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= 031191
(164 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 32/49 (65%)
Query: 101 CAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCRFQLPMIN 149
C +CK++++L +QLPCNHL+H CI+P L SCP+CR L N
Sbjct: 18 CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN 66
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 101 CAICKDEFSLHSEAKQLP-CNHLYHSECILPCLSHQSSCPLCRFQL 145
CA+C E EA+ LP C H +H+EC+ L S+CPLCR +
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 30/58 (51%)
Query: 84 GMRMNSVEISESLSQESCAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLC 141
G +S ++ E E CA+C ++F E PC H +H +C++ L + CPLC
Sbjct: 1 GSSGSSGKVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 39.7 bits (91), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 98 QESCAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCR 142
Q C +C +F + LPCNH +H++C+ L +CP+CR
Sbjct: 23 QTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 95 SLSQE-SCAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCRFQLP 146
++ QE C IC E+ A +LPC+H +H C+ L +CP+CR P
Sbjct: 36 AVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP 88
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 24/53 (45%)
Query: 100 SCAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCRFQLPMINPSN 152
C IC + ++LPC HL+H C+ L CP+CR + PS
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSE 68
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 34.3 bits (77), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 94 ESLSQESCAIC-KDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLC 141
E++SQ++C IC +D + A LPC HL H C L CPLC
Sbjct: 1 ENVSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 32.7 bits (73), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 84 GMRMNSVEISESLSQESCAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCRF 143
G +S + + +E C IC D + LPC H + +CI +CP+CR
Sbjct: 1 GSSGSSGRVKQLTDEEECCICMDGRA----DLILPCAHSFCQKCIDKWSDRHRNCPICRL 56
Query: 144 QLPMINPSN 152
Q+ N S+
Sbjct: 57 QMTGANESS 65
>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 = 0.33, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 100 SCAICKDEFSLHSEAKQL----PCNHLYHSECILPCLSHQSSCPLCRFQL 145
SC IC D +S + +L C H++ S+C+ L + ++CP CR ++
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.8 bits (68), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 100 SCAICKDEFSLHSEAKQL----PCNHLYHSECILPCLSHQSSCPLCRFQL 145
SC IC D +S + +L C H++ S+C+ L + ++CP CR ++
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 30.4 bits (67), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 100 SCAICKDEFSLHSEAKQL----PCNHLYHSECILPCLSHQSSCPLCRFQL 145
SC IC D +S + +L C H++ S+C+ L + ++CP CR ++
Sbjct: 9 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
Score = 30.4 bits (67), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 100 SCAICKDEFSLHSEAKQL----PCNHLYHSECILPCLSHQSSCPLCRFQL 145
SC IC D +S + +L C H++ S+C+ L + ++CP CR ++
Sbjct: 74 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.4 bits (67), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 100 SCAICKDEFSLHSEAKQL----PCNHLYHSECILPCLSHQSSCPLCRFQL 145
SC IC D +S + +L C H++ S+C+ L + ++CP CR ++
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>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 = 0.79, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 99 ESCAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCRFQL 145
E C IC ++ S +S A LPC H + CI + +CPLC+ +
Sbjct: 6 ERCPICLEDPSNYSMA--LPCLHAFCYVCITRWIRQNPTCPLCKVPV 50
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 42/104 (40%), Gaps = 22/104 (21%)
Query: 53 IDFNSLQFDYGCEGNDQSNSVASGLDNSSSVGMRMNSVEI-SESLSQESCAICKD---EF 108
+D +L F G G + SG + N+V + + + ++CAIC++ +
Sbjct: 8 VDEENLYFQGGGRGTN------SGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDL 61
Query: 109 SLHSEAKQLP------------CNHLYHSECILPCLSHQSSCPL 140
+ +A Q CNH +H CI L + CPL
Sbjct: 62 CIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 105
>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 = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 101 CAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLC 141
C IC + F++ Q C+H Y S CI LS+++ CP C
Sbjct: 25 CGICFEYFNIAMIIPQ--CSHNYCSLCIRKFLSYKTQCPTC 63
>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 = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 100 SCAIC-KDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLC 141
C IC +D + A LPC HL H C L CPLC
Sbjct: 7 GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>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 = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 101 CAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCR 142
C IC + F EA L C H + S CI + + CP+CR
Sbjct: 67 CIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECPICR 105
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 101 CAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCR 142
C IC + F EA L C H + S CI + + CP+CR
Sbjct: 56 CIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECPICR 94
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 101 CAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCR 142
C IC + F EA L C H + S CI + + CP+CR
Sbjct: 56 CIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECPICR 94
>pdb|3DPL|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation.
