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= 003885
(789 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ORG|A Chain A, Crystal Structure Of A Eukaryotic Clc Transporter
pdb|3ORG|B Chain B, Crystal Structure Of A Eukaryotic Clc Transporter
pdb|3ORG|C Chain C, Crystal Structure Of A Eukaryotic Clc Transporter
pdb|3ORG|D Chain D, Crystal Structure Of A Eukaryotic Clc Transporter
Length = 632
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 177 GSGIPEVKAYLNGI--DAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACIANL 234
GSG+P++K+ L+G S L LF K G I + G VG EGP VH IA+
Sbjct: 79 GSGLPQMKSILSGFYDKMRSALELRVLFAKALGLICAIGGGLPVGWEGPNVHIACIIAHQ 138
Query: 235 LGQGGSKKYHLTWRWLR 251
+ G K T R LR
Sbjct: 139 FYRLGVFKELCTDRALR 155
Score = 37.0 bits (84), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 26/130 (20%), Positives = 54/130 (41%), Gaps = 1/130 (0%)
Query: 467 SKEFHLSTLLVFFVAIYCLGIITYGIAVPSGLFIPVILAGASYGRLVGNLLGAL-SDLDT 525
+ F + L++ + + L ++ G+ +P+G+F+P L GA +GRL G L+ + +
Sbjct: 313 TDHFGWTELILMPIIKFILVALSIGLPLPAGVFVPSFLIGAGFGRLYGELMRVVFGNAIV 372
Query: 526 XXXXXXXXXXXXXXTMRMTVSXXXXXXXXXXXXXXXXXXXXXXXXSKTVADSFNQGVYDQ 585
+ +S + V ++FN+ +Y+
Sbjct: 373 PGSYAVVGAAAFTAGVTRALSCAVIIFEVTGQIRHLVPVLISVLLAVIVGNAFNRSLYET 432
Query: 586 IVKLKGLPYL 595
+V +K LPY+
Sbjct: 433 LVLMKHLPYM 442
>pdb|3ND0|A Chain A, X-Ray Crystal Structure Of A Slow Cyanobacterial Cl-H+
ANTIPORTER
pdb|3ND0|B Chain B, X-Ray Crystal Structure Of A Slow Cyanobacterial Cl-H+
ANTIPORTER
pdb|3Q17|A Chain A, Structure Of A Slow Clc Cl-H+ ANTIPORTER FROM A
CYANOBACTERIUM IN Bromide
pdb|3Q17|B Chain B, Structure Of A Slow Clc Cl-H+ ANTIPORTER FROM A
CYANOBACTERIUM IN Bromide
Length = 466
Score = 37.4 bits (85), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Query: 177 GSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACIANLLG 236
GSGIP+++ +L G ++ L +K+ G + AG + G EGP + G I + G
Sbjct: 102 GSGIPQIEGHLEG--KLPLVWQRVLPIKLVGGFLSLGAGMLAGFEGPTIQMGGSIGQMTG 159
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 12/86 (13%)
Query: 422 DRCPTVGRSGNYKNFQCPAGHYNDLASLF----LNTNDDAIRNLFSSGTSKEFHLSTLLV 477
DR P + + +K F G + SLF + D+A+ F+S + H STL++
Sbjct: 276 DRLPPL--ATKWKGFLL--GSIIGILSLFPLPLTDGGDNAVLWAFNS----QSHFSTLIL 327
Query: 478 FFVAIYCLGIITYGIAVPSGLFIPVI 503
F + L +I YG G+F P++
Sbjct: 328 VFCGRFLLTLICYGSGAIGGIFAPML 353
>pdb|1KPL|A Chain A, Crystal Structure Of The Clc Chloride Channel From S.
Typhimurium
pdb|1KPL|B Chain B, Crystal Structure Of The Clc Chloride Channel From S.
Typhimurium
pdb|1KPL|C Chain C, Crystal Structure Of The Clc Chloride Channel From S.
Typhimurium
pdb|1KPL|D Chain D, Crystal Structure Of The Clc Chloride Channel From S.
Typhimurium
Length = 473
Score = 33.9 bits (76), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 177 GSGIPEVKAYLNGIDAHSILAPSTLFVKIFGSIFGVAAGFVVGKEGPMVHTGACIANLL 235
GSGIPE++ L + + L VK G + + AG V+G+EGP V G + ++
Sbjct: 106 GSGIPEIEGALE--ELRPVRWWRVLPVKFIGGMGTLGAGMVLGREGPTVQIGGNLGRMV 162
>pdb|2D4Z|A Chain A, Crystal Structure Of The Cytoplasmic Domain Of The
Chloride Channel Clc-0
pdb|2D4Z|B Chain B, Crystal Structure Of The Cytoplasmic Domain Of The
Chloride Channel Clc-0
Length = 250
Score = 30.0 bits (66), Expect = 4.5, Method: Composition-based stats.
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 605 NLVASDVVSGPLITFSGVEKVGNIMHALRLTRHNGFPVIDEP 646
N+ D++ + + + G+++H LR T+ FP +D P
Sbjct: 12 NIQVGDIMVRDVTSIASTSTYGDLLHVLRQTKLKFFPFVDTP 53
>pdb|2RIF|A Chain A, Cbs Domain Protein Pae2072 From Pyrobaculum Aerophilum
Complexed With Amp
pdb|2RIF|B Chain B, Cbs Domain Protein Pae2072 From Pyrobaculum Aerophilum
Complexed With Amp
pdb|2RIF|C Chain C, Cbs Domain Protein Pae2072 From Pyrobaculum Aerophilum
Complexed With Amp
pdb|2RIF|D Chain D, Cbs Domain Protein Pae2072 From Pyrobaculum Aerophilum
Complexed With Amp
pdb|2RIH|A Chain A, Cbs Domain Protein Pae2072 From Pyrobaculum Aerophilum
pdb|2RIH|B Chain B, Cbs Domain Protein Pae2072 From Pyrobaculum Aerophilum
Length = 141
Score = 30.0 bits (66), Expect = 5.4, Method: Composition-based stats.
Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 4/60 (6%)
Query: 721 PITNTSPYTVVETMSLAKAAVLFRQLALRHLCVVPKTPGRPPIVGILTRHDFMPEHVLGL 780
PI N SP TV++T + AA R+ +RH+ VV K +VG+L+ D E + L
Sbjct: 75 PIAN-SPITVLDTDPVHVAAEKMRRHNIRHVVVVNKN---GELVGVLSIRDLCFERAILL 130
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
0.323 0.140 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,151,202
Number of Sequences: 62578
Number of extensions: 751205
Number of successful extensions: 1417
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1369
Number of HSP's gapped (non-prelim): 49
length of query: 789
length of database: 14,973,337
effective HSP length: 107
effective length of query: 682
effective length of database: 8,277,491
effective search space: 5645248862
effective search space used: 5645248862
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)