSVMDCCWSLKKKSSKEGH----------LFELLGNRM 580
+Q+ + E + + LA + G+ D SL KK+ KEG+ L++LL +R+
Sbjct: 94 RQLALIKELVDLLGLARLEVPGYEADDVLASLAKKAEKEGYEVRILTADKDLYQLLSDRI 153
Query: 581 VCIYHVLASLQSPLSYLSGPCW 602
HVL P YL P W
Sbjct: 154 ----HVL----HPEGYLITPAW 167
>pdb|3ZS7|A Chain A, Crystal Structure Of Pyridoxal Kinase From Trypanosoma
Brucei
Length = 300
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 49/103 (47%), Gaps = 11/103 (10%)
Query: 125 CRKETEEIWNRLYPEEPYELDLAKISSEDFSAELSGLEKFTKYDLVSAVKRQSPFFYQVS 184
C+KE + + L P LA I + ++ E S L T DL SA+ + +F+
Sbjct: 128 CKKEVLDAYRELVP-------LADIVTPNY-FEASLLSGVTVNDLSSAI-LAADWFHNCG 178
Query: 185 RSHFNNDVFLEEAVARYKGFLHLIKKNRERSIKRF--CVPTYD 225
+H F E+ + FL+ +K+ E +++RF VP ++
Sbjct: 179 VAHVIIKSFREQENPTHLRFLYSVKEGSEAAVRRFSGVVPYHE 221
>pdb|3O9P|A Chain A, The Structure Of The Escherichia Coli Murein Tripeptide
Binding Protein Mppa
Length = 519
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 40/93 (43%), Gaps = 5/93 (5%)
Query: 138 PEEPYELDLAKISSEDFSAELSGLEKFTKYDLVSAVKRQSPFF--YQVSRSHFNNDVFLE 195
P++P +L L +SE+ + K +L VK Q+ + Y SR+ N DV
Sbjct: 357 PQKPLKLTLLYNTSENHQKIAIAVASMWKKNLGVDVKLQNQEWKTYIDSRNTGNFDVIRA 416
Query: 196 EAVARYK---GFLHLIKKNRERSIKRFCVPTYD 225
V Y FL L+ +I RF P YD
Sbjct: 417 SWVGDYNEPSTFLTLLTSTHSGNISRFNNPAYD 449
>pdb|4GNS|B Chain B, Crystal Structure Of The Chs5-Chs6 Exomer Cargo Adaptor
Complex
Length = 754
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 38/92 (41%), Gaps = 10/92 (10%)
Query: 241 CKDMSKTLGKVLEHDDMDQDRTKG---KKLDTGFSGTTKQWEETFGSRYPKAGAMYRG-- 295
C + L + +D D +T K T + T K WEETF S +A
Sbjct: 136 CFNFFSNLDIRIRYDADDTFQTTAIDCNKETTDLTMTEKMWEETFASSVIRAIITNTNPE 195
Query: 296 TAPSPLTTIPFSSDIVSKEVVSSKECQKIINI 327
P L PF V K+ +SS C+KII +
Sbjct: 196 LKPPGLVECPF---YVGKDTISS--CKKIIEL 222
>pdb|3MMY|A Chain A, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|C Chain C, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|E Chain E, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|G Chain G, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
Length = 368
Score = 29.3 bits (64), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 536 VTESGETITLAEMVETGWSVMDCCWS------LKKKSSKEGHLFELLGNRMVCI 583
V +SG+TI A+ + TG V+D CWS K +++L N+ + I
Sbjct: 71 VQDSGQTIPKAQQMHTG-PVLDVCWSDDGSKVFTASCDKTAKMWDLSSNQAIQI 123
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
0.319 0.134 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,980,011
Number of Sequences: 62578
Number of extensions: 701956
Number of successful extensions: 1480
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1480
Number of HSP's gapped (non-prelim): 11
length of query: 609
length of database: 14,973,337
effective HSP length: 105
effective length of query: 504
effective length of database: 8,402,647
effective search space: 4234934088
effective search space used: 4234934088
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)