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= 047599
(165 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 29/54 (53%), Gaps = 8/54 (14%)
Query: 12 DSKNFH--------FNTFKINIQAPENSPHTDGIHIANSNNIQILNSEISTGDD 57
+S NFH F +K I+ P + +TDGI +S NI I S I+TGDD
Sbjct: 171 NSPNFHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDD 224
>pdb|1NHC|A Chain A, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|B Chain B, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|C Chain C, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|D Chain D, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|E Chain E, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|F Chain F, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
Length = 336
Score = 34.7 bits (78), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 53/107 (49%), Gaps = 7/107 (6%)
Query: 10 SRDSKNFHFNTFKI-NIQAPENSPH-TDGIHIANSNNIQILNSEISTGDDCASMDPGSQN 67
S + N H N F I N +N H TDG I+ S + I + + DDC +++ G ++
Sbjct: 127 SVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSG-ES 185
Query: 68 VNISSNVKIWPSNVESISIRSLGGTPNEKEAREITVQNCNLKGTSNG 114
++ + S +SI S+GG ++ + +T+ + + ++NG
Sbjct: 186 ISFTGGT---CSGGHGLSIGSVGG-RDDNTVKNVTISDSTVSNSANG 228
>pdb|2UVE|A Chain A, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase
pdb|2UVE|B Chain B, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase
pdb|2UVF|A Chain A, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase In Complex With Digalaturonic Acid
pdb|2UVF|B Chain B, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase In Complex With Digalaturonic Acid
Length = 608
Score = 33.5 bits (75), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 35 DGIHIANSNNIQILNSEISTGDDCASMDPGS 65
DGI NS N+ + N+ TGDDC + G+
Sbjct: 381 DGIEFGNSQNVMVFNNFFDTGDDCINFAAGT 411
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 36/59 (61%), Gaps = 4/59 (6%)
Query: 33 HTDGIHIANSNNIQILNSEISTGDDCASMDPGSQNVNISSNVKIWPSNVESISIRSLGG 91
+TDG I++S+++ + N+ + DDC ++ G+ N+ +S ++ S +SI S+GG
Sbjct: 165 NTDGFDISSSDHVTLDNNHVYNQDDCVAVTSGT-NIVVS---NMYCSGGHGLSIGSVGG 219
>pdb|1CIY|A Chain A, Insecticidal Toxin: Structure And Channel Formation
Length = 590
Score = 27.7 bits (60), Expect = 3.0, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 10/76 (13%)
Query: 17 HFNTFKINIQAPENSPHTDGIHIANSNNIQILNSEISTGDDCASMDPGSQNVNISSNVKI 76
+T ++NI AP + + I A++ N+Q T D ++ G+ + +SS
Sbjct: 478 QISTLRVNITAPLSQRYRVRIRYASTTNLQ-----FHTSIDGRPINQGNFSATMSSG--- 529
Query: 77 WPSNVESISIRSLGGT 92
SN++S S R++G T
Sbjct: 530 --SNLQSGSFRTVGFT 543
>pdb|4FH1|A Chain A, S. Cerevisiae Ubc13-N79a
Length = 153
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 18 FNTFKINIQAPENSPHTDGIH 38
F++ I+ PE SP+ DGI
Sbjct: 32 LRYFQVTIEGPEQSPYEDGIF 52
>pdb|1JAT|A Chain A, Mms2UBC13 UBIQUITIN CONJUGATING ENZYME COMPLEX
Length = 155
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 18 FNTFKINIQAPENSPHTDGIH 38
F++ I+ PE SP+ DGI
Sbjct: 34 LRYFQVTIEGPEQSPYEDGIF 54
