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= 045928
(116 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 77.8 bits (190), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 44/104 (42%), Positives = 62/104 (59%), Gaps = 7/104 (6%)
Query: 10 KYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDD-QLNRGNEISESL--AIKASAISV 66
KYD+F+S G DT +F S LY L R++I+TF DD +L G S L I+ S +V
Sbjct: 8 KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAV 67
Query: 67 IIFSEDYASSRWCLDELVEILECKKCCARNAE----SSEPNNYR 106
++ SE+YA+S WCLDELV I++ +K + EPN+ R
Sbjct: 68 VVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVR 111
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 70.1 bits (170), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 40/89 (44%), Positives = 53/89 (59%), Gaps = 3/89 (3%)
Query: 10 KYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFI-DDQLNRGNEISESL--AIKASAISV 66
+Y++F+S G DT + FT LY +L R I TF DD+L +G EI +L AI S I V
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 67 IIFSEDYASSRWCLDELVEILECKKCCAR 95
I S YA S+WCL EL EI+ ++ R
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPR 123
>pdb|1JR3|D Chain D, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1JQJ|C Chain C, Mechanism Of Processivity Clamp Opening By The Delta
Subunit Wrench Of The Clamp Loader Complex Of E. Coli
Dna Polymerase Iii: Structure Of The Beta-Delta Complex
pdb|1JQJ|D Chain D, Mechanism Of Processivity Clamp Opening By The Delta
Subunit Wrench Of The Clamp Loader Complex Of E. Coli
Dna Polymerase Iii: Structure Of The Beta-Delta Complex
pdb|1XXI|A Chain A, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|F Chain F, Adp Bound E. Coli Clamp Loader Complex
pdb|3GLF|A Chain A, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|F Chain F, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLG|A Chain A, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|F Chain F, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLH|A Chain A, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|F Chain F, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|K Chain K, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLI|A Chain A, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|F Chain F, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
Length = 343
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 27/58 (46%)
Query: 37 QNIQTFIDDQLNRGNEISESLAIKASAISVIIFSEDYASSRWCLDELVEILECKKCCA 94
QN + + + LNR ++ A++ + + +DY S W E + +L C K A
Sbjct: 280 QNRRGMMGEALNRLSQTQLRQAVQLLTRTELTLKQDYGQSVWAELEGLSLLLCHKPLA 337
>pdb|2Q8Y|A Chain A, Structural Insight Into The Enzymatic Mechanism Of The
Phophothreonine Lyase
pdb|2Z8P|A Chain A, Structural Basis For The Catalytic Mechanism Of
Phosphothreonine Lyase
Length = 241
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/90 (20%), Positives = 39/90 (43%), Gaps = 15/90 (16%)
Query: 3 SFSGNNKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESLAIKAS 62
F NN YD+F+ E S Q+ F D+ + + + + +
Sbjct: 75 GFQLNNHGYDVFIHARRE--------------SPQSQGKFAGDKFHI-SVLRDMVPQAFQ 119
Query: 63 AISVIIFSEDYASSRWCLDELVEILECKKC 92
A+S ++FSED +W + ++ ++++ +
Sbjct: 120 ALSGLLFSEDSPVDKWAVTDMEKVVQQARV 149
>pdb|1G6G|A Chain A, X-Ray Structure Of The N-Terminal Fha Domain From S.
Cerevisiae Rad53p In Complex With A Phosphothreonine
Peptide At 1.6 A Resolution
pdb|1G6G|B Chain B, X-Ray Structure Of The N-Terminal Fha Domain From S.
