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= psy6087
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DL0|I Chain I, Crystal Structure Of The Heterotrimeric Egchead Peripheral
Stalk Complex Of The Yeast Vacuolar Atpase
pdb|4DL0|C Chain C, Crystal Structure Of The Heterotrimeric Egchead Peripheral
Stalk Complex Of The Yeast Vacuolar Atpase
pdb|4EFA|C Chain C, Crystal Structure Of The Heterotrimeric Egchead Peripheral
Stalk Complex Of The Yeast Vacuolar Atpase - Second
Conformation
Length = 130
Score = 97.8 bits (242), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 47/99 (47%), Positives = 72/99 (72%)
Query: 13 SGSLLTRNLADLVKKEHFILDSEYLTTLLVVVPRNQVTEWVQNYEKLTAMIVPRSSQLVS 72
+G L R+L D+VK E F+L+SE+LTT+LV VP++ +++ ++YE L+ +VP S+ +++
Sbjct: 20 TGDLSVRSLHDIVKPEDFVLNSEHLTTVLVAVPKSLKSDFEKSYETLSKNVVPASASVIA 79
Query: 73 QDQDFALYTVTLFKKVQDEFRHHAREKKFIVREFVYNEE 111
+D ++ L+ V LFKK EF AREKKFI REF Y+EE
Sbjct: 80 EDAEYVLFNVHLFKKNVQEFTTAAREKKFIPREFNYSEE 118
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 42/71 (59%), Gaps = 8/71 (11%)
Query: 105 EFVYNEEEL--------RNQVTEWVQNYEKLTAMIVPRSSQLVSQDQDFALYTVTLFKKV 156
+FV N E L ++ +++ ++YE L+ +VP S+ ++++D ++ L+ V LFKK
Sbjct: 36 DFVLNSEHLTTVLVAVPKSLKSDFEKSYETLSKNVVPASASVIAEDAEYVLFNVHLFKKN 95
Query: 157 QDEFRHHAREK 167
EF AREK
Sbjct: 96 VQEFTTAAREK 106
>pdb|1U7L|A Chain A, Crystal Structure Of Subunit C (Vma5p) Of The Yeast
V-Atpase
Length = 392
Score = 97.4 bits (241), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 47/99 (47%), Positives = 72/99 (72%)
Query: 13 SGSLLTRNLADLVKKEHFILDSEYLTTLLVVVPRNQVTEWVQNYEKLTAMIVPRSSQLVS 72
+G L R+L D+VK E F+L+SE+LTT+LV VP++ +++ ++YE L+ +VP S+ +++
Sbjct: 167 TGDLSVRSLHDIVKPEDFVLNSEHLTTVLVAVPKSLKSDFEKSYETLSKNVVPASASVIA 226
Query: 73 QDQDFALYTVTLFKKVQDEFRHHAREKKFIVREFVYNEE 111
+D ++ L+ V LFKK EF AREKKFI REF Y+EE
Sbjct: 227 EDAEYVLFNVHLFKKNVQEFTTAAREKKFIPREFNYSEE 265
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 42/71 (59%), Gaps = 8/71 (11%)
Query: 105 EFVYNEEEL--------RNQVTEWVQNYEKLTAMIVPRSSQLVSQDQDFALYTVTLFKKV 156
+FV N E L ++ +++ ++YE L+ +VP S+ ++++D ++ L+ V LFKK
Sbjct: 183 DFVLNSEHLTTVLVAVPKSLKSDFEKSYETLSKNVVPASASVIAEDAEYVLFNVHLFKKN 242
Query: 157 QDEFRHHAREK 167
EF AREK
Sbjct: 243 VQEFTTAAREK 253
>pdb|3LV8|A Chain A, 1.8 Angstrom Resolution Crystal Structure Of A Thymidylate
Kinase (Tmk) From Vibrio Cholerae O1 Biovar Eltor Str.
N16961 In Complex With Tmp, Thymidine-5'-Diphosphate And
Adp
pdb|3N2I|A Chain A, 2.25 Angstrom Resolution Crystal Structure Of A
Thymidylate Kinase (tmk) From Vibrio Cholerae O1 Biovar
Eltor Str. N16961 In Complex With Thymidine
pdb|3N2I|B Chain B, 2.25 Angstrom Resolution Crystal Structure Of A
Thymidylate Kinase (tmk) From Vibrio Cholerae O1 Biovar
Eltor Str. N16961 In Complex With Thymidine
Length = 236
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 36/93 (38%), Gaps = 21/93 (22%)
Query: 2 NFNTIVQWSNPSGSLLTRNLADLVKKEHFILDSEYLTTLL------------VVVPRNQV 49
+ I + P G+LL L LVK+EH + + +T LL V+ P
Sbjct: 55 GIDHITRTREPGGTLLAEKLRALVKEEHPGEELQDITELLLVYAARVQLVENVIKPALAR 114
Query: 50 TEWV---------QNYEKLTAMIVPRSSQLVSQ 73
EWV Q Y+ I P + Q + Q
Sbjct: 115 GEWVVGDRHDMSSQAYQGGGRQIAPSTMQSLKQ 147
>pdb|1IHP|A Chain A, Structure Of Phosphomonoesterase
Length = 438
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 108 YNEEELRNQVTEWVQNYEKLTAMIVP-----RSSQLVSQDQDF 145
+ E+EL N ++ Q YE LT IVP SS++++ + F
Sbjct: 102 FGEQELVNSGIKFYQRYESLTRNIVPFIRSSGSSRVIASGKKF 144
>pdb|3K4P|A Chain A, Aspergillus Niger Phytase
pdb|3K4P|B Chain B, Aspergillus Niger Phytase
pdb|3K4Q|A Chain A, Aspergillus Niger Phytase In Complex With Myo-Inositol
Hexakis Sulfate
pdb|3K4Q|B Chain B, Aspergillus Niger Phytase In Complex With Myo-Inositol
Hexakis Sulfate
Length = 444
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 108 YNEEELRNQVTEWVQNYEKLTAMIVP-----RSSQLVSQDQDF 145
+ E+EL N ++ Q YE LT IVP SS++++ + F
Sbjct: 108 FGEQELVNSGIKFYQRYESLTRNIVPFIRSSGSSRVIASGKKF 150
>pdb|3HBK|A Chain A, Crystal Structure Of Putative Glycosyl Hydrolase, Was
Domain Of Unknown Function (Duf1080) (Yp_001302580.1)
From Parabacteroides Distasonis Atcc 8503 At 2.36 A
Resolution
Length = 245
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 14 GSLLTRNLADLVKKE--HFILDSEYLTTLLVVVPRNQVTEWVQN 55
GS +L DL K E HF E+ T ++ V P N V W+
Sbjct: 141 GSRTLGSLYDLKKSENIHFNGVGEWNTAVVKVFPNNHVEHWLNG 184
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 0.131 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,811,083
Number of Sequences: 62578
Number of extensions: 160217
Number of successful extensions: 588
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 569
Number of HSP's gapped (non-prelim): 28
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
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: 48 (23.1 bits)