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= 024340
(269 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 34/63 (53%), Gaps = 10/63 (15%)
Query: 42 EGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCN 101
E LECPIC ESF + P +L CGHT+C+ C+ L + I + CP+C+
Sbjct: 14 EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSIN----------GVRCPFCS 63
Query: 102 MVS 104
++
Sbjct: 64 KIT 66
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 32.7 bits (73), Expect = 0.19, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 4/48 (8%)
Query: 28 ELSDDDASLNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVL 75
E+ D + E ECPIC + P CGH CK C++
Sbjct: 10 EIQGYDVEFDPPLESKYECPICLMALREAVQTP----CGHRFCKACII 53
>pdb|2ECM|A Chain A, Solution Structure Of The Ring Domain Of The Ring Finger
And Chy Zinc Finger Domain-Containing Protein 1 From
Mus Musculus
Length = 55
Score = 31.2 bits (69), Expect = 0.56, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 20/40 (50%)
Query: 46 CPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLP 85
CPIC E + + +VL CGH L + C + + R P
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCP 47
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 32 DDASLNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCV 74
S N +EE + CPIC E P L CGH+LC+ C+
Sbjct: 2 SSGSSGNVQEE-VTCPICLELLTE----PLSLDCGHSLCRACI 39
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGL 77
N+ ++ LECPIC E P C H CK C+L L
Sbjct: 16 NAMQKILECPICLELIKE----PVSTKCDHIFCKFCMLKL 51
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 30.8 bits (68), Expect = 0.82, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 20/40 (50%)
Query: 46 CPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLP 85
CPIC E + + +VL CGH L + C + + R P
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCP 47
>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The
P1 Space Group
pdb|3HCU|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The
C2 Space Group
pdb|3HCU|C Chain C, Crystal Structure Of Traf6 In Complex With Ubc13 In The
C2 Space Group
Length = 118
Score = 30.4 bits (67), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 4/49 (8%)
Query: 27 SELSDDDASLNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVL 75
E+ D + E ECPIC + P CGH CK C++
Sbjct: 2 EEIQGYDVEFDPPLESKYECPICLMALREAVQTP----CGHRFCKACII 46
>pdb|3B9T|A Chain A, Crystal Structure Of Predicted AcetamidaseFORMAMIDASE
(YP_546212.1) From Methylobacillus Flagellatus Kt At
1.58 A Resolution
pdb|3B9T|B Chain B, Crystal Structure Of Predicted AcetamidaseFORMAMIDASE
(YP_546212.1) From Methylobacillus Flagellatus Kt At
1.58 A Resolution
pdb|3B9T|C Chain C, Crystal Structure Of Predicted AcetamidaseFORMAMIDASE
(YP_546212.1) From Methylobacillus Flagellatus Kt At
1.58 A Resolution
pdb|3B9T|D Chain D, Crystal Structure Of Predicted AcetamidaseFORMAMIDASE
(YP_546212.1) From Methylobacillus Flagellatus Kt At
1.58 A Resolution
Length = 484
Score = 30.4 bits (67), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 25/51 (49%)
Query: 2 WNFASKAISGAIRLKNDALKPSQVSSELSDDDASLNNSREEGLECPICWES 52
W F SK++ + L++ + + S+DDASL + G E W+S
Sbjct: 85 WGFFSKSLKPVVELESGDFATIETLTHHSNDDASLXVKGDPGAESVFYWDS 135
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 4/49 (8%)
Query: 27 SELSDDDASLNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVL 75
E+ D + E ECPIC + P CGH CK C++
Sbjct: 2 EEIQGYDVEFDPPLESKYECPICLMALREAVQTP----CGHRFCKACII 46
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 29.6 bits (65), Expect = 1.8, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 15/31 (48%), Gaps = 4/31 (12%)
Query: 45 ECPICWESFNVVENLPYVLWCGHTLCKNCVL 75
ECPIC + P CGH CK C++
Sbjct: 8 ECPICLMALREAVQTP----CGHRFCKACII 34
>pdb|1E4U|A Chain A, N-Terminal Ring Finger Domain Of Human Not-4
Length = 78
Score = 29.6 bits (65), Expect = 1.9, Method: Composition-based stats.
Identities = 10/36 (27%), Positives = 22/36 (61%)
Query: 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNC 73
+++E+ +ECP+C E + + + CG+ +C+ C
Sbjct: 6 DAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFC 41
>pdb|2Y43|A Chain A, Rad18 Ubiquitin Ligase Ring Domain Structure
pdb|2Y43|B Chain B, Rad18 Ubiquitin Ligase Ring Domain Structure
Length = 99
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 41 EEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPT 86
++ L C IC+E FN+ +P C H C C+ + PT
Sbjct: 20 DDLLRCGICFEYFNIAMIIP---QCSHNYCSLCIRKFLSYKTQCPT 62
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 28.1 bits (61), Expect = 5.4, Method: Composition-based stats.
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCV 74
N +E + CPIC + + P + CGH C C+
Sbjct: 15 NKLQEEVICPICLD----ILQKPVTIDCGHNFCLKCI 47
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 28.1 bits (61), Expect = 5.7, Method: Composition-based stats.
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCV 74
N +E + CPIC + + P + CGH C C+
Sbjct: 15 NKLQEEVICPICLD----ILQKPVTIDCGHNFCLKCI 47
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 27.7 bits (60), Expect = 6.6, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVL 75
GLECP+C E + + E++ L C H +C++
Sbjct: 15 GLECPVCKEDYALGESVRQ-LPCNHLFHDSCIV 46
>pdb|3NG2|A Chain A, Crystal Structure Of The Rnf4 Ring Domain Dimer
pdb|3NG2|B Chain B, Crystal Structure Of The Rnf4 Ring Domain Dimer
Length = 71
Score = 27.3 bits (59), Expect = 9.4, Method: Composition-based stats.
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 44 LECPICWESFN-VVEN--LPYVLWCGHTLCKNCV 74
+ CPIC + ++ +V+N L CGH C C+
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCL 44
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
0.324 0.136 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,752,406
Number of Sequences: 62578
Number of extensions: 232675
Number of successful extensions: 547
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 535
Number of HSP's gapped (non-prelim): 25
length of query: 269
length of database: 14,973,337
effective HSP length: 97
effective length of query: 172
effective length of database: 8,903,271
effective search space: 1531362612
effective search space used: 1531362612
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)