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= 017319
(373 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 322 EHNCCVCMVRHKGAAFIPCGH-TFCRLCSRELWVQRGNCPLCNGFI 366
E C VCM + FIPCGH C+ C+ L CP+C G I
Sbjct: 295 ERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL----RKCPICRGII 336
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 37.7 bits (86), Expect = 0.009, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 321 IEHNCCVCMVRHKGAAFIPCGHTFCRLCSRELW--VQRG-NCPLC 362
+E +C VC+ K I CGH FC+ C W ++R CP+C
Sbjct: 14 VEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2ECG|A Chain A, Solution Structure Of The Ring Domain Of The Baculoviral
Iap Repeat-Containing Protein 4 From Homo Sapiens
Length = 75
Score = 35.8 bits (81), Expect = 0.042, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTF-CRLCSRELWVQRGNCPLC 362
E C +CM R+ F+PCGH C+ C+ + CP+C
Sbjct: 25 EKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMC 62
>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 = 35.4 bits (80), Expect = 0.052, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLCNGFILE 368
++ C +C++ + A PCGH FC+ C + G+ CP+ N +LE
Sbjct: 18 KYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE 65
>pdb|4IC2|A Chain A, Crystal Structure Of The Xiap Ring Domain
pdb|4IC2|B Chain B, Crystal Structure Of The Xiap Ring Domain
Length = 74
Score = 35.0 bits (79), Expect = 0.065, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTF-CRLCSRELWVQRGNCPLC 362
E C +CM R+ F+PCGH C+ C+ + CP+C
Sbjct: 24 EKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMC 61
>pdb|4IC3|A Chain A, Crystal Structure Of The F495l Mutant Xiap Ring Domain
pdb|4IC3|B Chain B, Crystal Structure Of The F495l Mutant Xiap Ring Domain
Length = 74
Score = 35.0 bits (79), Expect = 0.067, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTF-CRLCSRELWVQRGNCPLC 362
E C +CM R+ F+PCGH C+ C+ + CP+C
Sbjct: 24 EKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMC 61
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 35.0 bits (79), Expect = 0.069, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLCNGFILE 368
++ C +C++ + A PCGH FC+ C + G+ CP+ N +LE
Sbjct: 6 KYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE 53
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 35.0 bits (79), Expect = 0.077, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLCNGFILE 368
++ C +C++ + A PCGH FC+ C + G+ CP+ N +LE
Sbjct: 25 KYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE 72
>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 = 34.7 bits (78), Expect = 0.084, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 325 CCVCMVRHKGAAFIP-CGHTFCRLCSRELWVQRGNCPLC 362
C +C A IP C H +C LC R+ + CP C
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 34.7 bits (78), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLC 362
E CC+CM + +PC H+FC+ C + + NCP+C
Sbjct: 15 EEECCICM-DGRADLILPCAHSFCQKCIDKWSDRHRNCPIC 54
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLC 362
E C +C A + C H+FC C E W++R CP+C
Sbjct: 53 ELQCIICSEYFIEAVTLNCAHSFCSYCINE-WMKRKIECPIC 93
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLC 362
E C +C A + C H+FC C E W++R CP+C
Sbjct: 53 ELQCIICSEYFIEAVTLNCAHSFCSYCINE-WMKRKIECPIC 93
>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|G Chain G, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|H Chain H, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|K Chain K, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|L Chain L, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
Length = 149
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRG-NCPLC 362
E C +C A + C H+FC C E W++R CP+C
Sbjct: 64 ELQCIICSEYFIEAVTLNCAHSFCSYCINE-WMKRKIECPIC 104
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 33.5 bits (75), Expect = 0.20, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 4/45 (8%)
Query: 322 EHNCCVCM----VRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLC 362
+ NC +C+ A +PCGH R C E+ + CPLC
Sbjct: 5 QQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>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 = 33.1 bits (74), Expect = 0.29, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 335 AAFIPCGHTFCRLCSRELWVQRGNCPLCNG 364
A +PCGH R C E+ + CPLC+G
Sbjct: 22 AHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51
>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHN|B Chain B, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|C Chain C, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|E Chain E, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|G Chain G, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
Length = 79
Score = 32.3 bits (72), Expect = 0.39, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNGFILEILDIF 373
C VC + F PCGHT +C Q +CP+C + + ++
Sbjct: 21 CMVCCEEEINSTFCPCGHT---VCCESCAAQLQSCPVCRSRVEHVQHVY 66
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 32.3 bits (72), Expect = 0.44, Method: Composition-based stats.
