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= 012054
(472 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3UV4|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
pdb|3UV4|B Chain B, Crystal Structure Of The Second Bromodomain Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 158
Score = 31.6 bits (70), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 26/123 (21%), Positives = 53/123 (43%), Gaps = 9/123 (7%)
Query: 255 SSGADDQSGSLRKDSIDDIKGVFESVAQN---------ESAFVFRHRLDSQKRGRYKKMI 305
SSG D + +L S+DD + F + N ++ F H ++ + Y K+I
Sbjct: 8 SSGVDLGTENLYFQSMDDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVPDYYKVI 67
Query: 306 LRHMDVDTXXXXXXXXXXXXXKELFRDLLLLANNAVVFYSKNTREHKSAFLLRTIVLKTM 365
+ MD++T + D+ L+ N+V + ++ K+A + + +T+
Sbjct: 68 VNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTL 127
Query: 366 RQY 368
+Y
Sbjct: 128 TEY 130
>pdb|3L2O|B Chain B, Structure-Based Mechanism Of Dimerization-Dependent
Ubiquitination By The Scffbx4 Ubiquitin Ligase
Length = 312
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 5/62 (8%)
Query: 241 RKENSTPVSGQFARSSGADDQSGSLRKDSIDDIKGVFESVAQNESAFVFRHRLDSQKRGR 300
R+E+++ V+ F+R + DDQ GS R I I+ V E V F++ ++ KR
Sbjct: 173 REEHTSAVNKMFSRHNEGDDQQGS-RYSVIPQIQKVCEVV----DGFIYVANAEAHKRHE 227
Query: 301 YK 302
++
Sbjct: 228 WQ 229
>pdb|1DIK|A Chain A, Pyruvate Phosphate Dikinase
Length = 874
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 40/87 (45%), Gaps = 9/87 (10%)
Query: 44 YTVTPEMCKAHY-------EDLQQRFYGCKAWFEELRKQRMAELKRALELSENSI--GSL 94
+TVT E C +Y +++Q + + W EEL ++ + + L +S S S+
Sbjct: 40 FTVTTEACTEYYNSGKQITQEIQDQIFEAITWLEELNGKKFGDTEDPLLVSVRSAARASM 99
Query: 95 ESKLETLKAERGDDCQVDNDCSQTESP 121
++T+ +D V+ +T +P
Sbjct: 100 PGMMDTILNLGLNDVAVEGFAKKTGNP 126
>pdb|2DIK|A Chain A, R337a Mutant Of Pyruvate Phosphate Dikinase
Length = 873
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 40/87 (45%), Gaps = 9/87 (10%)
Query: 44 YTVTPEMCKAHY-------EDLQQRFYGCKAWFEELRKQRMAELKRALELSENSI--GSL 94
+TVT E C +Y +++Q + + W EEL ++ + + L +S S S+
Sbjct: 39 FTVTTEACTEYYNSGKQITQEIQDQIFEAITWLEELNGKKFGDTEDPLLVSVRSAARASM 98
Query: 95 ESKLETLKAERGDDCQVDNDCSQTESP 121
++T+ +D V+ +T +P
Sbjct: 99 PGMMDTILNLGLNDVAVEGFAKKTGNP 125
>pdb|1JDE|A Chain A, K22a Mutant Of Pyruvate, Phosphate Dikinase
Length = 873
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 40/87 (45%), Gaps = 9/87 (10%)
Query: 44 YTVTPEMCKAHY-------EDLQQRFYGCKAWFEELRKQRMAELKRALELSENSI--GSL 94
+TVT E C +Y +++Q + + W EEL ++ + + L +S S S+
Sbjct: 39 FTVTTEACTEYYNSGKQITQEIQDQIFEAITWLEELNGKKFGDTEDPLLVSVRSGARASM 98
Query: 95 ESKLETLKAERGDDCQVDNDCSQTESP 121
++T+ +D V+ +T +P
Sbjct: 99 PGMMDTILNLGLNDVAVEGFAKKTGNP 125
>pdb|1KBL|A Chain A, Pyruvate Phosphate Dikinase
pdb|1KC7|A Chain A, Pyruvate Phosphate Dikinase With Bound
Mg-Phosphonopyruvate
Length = 873
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 40/87 (45%), Gaps = 9/87 (10%)
Query: 44 YTVTPEMCKAHY-------EDLQQRFYGCKAWFEELRKQRMAELKRALELSENSI--GSL 94
+TVT E C +Y +++Q + + W EEL ++ + + L +S S S+
Sbjct: 39 FTVTTEACTEYYNSGKQITQEIQDQIFEAITWLEELNGKKFGDTEDPLLVSVRSGARASM 98
Query: 95 ESKLETLKAERGDDCQVDNDCSQTESP 121
++T+ +D V+ +T +P
Sbjct: 99 PGMMDTILNLGLNDVAVEGFAKKTGNP 125
>pdb|2R82|A Chain A, Pyruvate Phosphate Dikinase (Ppdk) Triple Mutant
R219eE271RS262D Adapts A Second Conformational State
Length = 874
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 40/87 (45%), Gaps = 9/87 (10%)
Query: 44 YTVTPEMCKAHY-------EDLQQRFYGCKAWFEELRKQRMAELKRALELSENSI--GSL 94
+TVT E C +Y +++Q + + W EEL ++ + + L +S S S+
Sbjct: 40 FTVTTEACTEYYNSGKQITQEIQDQIFEAITWLEELNGKKFGDTEDPLLVSVRSGARASM 99
Query: 95 ESKLETLKAERGDDCQVDNDCSQTESP 121
++T+ +D V+ +T +P
Sbjct: 100 PGMMDTILNLGLNDVAVEGFAKKTGNP 126
>pdb|1GGO|A Chain A, T453a Mutant Of Pyruvate, Phosphate Dikinase
Length = 873
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 40/87 (45%), Gaps = 9/87 (10%)
Query: 44 YTVTPEMCKAHY-------EDLQQRFYGCKAWFEELRKQRMAELKRALELSENSI--GSL 94
+TVT E C +Y +++Q + + W EEL ++ + + L +S S S+
Sbjct: 39 FTVTTEACTEYYNSGKQITQEIQDQIFEAITWLEELNGKKFGDTEDPLLVSVRSGARASM 98
Query: 95 ESKLETLKAERGDDCQVDNDCSQTESP 121
++T+ +D V+ +T +P
Sbjct: 99 PGMMDTILNLGLNDVAVEGFAKKTGNP 125
>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 28.9 bits (63), Expect = 6.8, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 329 LFRDLLLLANNAVVFYSKNTREHKSAFLLRTIVLKTMRQYFKDNE 373
L D LL NNA +Y ++ E+K+A L + L+T ++ + E
Sbjct: 72 LTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQKGE 116
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
0.314 0.128 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,620,907
Number of Sequences: 62578
Number of extensions: 410692
Number of successful extensions: 721
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 716
Number of HSP's gapped (non-prelim): 16
length of query: 472
length of database: 14,973,337
effective HSP length: 102
effective length of query: 370
effective length of database: 8,590,381
effective search space: 3178440970
effective search space used: 3178440970
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)