pdb|3RTR|B Chain B, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|D Chain D, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|F Chain F, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|H Chain H, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|4F52|B Chain B, Structure Of A Glomulin-Rbx1-Cul1 Complex
pdb|4F52|D Chain D, Structure Of A Glomulin-Rbx1-Cul1 Complex
Length = 106
Score = 26.9 bits (58), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 36/89 (40%), Gaps = 16/89 (17%)
Query: 68 DQSNSVASGLDNSSSVGMRMNSVEI-SESLSQESCAICKD---EFSLHSEAKQLP----- 118
D + SG + N+V + + + ++CAIC++ + + +A Q
Sbjct: 6 DTPSGTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEE 65
Query: 119 -------CNHLYHSECILPCLSHQSSCPL 140
CNH +H CI L + CPL
Sbjct: 66 CTVAWGVCNHAFHFHCISRWLKTRQVCPL 94
>pdb|1U6G|B Chain B, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
pdb|2HYE|D Chain D, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 108
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 36/89 (40%), Gaps = 16/89 (17%)
Query: 68 DQSNSVASGLDNSSSVGMRMNSVEI-SESLSQESCAICKD---EFSLHSEAKQLP----- 118
D + SG + N+V + + + ++CAIC++ + + +A Q
Sbjct: 8 DTPSGTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEE 67
Query: 119 -------CNHLYHSECILPCLSHQSSCPL 140
CNH +H CI L + CPL
Sbjct: 68 CTVAWGVCNHAFHFHCISRWLKTRQVCPL 96
>pdb|3DQV|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|Y Chain Y, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 106
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 36/89 (40%), Gaps = 16/89 (17%)
Query: 68 DQSNSVASGLDNSSSVGMRMNSVEI-SESLSQESCAICKD---EFSLHSEAKQLP----- 118
D + SG + N+V + + + ++CAIC++ + + +A Q
Sbjct: 6 DTPSGTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIXDLCIECQANQASATSEE 65
Query: 119 -------CNHLYHSECILPCLSHQSSCPL 140
CNH +H CI L + CPL
Sbjct: 66 CTVAWGVCNHAFHFHCISRWLKTRQVCPL 94
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 25/65 (38%), Gaps = 2/65 (3%)
Query: 86 RMNSVEISESLSQESCAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCRFQL 145
R ++I+E C +C F + C H + CI+ L CP+C Q+
Sbjct: 3 RTTRIKITELNPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60
Query: 146 PMINP 150
P
Sbjct: 61 HKTRP 65
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 25/65 (38%), Gaps = 2/65 (3%)
Query: 86 RMNSVEISESLSQESCAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCRFQL 145
R ++I+E C +C F + C H + CI+ L CP+C Q+
Sbjct: 3 RTTRIKITELNPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60
Query: 146 PMINP 150
P
Sbjct: 61 HKTRP 65
>pdb|4A0C|D Chain D, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|F Chain F, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0L|F Chain F, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|I Chain I, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 98
Score = 26.6 bits (57), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 34/82 (41%), Gaps = 16/82 (19%)
Query: 75 SGLDNSSSVGMRMNSVEI-SESLSQESCAICKD---EFSLHSEAKQLP------------ 118
SG + N+V + + + ++CAIC++ + + +A Q
Sbjct: 5 SGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV 64
Query: 119 CNHLYHSECILPCLSHQSSCPL 140
CNH +H CI L + CPL
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 26.2 bits (56), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 100 SCAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSS-CPLCRF 143
SC IC+ + ++ + C HL+ CIL CL S CP CR+
Sbjct: 25 SCQICEH---ILADPVETSCKHLFCRICILRCLKVMGSYCPSCRY 66
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 26.2 bits (56), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 84 GMRMNSVEISESLSQESCAICKDEFSLHSEAKQLPCNHLYHSECILPCLSHQSSCPLCRF 143
G +S + SL+ CAIC + +H + LPC H++ C+ C LCR
Sbjct: 1 GSSGSSGNTAPSLTVPECAICL-QTCVHPVS--LPCKHVFCYLCVKGASWLGKRCALCRQ 57
Query: 144 QLP 146
++P
Sbjct: 58 EIP 60
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 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,097,492
Number of Sequences: 62578
Number of extensions: 132096
Number of successful extensions: 288
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 256
Number of HSP's gapped (non-prelim): 55
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
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: 47 (22.7 bits)