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 3/41 (7%)
Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR---GNCPLC 362
C +C+ K C H FC+ C +L Q+ CPLC
Sbjct: 24 CPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLC 64
>pdb|3EB5|A Chain A, Structure Of The Ciap2 Ring Domain
pdb|3EB6|A Chain A, Structure Of The Ciap2 Ring Domain Bound To Ubch5b
Length = 74
Score = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 322 EHNCCVCMVRHKGAAFIPCGH-TFCRLCSRELWVQRGNCPLCNGFI 366
E C VCM + FIPCGH C+ C+ L CP+C I
Sbjct: 24 ERTCKVCMDKEVSIVFIPCGHLVVCKDCAPSLR----KCPICRSTI 65
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 32.0 bits (71), Expect = 0.54, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLC------SRELWVQRGNCPLC 362
E C +C+ K C H+FCR C S +GNCP+C
Sbjct: 19 EVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVC 65
>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3
Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4710b
Length = 91
Score = 32.0 bits (71), Expect = 0.59, Method: Composition-based stats.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQR-GNCPLC 362
CC V+ A +PC H F + C +W+Q+ G CP+C
Sbjct: 46 CCSEYVKGDVATELPCHHYFHKPCV-SIWLQKSGTCPVC 83
>pdb|4AUQ|B Chain B, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|E Chain E, Structure Of Birc7-Ubch5b-Ub Complex
Length = 62
Score = 31.6 bits (70), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGNCPLCNG 364
E C VC+ R F+PCGH C C+ L + CP+C
Sbjct: 13 ERTCKVCLDRAVSIVFVPCGHLVCAECAPGLQL----CPICRA 51
>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic
Resonance Spectroscopy; A New Structural Class Of Zinc-
Finger
Length = 68
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 321 IEHNCCVCMVRHKGAAF-IPCGHTFCRLCSRELWVQRGNCPLC 362
+ C +C+ + +PC H FC +C Q CPLC
Sbjct: 4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLC 46
>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 = 2.4, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 322 EHNCCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLCNGFILE 368
++ C +C++ + A PCGH FC+ C + G+ CP+ N +LE
Sbjct: 18 KYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE 65
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 29.6 bits (65), Expect = 3.0, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 11/23 (47%)
Query: 340 CGHTFCRLCSRELWVQRGNCPLC 362
CGH FC C R+ CP C
Sbjct: 28 CGHVFCSQCLRDSLKNANTCPTC 50
>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 = 28.9 bits (63), Expect = 4.3, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 11/23 (47%)
Query: 340 CGHTFCRLCSRELWVQRGNCPLC 362
CGH FC C R+ CP C
Sbjct: 35 CGHVFCSQCLRDSLKNANTCPTC 57
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 28.9 bits (63), Expect = 4.7, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 14/39 (35%), Gaps = 1/39 (2%)
Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLC 362
C +C K PCGH C C G CP C
Sbjct: 27 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 65
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 28.5 bits (62), Expect = 5.9, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 11/23 (47%)
Query: 340 CGHTFCRLCSRELWVQRGNCPLC 362
CGH FC C R+ CP C
Sbjct: 40 CGHVFCSQCLRDSLKNANTCPTC 62
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 28.5 bits (62), Expect = 6.3, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 14/39 (35%), Gaps = 1/39 (2%)
Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLC 362
C +C K PCGH C C G CP C
Sbjct: 30 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 68
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 28.5 bits (62), Expect = 7.0, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 14/39 (35%), Gaps = 1/39 (2%)
Query: 325 CCVCMVRHKGAAFIPCGHTFCRLCSRELWVQRGN-CPLC 362
C +C K PCGH C C G CP C
Sbjct: 29 CKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFC 67
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 28.1 bits (61), Expect = 9.0, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 12/24 (50%)
Query: 340 CGHTFCRLCSRELWVQRGNCPLCN 363
C HTFC+ C + CP CN
Sbjct: 34 CLHTFCKSCIVRHFYYSNRCPKCN 57
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
0.318 0.132 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,198,123
Number of Sequences: 62578
Number of extensions: 264793
Number of successful extensions: 521
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 486
Number of HSP's gapped (non-prelim): 53
length of query: 373
length of database: 14,973,337
effective HSP length: 100
effective length of query: 273
effective length of database: 8,715,537
effective search space: 2379341601
effective search space used: 2379341601
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: 52 (24.6 bits)