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= 020491
(325 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 57.8 bits (138), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 23/46 (50%), Positives = 32/46 (69%)
Query: 268 ECCICLSAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYNI 313
+C ICLS ++G ++R LPC H FH CVD+WL N CP+C+ +I
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 57.8 bits (138), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 27/62 (43%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 256 TPNEHVLSNEDAECCICLSAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYNILK 315
PN H +E C +C+ ++ LR LPC H FH CVDKWL N TCP+C+ +
Sbjct: 15 NPNNH--QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGP 72
Query: 316 SS 317
SS
Sbjct: 73 SS 74
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/52 (48%), Positives = 35/52 (67%), Gaps = 1/52 (1%)
Query: 264 NEDAECCICLSAYDDGVELRELP-CGHHFHCACVDKWLYINATCPLCKYNIL 314
++ EC +CL+ +DG E R LP CGH FH CVD WL ++TCPLC+ ++
Sbjct: 3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 35/61 (57%), Gaps = 2/61 (3%)
Query: 253 GTETPNEHVLSNEDAECCICLSAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYN 312
G+ EHV S EC +C Y G +R+LPC H FH +C+ WL + +CP+C+ +
Sbjct: 4 GSSGTEEHVGSG--LECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKS 61
Query: 313 I 313
+
Sbjct: 62 L 62
>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 = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 29/52 (55%)
Query: 259 EHVLSNEDAECCICLSAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCK 310
+H ++ C IC S Y G ELPC H+FH CV WL + TCP+C+
Sbjct: 33 DHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 25/47 (53%)
Query: 269 CCICLSAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYNILK 315
C +CL + EL PC H FH C+ KWL + CPLC +L+
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQ 64
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 265 EDAECCICLSAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYNI 313
++ ECCIC+ D + LPC H F C+DKW + CP+C+ +
Sbjct: 14 DEEECCICMDGRADLI----LPCAHSFCQKCIDKWSDRHRNCPICRLQM 58
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 47/100 (47%), Gaps = 10/100 (10%)
Query: 214 GASKEDIERLSKFKFRRMVDTEKLSDDGQGSQGGIMTECGTETPNEHVLSNEDAECCICL 273
SK+D E + + K + + T++ + Q + +++ VL NE +C IC
Sbjct: 8 NRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMND------VLENE-LQCIICS 60
Query: 274 SAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYNI 313
+ + V L C H F C+++W+ CP+C+ +I
Sbjct: 61 EYFIEAVTL---NCAHSFCSYCINEWMKRKIECPICRKDI 97
>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 = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 47/100 (47%), Gaps = 10/100 (10%)
Query: 214 GASKEDIERLSKFKFRRMVDTEKLSDDGQGSQGGIMTECGTETPNEHVLSNEDAECCICL 273
SK+D E + + K + + T++ + Q + +++ VL NE +C IC
Sbjct: 19 NRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMND------VLENE-LQCIICS 71
Query: 274 SAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYNI 313
+ + V L C H F C+++W+ CP+C+ +I
Sbjct: 72 EYFIEAVTLN---CAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 47/100 (47%), Gaps = 10/100 (10%)
Query: 214 GASKEDIERLSKFKFRRMVDTEKLSDDGQGSQGGIMTECGTETPNEHVLSNEDAECCICL 273
SK+D E + + K + + T++ + Q + +++ VL NE +C IC
Sbjct: 8 NRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMND------VLENE-LQCIICS 60
Query: 274 SAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYNI 313
+ + V L C H F C+++W+ CP+C+ +I
Sbjct: 61 EYFIEAVTL---NCAHSFCSYCINEWMKRKIECPICRKDI 97
>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 = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 269 CCICLSAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYNI 313
C ICL D LPC H F C+ +W+ N TCPLCK +
Sbjct: 8 CPICLE--DPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 268 ECCICLSAYDDGVELRELPCGHHFHCACVDK 298
EC ICL A + V+ PCGH F AC+ K
Sbjct: 8 ECPICLMALREAVQT---PCGHRFCKACIIK 35
>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 = 30.0 bits (66), Expect = 1.8, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 269 CCICLSAYDDGVELREL----PCGHHFHCACVDKWLYINATCPLCKYNI 313
C IC+ Y + V+ L CGH F C+ L TCP C+ I
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 29.6 bits (65), Expect = 2.1, Method: Composition-based stats.
