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= 002964
(862 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 = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 809 TCCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGKCPLCRAPIVEVIRAY 859
TC VC D + + CGH+ C +CA L KCP+CR I +R +
Sbjct: 297 TCKVCMDKEVSVVFIPCGHLVVCQECAPSL----RKCPICRGIIKGTVRTF 343
>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 = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 809 TCCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGKCPLCRAPIVEVIRAY 859
TC VC D + + CGH+ C CA L KCP+CR+ I +R +
Sbjct: 26 TCKVCMDKEVSIVFIPCGHLVVCKDCAPSL----RKCPICRSTIKGTVRTF 72
>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 = 43.9 bits (102), Expect = 3e-04, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 810 CCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGKCPLCRAPIVEVIRAY 859
C VCC+ I+S CGH C CA +L CP+CR+ + V Y
Sbjct: 21 CMVCCEEEINSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEHVQHVY 66
>pdb|2VJE|B Chain B, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJE|D Chain D, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|B Chain B, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|D Chain D, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
Length = 63
Score = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 824 RCGHMCTCSKCANELVRGGGKCPLCRAPIVEVIRAY 859
R GH+ TC CA L + G CP+C+ I VI+ +
Sbjct: 26 RTGHLVTCFHCARRLKKAGASCPICKKEIQLVIKVF 61
>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 = 40.0 bits (92), Expect = 0.006, Method: Composition-based stats.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 4/39 (10%)
Query: 810 CCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGKCPLC 848
C +C D +I + CGH+ TC +CA + KCP+C
Sbjct: 28 CKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMC 62
>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 = 39.7 bits (91), Expect = 0.007, Method: Composition-based stats.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 4/39 (10%)
Query: 810 CCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGKCPLC 848
C +C D +I + CGH+ TC +CA + KCP+C
Sbjct: 27 CKICMDRNIAIVFVPCGHLVTCKQCAEAV----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 = 39.7 bits (91), Expect = 0.008, Method: Composition-based stats.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 4/39 (10%)
Query: 810 CCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGKCPLC 848
C +C D +I + CGH+ TC +CA + KCP+C
Sbjct: 27 CKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMC 61
>pdb|2VJE|A Chain A, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJE|C Chain C, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|A Chain A, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|C Chain C, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
Length = 64
Score = 37.7 bits (86), Expect = 0.029, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 824 RCGHMCTCSKCANELVRGGGKCPLCRAPIVEVIRAY 859
+ GH+ C CA +L + CP+CR PI ++ Y
Sbjct: 27 KTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLTY 62
>pdb|2HDP|A Chain A, Solution Structure Of Hdm2 Ring Finger Domain
pdb|2HDP|B Chain B, Solution Structure Of Hdm2 Ring Finger Domain
Length = 63
Score = 37.7 bits (86), Expect = 0.029, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 824 RCGHMCTCSKCANELVRGGGKCPLCRAPIVEVIRAY 859
+ GH+ C CA +L + CP+CR PI ++ Y
Sbjct: 26 KTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIVLTY 61
>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 = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 34/65 (52%), Gaps = 9/65 (13%)
Query: 799 GSKWAHVRKG----TCCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGKCPLCRAPIVE 854
GS A +R+ TC VC D + + CGH+ C++CA G CP+CRAP+
Sbjct: 1 GSVEAQLRRLQEERTCKVCLDRAVSIVFVPCGHL-VCAECAP----GLQLCPICRAPVRS 55
Query: 855 VIRAY 859
+R +
Sbjct: 56 RVRTF 60
>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 = 35.0 bits (79), Expect = 0.16, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 810 CCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGKCPLCRAPI 852
C +C + I+++ C H CS C NE ++ +CP+CR I
Sbjct: 67 CIICSEYFIEAVTLNCAH-SFCSYCINEWMKRKIECPICRKDI 108
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 35.0 bits (79), Expect = 0.17, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 810 CCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGKCPLCRAPI 852
C +C + I+++ C H CS C NE ++ +CP+CR I
Sbjct: 56 CIICSEYFIEAVTLNCAH-SFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 35.0 bits (79), Expect = 0.19, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 810 CCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGKCPLCRAPI 852
C +C + I+++ C H CS C NE ++ +CP+CR I
Sbjct: 56 CIICSEYFIEAVTLNCAH-SFCSYCINEWMKRKIECPICRKDI 97
>pdb|1G25|A Chain A, Solution Structure Of The N-Terminal Domain Of The Human
Tfiih Mat1 Subunit
Length = 65
Score = 31.2 bits (69), Expect = 2.7, Method: Composition-based stats.
