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= 039247
(365 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 = 66.6 bits (161), Expect = 2e-11, Method: Composition-based stats.
Identities = 26/47 (55%), Positives = 33/47 (70%)
Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
+CAVCL E + ++ R LP C H FH C+D WL S+STCPLCR T+
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 120 LPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
LP +++ E C VC+C+F + LR+LP C+H FH C+D WL +N TCP+CR
Sbjct: 9 LPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 52.0 bits (123), Expect = 5e-07, Method: Composition-based stats.
Identities = 20/43 (46%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
C +CL E + +R LP C H FH C+D WL++N CP+CR
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/42 (50%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLC 178
CAVCL +F +D+L + P C HAFH C+ WL CPLC
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>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 = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 36/70 (51%), Gaps = 3/70 (4%)
Query: 117 IDALPVFQYKEIVG-LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTC 175
IDALP E G + + C +C E+ + D LP C H FH C+ WL + TC
Sbjct: 22 IDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTC 80
Query: 176 PLCRDTLFTP 185
P+CR +F P
Sbjct: 81 PVCR-CMFPP 89
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 31/48 (64%), Gaps = 1/48 (2%)
Query: 135 FDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
+C VC +++ + +R LP C+H FH +CI WL + +CP+CR +L
Sbjct: 16 LECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
C C E ++D + + C+H+FH C+ W+ N+ CPLC+
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 37.0 bits (84), Expect = 0.018, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 155 MCSHAFHINCIDTWLLSNSTCPL 177
+C+HAFH +CI WL + CPL
Sbjct: 83 VCNHAFHFHCISRWLKTRQVCPL 105
>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 = 37.0 bits (84), Expect = 0.018, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 155 MCSHAFHINCIDTWLLSNSTCPL 177
+C+HAFH +CI WL + CPL
Sbjct: 56 VCNHAFHFHCISRWLKTRQVCPL 78
>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 = 37.0 bits (84), Expect = 0.018, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 155 MCSHAFHINCIDTWLLSNSTCPL 177
+C+HAFH +CI WL + CPL
Sbjct: 64 VCNHAFHFHCISRWLKTRQVCPL 86
>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 = 37.0 bits (84), Expect = 0.019, Method: Composition-based stats.
Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 137 CAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
C +CL + S LP C HAF CI W+ N TCPLC+
Sbjct: 8 CPICLEDPSNYSMA--LP-CLHAFCYVCITRWIRQNPTCPLCK 47
>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 = 37.0 bits (84), Expect = 0.019, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 155 MCSHAFHINCIDTWLLSNSTCPL 177
+C+HAFH +CI WL + CPL
Sbjct: 74 VCNHAFHFHCISRWLKTRQVCPL 96
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 36.6 bits (83), Expect = 0.022, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 155 MCSHAFHINCIDTWLLSNSTCPL 177
+C+HAFH +CI WL + CPL
Sbjct: 66 VCNHAFHFHCISRWLKTRQVCPL 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 = 36.6 bits (83), Expect = 0.022, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 155 MCSHAFHINCIDTWLLSNSTCPL 177
+C+HAFH +CI WL + CPL
Sbjct: 72 VCNHAFHFHCISRWLKTRQVCPL 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 = 36.6 bits (83), Expect = 0.023, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 155 MCSHAFHINCIDTWLLSNSTCPL 177
+C+HAFH +CI WL + CPL
Sbjct: 72 VCNHAFHFHCISRWLKTRQVCPL 94
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 35.8 bits (81), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 4/59 (6%)
Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSI 189
L+ C +C F E L C+H+F CI+ W+ CP+CR + + +S+
Sbjct: 50 LENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKTYSL 104
>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 = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 4/59 (6%)
Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSI 189
L+ C +C F E L C+H+F CI+ W+ CP+CR + + +S+
Sbjct: 61 LENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKTYSL 115
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 35.4 bits (80), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 4/59 (6%)
Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTLFTPGFSI 189
L+ C +C F E L C+H+F CI+ W+ CP+CR + + +S+
Sbjct: 50 LENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKTYSL 104
>pdb|2WA1|A Chain A, Structure Of The Methyltransferase Domain From Modoc
Virus, A Flavivirus With No Known Vector (Nkv)
pdb|2WA1|B Chain B, Structure Of The Methyltransferase Domain From Modoc
Virus, A Flavivirus With No Known Vector (Nkv)
pdb|2WA2|A Chain A, Structure Of The Methyltransferase Domain From Modoc
Virus, A Flavivirus With No Known Vector (Nkv)
pdb|2WA2|B Chain B, Structure Of The Methyltransferase Domain From Modoc
Virus, A Flavivirus With No Known Vector (Nkv)
Length = 276
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 26/71 (36%)
Query: 112 LDQAFIDALPVFQYKEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLS 171
L + F L F+ K V EPF LC+ E + + +N I WL
Sbjct: 124 LVETFGWNLITFKSKVDVTKMEPFQADTVLCDIGESNPTAAVEASRTLTVLNVISRWLEY 183
Query: 172 NSTCPLCRDTL 182
N C C L
Sbjct: 184 NQGCGFCVKVL 194
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 131 LKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCR 179
L + +C +C+ + L+ C+H+F CID W + CP+CR
Sbjct: 12 LTDEEECCICM-----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 31.6 bits (70), Expect = 0.66, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 4/58 (6%)
Query: 126 KEIVGLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSN-STCPLCRDTL 182
+ + + E F C +C + + RL P CS +CI WL + CP CR L
Sbjct: 14 QSVESIAEVFRCFICXEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 31.6 bits (70), Expect = 0.81, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 137 CAVCLCEFSE---KDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
C +C+ +SE +L + C H F C+ L + +TCP CR +
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>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 = 31.2 bits (69), Expect = 0.89, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 137 CAVCLCEFSE---KDKLRLLPMCSHAFHINCIDTWLLSNSTCPLCRDTL 182
C +C+ +SE +L + C H F C+ L + +TCP CR +
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>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 = 31.2 bits (69), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 24/53 (45%), Gaps = 9/53 (16%)
Query: 137 CAVCLCEF----SEKDKLRLLPMCSHAFHINCIDTWLLSNST-----CPLCRD 180
C VC C + DK + C AFHI C+D L S + CP CR+
Sbjct: 188 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 240
>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 = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 24/53 (45%), Gaps = 9/53 (16%)
Query: 137 CAVCLCEF----SEKDKLRLLPMCSHAFHINCIDTWLLSNST-----CPLCRD 180
C VC C + DK + C AFHI C+D L S + CP CR+
Sbjct: 172 CRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 224
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 28.9 bits (63), Expect = 4.7, Method: Composition-based stats.
Identities = 12/43 (27%), Positives = 18/43 (41%)
Query: 136 DCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNSTCPLC 178
+C +CL + + + C H H C + L CPLC
Sbjct: 7 NCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 130 GLKEPFDCAVCLCEFSEKDKLRLLPMCSHAFHINCIDTWLLSNST---CPLC 178
L+E +C +C+ F+E+ L C H C++ L S+ CP C
Sbjct: 11 ALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
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 0.135 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,073,254
Number of Sequences: 62578
Number of extensions: 327352
Number of successful extensions: 671
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 640
Number of HSP's gapped (non-prelim): 49
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
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: 52 (24.6 bits)