Identities = 13/48 (27%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 269 CCICLSAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYNILKS 316
C +C + D + E C H F C+ ++L + CP+C + K+
Sbjct: 18 CVLCGGYFIDATTIIE--CLHSFCKTCIVRYLETSKYCPICDVQVHKT 63
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 29.6 bits (65), Expect = 2.3, Method: Composition-based stats.
Identities = 13/48 (27%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 269 CCICLSAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYNILKS 316
C +C + D + E C H F C+ ++L + CP+C + K+
Sbjct: 14 CVLCGGYFIDATTIIE--CLHSFCKTCIVRYLETSKYCPICDVQVHKT 59
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 29.6 bits (65), Expect = 2.5, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 269 CCICLSAYDDGVELREL----PCGHHFHCACVDKWLYINATCPLCKYNI 313
C IC+ Y + V+ L CGH F C+ L TCP C+ I
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 287 CGHHFHCACVDKWLYINATCPLCKYN 312
C H FH C+ W+ N CPLC+ +
Sbjct: 48 CNHSFHNCCMSLWVKQNNRCPLCQQD 73
>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 = 2.9, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 287 CGHHFHCACVDKWLYINATCPL 308
C H FH C+ +WL CPL
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>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 = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 287 CGHHFHCACVDKWLYINATCPL 308
C H FH C+ +WL CPL
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>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 = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 263 SNEDAECCICL-SAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCK 310
S+ + C ICL + V LPCGH H C ++ L CPLC
Sbjct: 2 SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 29.3 bits (64), Expect = 3.1, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 269 CCICLSAYDDGVELREL----PCGHHFHCACVDKWLYINATCPLCKYNI 313
C IC+ Y + V+ L CGH F C+ L TCP C+ I
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 287 CGHHFHCACVDKWLYINATCPL 308
C H FH C+ +WL CPL
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>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 = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 287 CGHHFHCACVDKWLYINATCPL 308
C H FH C+ +WL CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 287 CGHHFHCACVDKWLYINATCPL 308
C H FH C+ +WL CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 287 CGHHFHCACVDKWLYINATCPL 308
C H FH C+ +WL CPL
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>pdb|1LDJ|B Chain B, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
pdb|1LDK|C Chain C, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 90
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 287 CGHHFHCACVDKWLYINATCPL 308
C H FH C+ +WL CPL
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 269 CCICL-SAYDDGVELRELPCGHHFHCACVDKWLYINATCPLCKYN 312
C ICL + V LPCGH H C ++ L CPLC ++
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 52
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 6/53 (11%)
Query: 268 ECCICLSAYDDGVELRELPCGHHFHCACVDKWLYIN---ATCPLCKYNILKSS 317
EC ICL + V + C H F C+ K L + CPLCK +I K S
Sbjct: 23 ECPICLELIKEPVSTK---CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS 72
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 268 ECCICLSAYDDGVELRELPCGHHFHCACVDKWL 300
EC ICL A + V+ PCGH F AC+ K +
Sbjct: 27 ECPICLMALREAVQT---PCGHRFCKACIIKSI 56
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 6/47 (12%)
Query: 266 DAECCICLSAYDDGVELRELPCGHHFHCACVDKW---LYINATCPLC 309
+A C +CL + V + CGH+F AC+ +W L + CP+C
Sbjct: 15 EASCSVCLEYLKEPVIIE---CGHNFCKACITRWWEDLERDFPCPVC 58
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
0.322 0.136 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,486,992
Number of Sequences: 62578
Number of extensions: 367530
Number of successful extensions: 696
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 671
Number of HSP's gapped (non-prelim): 49
length of query: 325
length of database: 14,973,337
effective HSP length: 99
effective length of query: 226
effective length of database: 8,778,115
effective search space: 1983853990
effective search space used: 1983853990
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)