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= 036518
(223 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1LN4|A Chain A, Crystal Structure Of E. Coli Yhby
Length = 104
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 1/86 (1%)
Query: 41 ELTGEERFYFKKMAQKRSNYVPIGRRGVFGGVILNMHMHWKKHETVKVFCKPSKPGQIHE 100
+L+ +++ + K +A V +G G+ GV+ + + HE +KV
Sbjct: 2 DLSTKQKQHLKGLAHPLKPVVLLGSNGLTEGVLAEIEQALEHHELIKVKIATEDRETKTL 61
Query: 101 FAEEIARLSGGIPIQIIGDDTVIFYR 126
E I R +G +Q+IG T++ YR
Sbjct: 62 IVEAIVRETGACNVQVIG-KTLVLYR 86
>pdb|1RQ8|A Chain A, Solution Structure Of The Hypothetical Protein Sav1595
From Staphylococcus Aureus, A Putative Rna Binding
Protein
Length = 104
Score = 33.9 bits (76), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 39/87 (44%)
Query: 42 LTGEERFYFKKMAQKRSNYVPIGRRGVFGGVILNMHMHWKKHETVKVFCKPSKPGQIHEF 101
LTG+++ Y + +A IG+ G+ +I + + E +KV + E
Sbjct: 2 LTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKEL 61
Query: 102 AEEIARLSGGIPIQIIGDDTVIFYRGK 128
AE ++ + +Q+IG VI+ K
Sbjct: 62 AETLSEATRSELVQVIGSMIVIYRESK 88
>pdb|3DWG|C Chain C, Crystal Structure Of A Sulfur Carrier Protein Complex
Found In The Cysteine Biosynthetic Pathway Of
Mycobacterium Tuberculosis
pdb|3DWM|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Cyso, An
Antigen
pdb|3DWM|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Cyso, An
Antigen
Length = 93
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 7/61 (11%)
Query: 69 FGGVILNMHMHWKKHETVKVFCKPSKPGQIHEFA-----EEIARLSGGIPIQIIGDDTVI 123
G VI ++ ++ + PS PG++H F +E R SGG+ I D+V
Sbjct: 28 LGAVISDLEANYSGIS--ERLMDPSSPGKLHRFVNIYVNDEDVRFSGGLATAIADGDSVT 85
Query: 124 F 124
Sbjct: 86 I 86
>pdb|3J0F|I Chain I, Sindbis Virion
pdb|3J0F|J Chain J, Sindbis Virion
pdb|3J0F|K Chain K, Sindbis Virion
pdb|3J0F|L Chain L, Sindbis Virion
Length = 423
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 80 WKKHETVKVFCKPSKPGQIHEFAEEIAR 107
W HE V+V+ + S PG H + EI +
Sbjct: 330 WGNHEPVRVYAQESAPGDPHGWPHEIVQ 357
>pdb|3AGK|A Chain A, Crystal Structure Of Archaeal Translation Termination
Factor, Arf1
pdb|3VMF|B Chain B, Archaeal Protein
Length = 373
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 14/67 (20%)
Query: 22 LRLKRYEVPK-VQGPVVKPHELTGE-----ERF-------YFKKMAQKRSNY-VPIGRRG 67
L+ R EV K ++G V H++ G+ ER +FKK+ ++ SN VP+ +G
Sbjct: 158 LKGARLEVLKELEGFVPGKHKMGGQSQRRYERIIEQMVDEFFKKVGEEASNLLVPLAEKG 217
Query: 68 VFGGVIL 74
V GVI+
Sbjct: 218 VLKGVIV 224
>pdb|2BW0|A Chain A, Crystal Structure Of The Hydrolase Domain Of Human 10-
Formyltetrahydrofolate 2 Dehydrogenase
pdb|2CFI|A Chain A, The Hydrolase Domain Of Human 10-Fthfd In Complex With 6-
Formyltetrahydropterin
Length = 329
Score = 26.9 bits (58), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 9/71 (12%)
Query: 44 GEERFYFKKMAQKRSNYVPIGRRGVFGGVILNMHMHWKKHETVKVFCKPSKPGQIHEFAE 103
G E YF+ M + + + +FG + H+ + HE V VF P K G+
Sbjct: 14 GTENLYFQSMK------IAVIGQSLFGQEVY-CHLRKEGHEVVGVFTVPDKDGKADPLGL 66
Query: 104 EIARLSGGIPI 114
E + G+P+
Sbjct: 67 EAEK--DGVPV 75
>pdb|1RO0|A Chain A, Bifunctional Dna PrimasePOLYMERASE DOMAIN OF ORF904 FROM
The Archaeal Plasmid Prn1- Triple Mutant F50mL107ML110M
Semet Remote
pdb|1RO2|A Chain A, Bifunctional Dna PrimasePOLYMERASE DOMAIN OF ORF904 FROM
The Archaeal Plasmid Prn1- Triple Mutant F50mL107ML110M
Manganese Soak
Length = 216
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 31/71 (43%), Gaps = 12/71 (16%)
Query: 138 PIDTLSKKKAL-EKSKYEQSL---ESVRRFIAMAEKELELYYRHIALYGDPNNRNPMSIM 193
PID SKK L E KY + E +RF+ M E+ Y P + M IM
Sbjct: 20 PIDPESKKPVLKEWQKYSHEMPSDEEKQRFLKMIEEGYN--------YAIPGGQKGMVIM 71
Query: 194 DNPSKVTKESW 204
D SK ++W
Sbjct: 72 DFESKEKLKAW 82
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 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,548,705
Number of Sequences: 62578
Number of extensions: 258480
Number of successful extensions: 620
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 615
Number of HSP's gapped (non-prelim): 13
length of query: 223
length of database: 14,973,337
effective HSP length: 95
effective length of query: 128
effective length of database: 9,028,427
effective search space: 1155638656
effective search space used: 1155638656
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)