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 825 CGHMCTCSKCANEL-VRGGGKCPLCRAPI 852
CGH C C + L VRG G CP C P+
Sbjct: 26 CGHT-LCESCVDLLFVRGAGNCPECGTPL 53
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.8 bits (68), Expect = 3.0, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 809 TCCVCCDSHIDSLL-------YRCGHMCTCSKCANELVRGGGKCPLCRAPI 852
+C +C D + + + CGH+ CS+C + ++ CP CR I
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHV-FCSQCLRDSLKNANTCPTCRKKI 54
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 30.8 bits (68), Expect = 3.2, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 809 TCCVCCDSHIDSLL-------YRCGHMCTCSKCANELVRGGGKCPLCRAPI 852
+C +C D + + + CGH+ CS+C + ++ CP CR I
Sbjct: 9 SCPICMDGYSEIVQNGRLIVSTECGHV-FCSQCLRDSLKNANTCPTCRKKI 58
Score = 30.8 bits (68), Expect = 3.2, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 809 TCCVCCDSHIDSLL-------YRCGHMCTCSKCANELVRGGGKCPLCRAPI 852
+C +C D + + + CGH+ CS+C + ++ CP CR I
Sbjct: 74 SCPICMDGYSEIVQNGRLIVSTECGHV-FCSQCLRDSLKNANTCPTCRKKI 123
>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 = 30.8 bits (68), Expect = 3.6, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 809 TCCVCCDSHIDSLL-------YRCGHMCTCSKCANELVRGGGKCPLCRAPI 852
+C +C D + + + CGH+ CS+C + ++ CP CR I
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHV-FCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 30.4 bits (67), Expect = 4.1, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 810 CCVCCDSHIDSLLYRCGH-MCTCSKCANELVRGGGKCPLCRAPI 852
C +C ++ D + CGH MCT A + G G CP CR I
Sbjct: 29 CKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQG-CPFCRCEI 71
>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 = 30.4 bits (67), Expect = 4.3, Method: Composition-based stats.
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 810 CCVCCD----SHIDSLLYRCGHMCTCSKCANELVRGGGKCPLCRAP 851
C +C + S + + + CGH+ C E+++ G +CPLC P
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLH-RTCYEEMLKEGYRCPLCSGP 52
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 30.0 bits (66), Expect = 6.0, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 7/49 (14%)
Query: 809 TCCVCCDSHIDSLLYRCGHMCTCSKC------ANELVRGGGKCPLCRAP 851
TC +C + + + C H C C +N G G CP+CR P
Sbjct: 21 TCPICLELLKEPVSADCNH-SFCRACITLNYESNRNTDGKGNCPVCRVP 68
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.0 bits (66), Expect = 6.0, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 809 TCCVCCDSHIDSLL-------YRCGHMCTCSKCANELVRGGGKCPLCRAPI 852
+C +C D + + + CGH+ CS+C + ++ CP CR I
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHV-FCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 30.0 bits (66), Expect = 6.4, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 810 CCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGK-CPLCRAPI 852
C +C ++ D + CGH+ C+ C G+ CP CR I
Sbjct: 27 CKICAENDKDVKIEPCGHL-MCTSCLTSWQESEGQGCPFCRCEI 69
>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 = 29.6 bits (65), Expect = 6.7, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 810 CCVCCDSHID-SLLYRCGHMCTCSKCANELVRGGGKCPLCRAPIVEVI 856
C +C + + S+ C H C C +R CPLC+ P+ V+
Sbjct: 8 CPICLEDPSNYSMALPCLH-AFCYVCITRWIRQNPTCPLCKVPVESVV 54
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 29.6 bits (65), Expect = 7.3, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 810 CCVCCDSHIDSLLYRCGHMCTCSKCANELVRGGGK-CPLCRAPI 852
C +C ++ D + CGH+ C+ C G+ CP CR I
Sbjct: 30 CKICAENDKDVKIEPCGHL-MCTSCLTSWQESEGQGCPFCRCEI 72
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 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,986,219
Number of Sequences: 62578
Number of extensions: 797092
Number of successful extensions: 1343
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1319
Number of HSP's gapped (non-prelim): 38
length of query: 862
length of database: 14,973,337
effective HSP length: 107
effective length of query: 755
effective length of database: 8,277,491
effective search space: 6249505705
effective search space used: 6249505705
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (26.2 bits)