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= 042083
(494 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 = 74.3 bits (181), Expect = 1e-13, Method: Composition-based stats.
Identities = 28/48 (58%), Positives = 36/48 (75%)
Query: 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLL 174
+CAVCL E E ++ R LP+C H FH EC+D WL SHSTCPLCR +++
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 25/48 (52%), Positives = 34/48 (70%), Gaps = 1/48 (2%)
Query: 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLP 175
C VC+C+FE LR+LP C+H FH +C+D WL ++ TCP+CRA P
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGP 72
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 52.0 bits (123), Expect = 8e-07, Method: Composition-based stats.
Identities = 19/46 (41%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173
C +CL E + +R LP C H FH C+D WL+++ CP+CR +
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDI 61
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/47 (48%), Positives = 30/47 (63%), Gaps = 1/47 (2%)
Query: 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLL 174
CAVCL +F+P D+L + P C HAFH +C+ WL CPLC +L
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVL 63
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDFSSSN 181
+C VC ++ + +R LP C+H FH CI WL H +CP+CR SL +++N
Sbjct: 16 LECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN 70
>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 = 5e-05, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLP 175
C +C E+ D LP C H FH C+ WL TCP+CR P
Sbjct: 43 CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFPP 89
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 26/43 (60%)
Query: 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCR 170
C C E + ED + + +C+H+FH C+ W+ ++ CPLC+
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 5/52 (9%)
Query: 122 LKNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173
L + +C +C+ + + L+ C+H+F +CID W H CP+CR +
Sbjct: 12 LTDEEECCICM-----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQM 58
>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 = 38.1 bits (87), Expect = 0.012, Method: Composition-based stats.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCR 170
C +CL +P + LP C HAF CI W+ + TCPLC+
Sbjct: 8 CPICL--EDPSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47
>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 = 36.6 bits (83), Expect = 0.036, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 147 CSHAFHMECIDTWLLSHSTCPL 168
C+HAFH CI WL + CPL
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 36.2 bits (82), Expect = 0.039, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 147 CSHAFHMECIDTWLLSHSTCPL 168
C+HAFH CI WL + CPL
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>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 = 36.2 bits (82), Expect = 0.039, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 147 CSHAFHMECIDTWLLSHSTCPL 168
C+HAFH CI WL + CPL
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>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 = 36.2 bits (82), Expect = 0.041, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 147 CSHAFHMECIDTWLLSHSTCPL 168
C+HAFH CI WL + CPL
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>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 = 35.8 bits (81), Expect = 0.050, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 147 CSHAFHMECIDTWLLSHSTCPL 168
C+HAFH CI 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 = 35.8 bits (81), Expect = 0.054, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 147 CSHAFHMECIDTWLLSHSTCPL 168
C+HAFH CI WL + CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 35.8 bits (81), Expect = 0.057, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 147 CSHAFHMECIDTWLLSHSTCPL 168
C+HAFH CI WL + CPL
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>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 = 0.11, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 122 LKNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173
L+N C +C F L C+H+F CI+ W+ CP+CR +
Sbjct: 61 LENELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 122 LKNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173
L+N C +C F L C+H+F CI+ W+ CP+CR +
Sbjct: 50 LENELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 34.7 bits (78), Expect = 0.13, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 122 LKNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173
L+N C +C F L C+H+F CI+ W+ CP+CR +
Sbjct: 50 LENELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|3LRQ|A Chain A, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|B Chain B, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|C Chain C, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|D Chain D, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d
Length = 100
Score = 32.3 bits (72), Expect = 0.55, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSH-STCPLCRASL 173
F C +C E RL P CS CI WL + CP CRA L
Sbjct: 23 FRCFICX---EKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68
>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 = 32.3 bits (72), Expect = 0.62, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLL-PDFSSS 180
C +C FE + ++P+CSH + CI +L + CP C ++ PD ++
Sbjct: 25 CGIC---FEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNN 75
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 128 CAVCL---CEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173
C +C+ E +L + +C H F +C+ L + +TCP CR +
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 128 CAVCLCEF----EPEDKLRLLPKCSHAFHMECIDTWLLSHST-----CPLCR 170
C VC C + DK + +C AFH+ C+D L S + CP CR
Sbjct: 172 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECR 223
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 128 CAVCLCEF----EPEDKLRLLPKCSHAFHMECIDTWLLSHST-----CPLCR 170
C VC C + DK + +C AFH+ C+D L S + CP CR
Sbjct: 188 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECR 239
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 30.0 bits (66), Expect = 3.1, Method: Composition-based stats.
Identities = 13/46 (28%), Positives = 19/46 (41%)
Query: 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRAS 172
+C +CL + + + C H H C + L CPLC S
Sbjct: 7 NCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 52
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 28.5 bits (62), Expect = 9.9, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS----HSTCPLCRAS 172
C VC + E +DKL L +C+ AFH+ C+ L CP C+ +
Sbjct: 3 CKVCRKKGE-DDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQPA 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
0.318 0.134 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,457,565
Number of Sequences: 62578
Number of extensions: 460403
Number of successful extensions: 790
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 760
Number of HSP's gapped (non-prelim): 41
length of query: 494
length of database: 14,973,337
effective HSP length: 103
effective length of query: 391
effective length of database: 8,527,803
effective search space: 3334370973
effective search space used: 3334370973
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: 53 (25.0 bits)