Cerevisiae Rad53p In Complex With A Phosphothreonine
Peptide At 1.6 A Resolution
Length = 127
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/65 (21%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 8 NKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESLAIKASAISVI 67
NK + I + G + +++ + L+ Q ++ + L++G+EI+ + +++ +S++
Sbjct: 58 NKHFQILLGEDGNLLLNDISTN-GTWLNGQKVEKNSNQLLSQGDEITVGVGVESDILSLV 116
Query: 68 IFSED 72
IF D
Sbjct: 117 IFIND 121
>pdb|1J4P|A Chain A, Nmr Structure Of The Fha1 Domain Of Rad53 In Complex With
A Rad9-Derived Phosphothreonine (At T155) Peptide
pdb|1J4Q|A Chain A, Nmr Structure Of The Fha1 Domain Of Rad53 In Complex With
A Rad9-Derived Phosphothreonine (At T192) Peptide
pdb|1K3N|A Chain A, Nmr Structure Of The Fha1 Domain Of Rad53 In Complex With
A Rad9-Derived Phosphothreonine (At T155) Peptide
pdb|1K3Q|A Chain A, Nmr Structure Of The Fha1 Domain Of Rad53 In Complex With
A Rad9-Derived Phosphothreonine (At T192) Peptide
pdb|1J4O|A Chain A, Refined Nmr Structure Of The Fha1 Domain Of Yeast Rad53
pdb|1K3J|A Chain A, Refined Nmr Structure Of The Fha1 Domain Of Yeast Rad53
Length = 151
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 16/75 (21%), Positives = 41/75 (54%), Gaps = 3/75 (4%)
Query: 8 NKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESLAIKASAISVI 67
NK + I + G + +++ + L+ Q ++ + L++G+EI+ + +++ +S++
Sbjct: 73 NKHFQILLGEDGNLLLNDISTN-GTWLNGQKVEKNSNQLLSQGDEITVGVGVESDILSLV 131
Query: 68 IFSEDYASSRWCLDE 82
IF D + CL++
Sbjct: 132 IFIND--KFKQCLEQ 144
>pdb|2JQI|A Chain A, Nmr Structure Of The Rad53 Fha1 Domain In Complex With A
Phosphothreonien Peptide Derived From Rad53 Scd1
pdb|2A0T|A Chain A, Nmr Structure Of The Fha1 Domain Of Rad53 In Complex With
A Biological Relevant Phosphopeptide Derived From Madt1
Length = 151
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 16/75 (21%), Positives = 41/75 (54%), Gaps = 3/75 (4%)
Query: 8 NKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESLAIKASAISVI 67
NK + I + G + +++ + L+ Q ++ + L++G+EI+ + +++ +S++
Sbjct: 73 NKHFQILLGEDGNLLLNDISTN-GTWLNGQKVEKNSNQLLSQGDEITVGVGVESDILSLV 131
Query: 68 IFSEDYASSRWCLDE 82
IF D + CL++
Sbjct: 132 IFIND--KFKQCLEQ 144
>pdb|1G3G|A Chain A, Nmr Structure Of The Fha1 Domain Of Yeast Rad53
Length = 164
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/75 (21%), Positives = 41/75 (54%), Gaps = 3/75 (4%)
Query: 8 NKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFIDDQLNRGNEISESLAIKASAISVI 67
NK + I + G + +++ + L+ Q ++ + L++G+EI+ + +++ +S++
Sbjct: 86 NKHFQILLGEDGNLLLNDISTN-GTWLNGQKVEKNSNQLLSQGDEITVGVGVESDILSLV 144
Query: 68 IFSEDYASSRWCLDE 82
IF D + CL++
Sbjct: 145 IFIND--KFKQCLEQ 157
>pdb|2FJT|A Chain A, Adenylyl Cyclase Class Iv From Yersinia Pestis
pdb|2FJT|B Chain B, Adenylyl Cyclase Class Iv From Yersinia Pestis
Length = 182
Score = 25.4 bits (54), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 11/41 (26%), Positives = 23/41 (56%)
Query: 3 SFSGNNKKYDIFVSCSGEDTCDSFTSHLYSALSRQNIQTFI 43
+F+ NN + DI++ +G+D D S + ++ I+ +I
Sbjct: 37 AFTLNNHEKDIYLDANGQDLADQQISMVLREMNPSGIRLWI 77
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
0.317 0.129 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,066,188
Number of Sequences: 62578
Number of extensions: 95642
Number of successful extensions: 220
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 210
Number of HSP's gapped (non-prelim): 13
length of query: 116
length of database: 14,973,337
effective HSP length: 79
effective length of query: 37
effective length of database: 10,029,675
effective search space: 371097975
effective search space used: 371097975
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)