>pdb|2GMI|A Chain A, Mms2UBC13~UBIQUITIN
Length = 152
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 18 FNTFKINIQAPENSPHTDGIH 38
F++ I+ PE SP+ DGI
Sbjct: 32 LRYFQVTIEGPEQSPYEDGIF 52
>pdb|1JBB|A Chain A, Ubiquitin Conjugating Enzyme, Ubc13
pdb|1JBB|B Chain B, Ubiquitin Conjugating Enzyme, Ubc13
Length = 153
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 18 FNTFKINIQAPENSPHTDGIH 38
F++ I+ PE SP+ DGI
Sbjct: 32 LRYFQVTIEGPEQSPYEDGIF 52
>pdb|3CNF|A Chain A, 3.88 Angstrom Structure Of Cytoplasmic Polyhedrosis Virus By
Cryo-Electron Microscopy
pdb|3CNF|B Chain B, 3.88 Angstrom Structure Of Cytoplasmic Polyhedrosis Virus By
Cryo-Electron Microscopy
pdb|3IZX|B Chain B, 3.1 Angstrom Cryoem Structure Of Cytoplasmic Polyhedrosis
Virus
pdb|3IZX|C Chain C, 3.1 Angstrom Cryoem Structure Of Cytoplasmic Polyhedrosis
Virus
Length = 1333
Score = 26.6 bits (57), Expect = 7.5, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 13/57 (22%)
Query: 32 PHTDGIHIANSNNIQILNSEISTGDDCASMDPGSQNVNISSNVKIWPSNVESISIRS 88
P + HI+ SN + ++ + I TGDD A + VN P +V +I+IR+
Sbjct: 1289 PKLEVDHISFSNVVSMMTANIRTGDDMA-----VERVN--------PDDVRAINIRN 1332
>pdb|3IZ3|B Chain B, Cryoem Structure Of Cytoplasmic Polyhedrosis Virus
pdb|3IZ3|C Chain C, Cryoem Structure Of Cytoplasmic Polyhedrosis Virus
pdb|3J17|B Chain B, Structure Of A Transcribing Cypovirus By Cryo-Electron
Microscopy
pdb|3J17|C Chain C, Structure Of A Transcribing Cypovirus By Cryo-Electron
Microscopy
Length = 1333
Score = 26.6 bits (57), Expect = 7.6, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 13/57 (22%)
Query: 32 PHTDGIHIANSNNIQILNSEISTGDDCASMDPGSQNVNISSNVKIWPSNVESISIRS 88
P + HI+ SN + ++ + I TGDD A + VN P +V +I+IR+
Sbjct: 1289 PKLEVDHISFSNVVSMMTANIRTGDDMA-----VERVN--------PDDVRAINIRN 1332
>pdb|1IA5|A Chain A, Polygalacturonase From Aspergillus Aculeatus
pdb|1IB4|A Chain A, Crystal Structure Of Polygalacturonase From Aspergillus
Aculeatus At Ph4.5
pdb|1IB4|B Chain B, Crystal Structure Of Polygalacturonase From Aspergillus
Aculeatus At Ph4.5
Length = 339
Score = 26.2 bits (56), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 51/119 (42%), Gaps = 7/119 (5%)
Query: 24 NIQAPENSPH-TDGIHIANSNNIQILNSEISTGDDCASMDPGSQNVNISSNVKIWPSNVE 82
N +N H TD I S + I + + DDC +++ G +N+ S + S
Sbjct: 147 NSDGDDNGGHNTDAFDIGTSTYVTISGATVYNQDDCVAVNSG-ENIYFSGG---YCSGGH 202
Query: 83 SISIRSLGGTPNEKEAREITVQNCNLKGTSNGGTSSTKVAVDLQCSKVKPRDKIELRDI 141
+SI S+GG ++ + +T + + + NG T + S V +D I L I
Sbjct: 203 GLSIGSVGG-RSDNTVKNVTFVDSTIINSDNGVRIKTNIDTTGSVSDVTYKD-ITLTSI 259
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
0.310 0.127 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,109,245
Number of Sequences: 62578
Number of extensions: 197807
Number of successful extensions: 376
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 367
Number of HSP's gapped (non-prelim): 17
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 47 (22.7 bits)