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= psy7187
(214 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3F9V|A Chain A, Crystal Structure Of A Near Full-Length Archaeal Mcm:
Functional Insights For An Aaa+ Hexameric Helicase
Length = 595
Score = 178 bits (451), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 99/200 (49%), Positives = 135/200 (67%), Gaps = 10/200 (5%)
Query: 1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
+E GA+VLADGG+ IDE DKMR++DRVAIHEAMEQQT+SIAKAGI LN+R +V+AA
Sbjct: 382 LEAGALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAG 441
Query: 61 NSVFGRW-DDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEI 119
N FGR+ + NI+ PTILSRFD+IFI+KD+ E +D LA +I+ VH +G+
Sbjct: 442 NPKFGRYISERPVSDNINLPPTILSRFDLIFILKDQPGE-QDRELANYILDVH--SGK-- 496
Query: 120 DVASDGELPLPVLKKYINYCRMRCGPRLTHEAGEKLKNRYVLMRNGSKEDGEKKLNIPIT 179
++ + + L+KYI Y R P++T EA + + +V MR S E + I IT
Sbjct: 497 --STKNIIDIDTLRKYIAYARKYVTPKITSEAKNLITDFFVEMRKKSSETPDSP--ILIT 552
Query: 180 VRQLEAIVRIAESMAKMQLE 199
RQLEA++RI+E+ AKM L+
Sbjct: 553 PRQLEALIRISEAYAKMALK 572
>pdb|3F8T|A Chain A, Crystal Structure Analysis Of A Full-Length Mcm Homolog
From Methanopyrus Kandleri
Length = 506
Score = 80.1 bits (196), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 65/201 (32%), Positives = 102/201 (50%), Gaps = 27/201 (13%)
Query: 1 MEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAA 60
+ GA VLADGG++ +D + E R A+ EAM++ T+++ GI LN+RC+VLAA
Sbjct: 291 LRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTV--DGI--ALNARCAVLAAI 346
Query: 61 NSVFGRWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDETRDITLAKHIMKVHMTAGQEID 120
N +W ID LS FD+I + V G+ +
Sbjct: 347 NP-GEQWPSDPPIARIDLDQDFLSHFDLIA-----------------FLGVDPRPGEPEE 388
Query: 121 VASDGELP-LPVLKKYINYC-RMRCGPRLTHEAGEKLKNRYVLMRNGSKED-GEKKLNIP 177
D E+P +L++Y+ Y R P LT EA ++L++ Y R +E G +P
Sbjct: 389 --QDTEVPSYTLLRRYLLYAIREHPAPELTEEARKRLEHWYETRREEVEERLGMGLPTLP 446
Query: 178 ITVRQLEAIVRIAESMAKMQL 198
+T RQLE++ R+A++ A+M+L
Sbjct: 447 VTRRQLESVERLAKAHARMRL 467
>pdb|3LB6|D Chain D, The Structure Of Il-13 In Complex With Il-13ralpha2
Length = 380
Score = 31.2 bits (69), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 15 CIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTL----NSRCSVLAAANSVFGRWDDT 70
C D ++REDD + +E +T ++ T L S+ ++ + + ++ W D
Sbjct: 269 CFDYEIEIREDDTTLVTATVENETYTLKTTNETRQLCFVVRSKVNIYCSDDGIWSEWSDK 328
Query: 71 KGEQNIDFMPTILSRFDMIF 90
+ + D L RF + F
Sbjct: 329 QCWEGEDLSKKTLLRFWLPF 348
>pdb|3LB6|C Chain C, The Structure Of Il-13 In Complex With Il-13ralpha2
Length = 380
Score = 31.2 bits (69), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 15 CIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTL----NSRCSVLAAANSVFGRWDDT 70
C D ++REDD + +E +T ++ T L S+ ++ + + ++ W D
Sbjct: 269 CFDYEIEIREDDTTLVTATVENETYTLKTTNETRQLCFVVRSKVNIYCSDDGIWSEWSDK 328
Query: 71 KGEQNIDFMPTILSRFDMIF 90
+ + D L RF + F
Sbjct: 329 QCWEGEDLSKKTLLRFWLPF 348
>pdb|3MDQ|A Chain A, Crystal Structure Of An Exopolyphosphatase (Chu_0316) From
Cytophaga Hutchinsonii Atcc 33406 At 1.50 A Resolution
Length = 315
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 32/70 (45%), Gaps = 13/70 (18%)
Query: 11 GGVVCIDEF---DKMREDDRVAIHEAMEQQTISIAKAGITTTLNS-RCSVLAAANSVFGR 66
GG ID F D REDDRV H ++ + + KA +N+ R + L + F
Sbjct: 162 GGQRLIDRFHVHDPXREDDRVXXHNYFDEVLVPLEKA-----INTWRPTQLIGCSGTF-- 214
Query: 67 WDDTKGEQNI 76
DT E NI
Sbjct: 215 --DTLAEXNI 222
>pdb|2PAJ|A Chain A, Crystal Structure Of An Amidohydrolase From An
Environmental Sample Of Sargasso Sea
Length = 492
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 150 EAGEKLKNRYVLMRNGSKEDGEKKLNIPITVRQ--LEAIVRIAESMA 194
E EKL R+VL+R G+ + + + ++P +R L+A V E +A
Sbjct: 155 EEAEKLGLRFVLLRGGATQTRQLEADLPTALRPETLDAYVADIERLA 201
>pdb|2J0X|A Chain A, Crystal Structure Of E. Coli Aspartokinase Iii In Complex
With Lysine And Aspartate (T-State)
pdb|2J0X|B Chain B, Crystal Structure Of E. Coli Aspartokinase Iii In Complex
With Lysine And Aspartate (T-State)
pdb|2J0W|A Chain A, Crystal Structure Of E. Coli Aspartokinase Iii In Complex
With Aspartate And Adp (R-State)
Length = 449
Score = 26.9 bits (58), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 28/123 (22%), Positives = 52/123 (42%), Gaps = 7/123 (5%)
Query: 6 MVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRCSVLAAANSVFG 65
+V++ G + +FD M + + +A + + A AGIT L + L
Sbjct: 4 IVVSKFGGTSVADFDAMNRSADIVLSDANVRLVVLSASAGITNLLVALAEGLEPGE---- 59
Query: 66 RWDDTKGEQNIDFMPTILSRFDMIFIIKDEHDE-TRDITLAKHIMKVHMTAGQEIDVASD 124
R++ +NI F IL R +I++E + +IT+ + + ++ S
Sbjct: 60 RFEKLDAIRNIQF--AILERLRYPNVIREEIERLLENITVLAEAAALATSPALTDELVSH 117
Query: 125 GEL 127
GEL
Sbjct: 118 GEL 120
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
0.321 0.136 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,869,010
Number of Sequences: 62578
Number of extensions: 222351
Number of successful extensions: 571
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 563
Number of HSP's gapped (non-prelim): 8
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)