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= 030757
(172 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 49.3 bits (116), Expect = 1e-06, Method: Composition-based stats.
Identities = 21/44 (47%), Positives = 26/44 (59%)
Query: 110 ECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTCR 153
EC VCL + G+ R L CGH FH +C+D WL + CP CR
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 31/67 (46%), Gaps = 1/67 (1%)
Query: 98 SKRNESQPGFESECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTCRTPTT 157
S E G EC VC E + G+ R+L C H+FH C+ WL + +CP CR T
Sbjct: 5 SSGTEEHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLT 63
Query: 158 FDRFLRN 164
N
Sbjct: 64 GQNTATN 70
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 110 ECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTCRT 154
+C +CL ++G+ R+L C H+FH+ C+D WL+ CP CR
Sbjct: 16 KCTICLSILEEGEDVRRL-PCMHLFHQVCVDQWLITNKKCPICRV 59
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 108 ESECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTCRT 154
++ CVVC+ F+ Q R L C H FH KC+D WL CP CR
Sbjct: 23 QTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRA 68
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 24/49 (48%), Gaps = 7/49 (14%)
Query: 111 CVVCLEGFKQGQWCRKLVG---CGHVFHRKCLDTWLLKVAACPTCRTPT 156
C VCLE FK R +G C H FHRKCL WL CP C P
Sbjct: 18 CAVCLEDFKP----RDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV 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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 85 SPKELKSLSQFKISKRNESQPGFESECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLL 144
S + + +L + +++ + + G E C +C + +G +L C H FH+ C+ WL
Sbjct: 18 SKESIDALPEILVTEDHGAV-GQEMCCPICCSEYVKGDVATEL-PCHHYFHKPCVSIWLQ 75
Query: 145 KVAACPTCR 153
K CP CR
Sbjct: 76 KSGTCPVCR 84
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 104 QPGFESECVVCLEGFKQGQWCRKLV---GCGHVFHRKCLDTWLLKVAACPTCRTPTTFDR 160
+P C +C++G+ + +L+ CGHVF +CL L CPTCR R
Sbjct: 6 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 65
Query: 161 F 161
+
Sbjct: 66 Y 66
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 3/59 (5%)
Query: 106 GFESECVVCLEGFKQGQWCRKLV---GCGHVFHRKCLDTWLLKVAACPTCRTPTTFDRF 161
G C +C++G+ + +L+ CGHVF +CL L CPTCR R+
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 59
>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 = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 109 SECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTCRTPTT 157
S C +CLE + ++ CGH+ HR C + L + CP C P++
Sbjct: 6 SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 110 ECVVCLEGFKQGQWCRKLV---GCGHVFHRKCLDTWLLKVAACPTCRTPTTFDRF 161
C +C++G+ + +L+ CGHVF +CL L CPTCR R+
Sbjct: 9 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 63
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 110 ECVVCLEGFKQGQWCRKLV---GCGHVFHRKCLDTWLLKVAACPTCRTPTTFDRF 161
C +C++G+ + +L+ CGHVF +CL L CPTCR R+
Sbjct: 74 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 128
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 110 ECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWL---LKVAACPTCRTPT 156
EC +C+E F + Q KL+ CGH R+CL+ L + CP C T
Sbjct: 17 ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKIT 66
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 104 QPGFESECVVCLEGFKQGQWCRKLV---GCGHVFHRKCLDTWLLKVAACPTCR 153
+P C +C++G+ + +L+ CGHVF +CL L CPTCR
Sbjct: 11 RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 35.4 bits (80), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 5/50 (10%)
Query: 108 ESECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTCRTPTT 157
E EC +C++G ++ C H F +KC+D W + CP CR T
Sbjct: 15 EEECCICMDGRAD-----LILPCAHSFCQKCIDKWSDRHRNCPICRLQMT 59
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 35.0 bits (79), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 108 ESECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTCRTPT---TFDRFLRN 164
E +C++C E F + + C H F C++ W+ + CP CR T+ L N
Sbjct: 53 ELQCIICSEYFIEAVT----LNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDN 108
Query: 165 SFYSIWEN 172
+ N
Sbjct: 109 XINKMVNN 116
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 34.3 bits (77), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 108 ESECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTCRTPT---TFDRFLRN 164
E +C++C E F + + C H F C++ W+ + CP CR T+ L N
Sbjct: 53 ELQCIICSEYFIEAVT----LNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDN 108
Query: 165 SFYSIWEN 172
+ N
Sbjct: 109 CINKMVNN 116
>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 = 33.9 bits (76), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 108 ESECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTCRTPT---TFDRFLRN 164
E +C++C E F + + C H F C++ W+ + CP CR T+ L N
Sbjct: 64 ELQCIICSEYFIEAV----TLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDN 119
Query: 165 SFYSIWEN 172
+ N
Sbjct: 120 CINKMVNN 127
>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 = 0.054, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 108 ESECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTC 152
+ C +CLE + ++ CGH+ HR C + L + CP C
Sbjct: 5 QQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|3CXL|A Chain A, Crystal Structure Of Human Chimerin 1 (Chn1)
Length = 463
Score = 31.2 bits (69), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 32/85 (37%), Gaps = 15/85 (17%)
Query: 68 LNRHHDRHRGACHSDGLSPKELKSLSQFKISKRNESQPGFESECVVCLEGFKQGQWCR-- 125
L HD R + DG+S K L SL + K NE P +E + F+ WC
Sbjct: 168 LKETHDE-RDSTGQDGVSEKRLTSLVRRATLKENEQIPKYEKIHNFKVHTFRGPHWCEYC 226
Query: 126 ------------KLVGCGHVFHRKC 138
K CG H++C
Sbjct: 227 ANFMWGLIAQGVKCADCGLNVHKQC 251
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 7/49 (14%)
Query: 107 FESECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTW---LLKVAACPTC 152
E+ C VCLE K+ ++ CGH F + C+ W L + CP C
Sbjct: 14 VEASCSVCLEYLKE----PVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 26.6 bits (57), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 14/32 (43%)
Query: 130 CGHVFHRKCLDTWLLKVAACPTCRTPTTFDRF 161
C H FH C+ W+ + CP C+ R
Sbjct: 48 CNHSFHNCCMSLWVKQNNRCPLCQQDWVVQRI 79
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 24/57 (42%), Gaps = 4/57 (7%)
Query: 108 ESECVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLK-VAACPTCRTPTTFDRFLR 163
E C +CL+ K ++ C H F C+ T L CPTCR R LR
Sbjct: 54 ELMCPICLDMLKNTMTTKE---CLHRFCADCIITALRSGNKECPTCRKKLVSKRSLR 107
>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 = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 3/46 (6%)
Query: 111 CVVCLEGFKQGQWCRKLVGCGHVFHRKCLDTWLLKVAACPTCRTPT 156
C +CLE + C H F C+ W+ + CP C+ P
Sbjct: 8 CPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50
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 0.463
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,045,907
Number of Sequences: 62578
Number of extensions: 130466
Number of successful extensions: 336
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 304
Number of HSP's gapped (non-prelim): 43
length of query: 172
length of database: 14,973,337
effective HSP length: 92
effective length of query: 80
effective length of database: 9,216,161
effective search space: 737292880
effective search space used: 737292880
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: 48 (23.1 bits)