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= 030323
(179 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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/49 (44%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
C +CL L +GE VR+L C H+FH+ C+D WL N CP+CR + ++
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWL-ITNKKCPICRVDIEAQ 64
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153
C+VC+C +L+R L C H FH C+D WL N CP+CR+
Sbjct: 26 CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWL-KANRTCPICRA 68
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/51 (50%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 107 GSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156
G +C VCL L DGE R L C H FH +C+D WL + CPLCR VV
Sbjct: 5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV 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 = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNT 164
+G +C VC GE VR+L C H+FH C+ WL + +CP+CR + + N
Sbjct: 13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHD-SCPVCRKSLTGQNTATNP 71
Query: 165 RRRVG 169
G
Sbjct: 72 PGLTG 76
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152
C +C G++ +L C H FHK C+ WL + CP+CR
Sbjct: 43 CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK-SGTCPVCR 84
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156
C VCL + + + C+H FH+ CL WL + CPLC PV+
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWL-EVRKVCPLCNMPVL 63
>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 = 32.0 bits (71), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 126 LDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLI 173
L C H F C+ W+ N CPLC+ PV S + G LI
Sbjct: 22 LPCLHAFCYVCITRWIRQ-NPTCPLCKVPVESVVHTIESDSEFGDQLI 68
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 31.6 bits (70), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
C +CL L++ + +C H F DC+ L N CP CR +VS+
Sbjct: 56 CPICLDMLKNTMTTK--ECLHRFCADCIITALRSGNKECPTCRKKLVSK 102
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
C +CL L++ + +C H F DC+ L N CP CR +VS+
Sbjct: 57 CPICLDMLKNTMTTK--ECLHRFCADCIITALRSGNKECPTCRKKLVSK 103
>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 = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 32/83 (38%), Gaps = 5/83 (6%)
Query: 99 QGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
Q V S A C +C LRD L C + C+ WL CP CR+P+
Sbjct: 14 QSVESIAEVFRCFICXEKLRDARLC--PHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR 71
Query: 159 ERV---WNTRRRVGGDLIQWFSL 178
E V W D +Q SL
Sbjct: 72 ELVNCRWAEEVTQQLDTLQLCSL 94
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 30.8 bits (68), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
C +CL L++ + +C H F DC+ L N CP CR +VS+
Sbjct: 37 CPICLDMLKNTMTTK--ECLHRFCADCIITALRSGNKECPTCRKKLVSK 83
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 30.4 bits (67), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152
+C +C+ DG L C H F + C+D W + NCP+CR
Sbjct: 17 ECCICM----DGRADLILPCAHSFCQKCIDKWSDR-HRNCPICR 55
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 29.6 bits (65), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 117 LRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
+++G L+ +C HVF CL L + N CP CR +
Sbjct: 29 VQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI 66
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 117 LRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
+++G L+ +C HVF CL L + N CP CR +
Sbjct: 21 VQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI 58
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 117 LRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
+++G L+ +C HVF CL L + N CP CR +
Sbjct: 86 VQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI 123
>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 = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 117 LRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
+++G L+ +C HVF CL L + N CP CR +
Sbjct: 24 VQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI 61
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 117 LRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
+++G L+ +C HVF CL L + N CP CR +
Sbjct: 17 VQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI 54
>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 = 1.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL--NFNCPLC 151
+ C VCL L++ ++ +C H F K C+ W L +F CP+C
Sbjct: 16 ASCSVCLEYLKEPVII---ECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 126 LDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157
L+C H F C++ W+ CP+CR + S
Sbjct: 69 LNCAHSFCSYCINEWMKR-KIECPICRKDIKS 99
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 126 LDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157
L+C H F C++ W+ CP+CR + S
Sbjct: 69 LNCAHSFCSYCINEWMKR-KIECPICRKDIKS 99
>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 = 2.0, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 126 LDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
L+C H F C++ W+ CP+CR + S+
Sbjct: 80 LNCAHSFCSYCINEWMKR-KIECPICRKDIKSK 111
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 128 CRHVFHKDCLDGWLHHLNFNCPLCR 152
C+H KDCLD F+CP CR
Sbjct: 70 CQHNVCKDCLDRSFRAQVFSCPACR 94
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 126 LDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRR 166
L C H K C + + CP CR V S R ++TRR
Sbjct: 31 LPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTR-YHTRR 70
>pdb|3VG8|G Chain G, Crystal Structure Of Hypothetical Protein Tthb210 From
Thermus Thermophilus Hb8
pdb|3VG8|H Chain H, Crystal Structure Of Hypothetical Protein Tthb210 From
Thermus Thermophilus Hb8
pdb|3VG8|I Chain I, Crystal Structure Of Hypothetical Protein Tthb210 From
Thermus Thermophilus Hb8
pdb|3VG8|J Chain J, Crystal Structure Of Hypothetical Protein Tthb210 From
Thermus Thermophilus Hb8
pdb|3VG8|A Chain A, Crystal Structure Of Hypothetical Protein Tthb210 From
Thermus Thermophilus Hb8
pdb|3VG8|B Chain B, Crystal Structure Of Hypothetical Protein Tthb210 From
Thermus Thermophilus Hb8
pdb|3VG8|C Chain C, Crystal Structure Of Hypothetical Protein Tthb210 From
Thermus Thermophilus Hb8
pdb|3VG8|D Chain D, Crystal Structure Of Hypothetical Protein Tthb210 From
Thermus Thermophilus Hb8
pdb|3VG8|E Chain E, Crystal Structure Of Hypothetical Protein Tthb210 From
Thermus Thermophilus Hb8
pdb|3VG8|F Chain F, Crystal Structure Of Hypothetical Protein Tthb210 From
Thermus Thermophilus Hb8
Length = 116
Score = 26.9 bits (58), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 38 LHSVGMTRVDPVQNNPAGPHVG 59
L ++G+TR+D V P+GPH G
Sbjct: 68 LRALGITRIDHVNXIPSGPHPG 89
>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 = 8.4, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 127 DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
+C H FH C+ W+ N CPLC+ V +
Sbjct: 47 ECNHSFHNCCMSLWVKQ-NNRCPLCQQDWVVQ 77
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 26.2 bits (56), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 21/55 (38%)
Query: 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV 161
GS +C + + V+ C H+ CL W CP CR + E +
Sbjct: 23 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCEIKGTEPI 77
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 26.2 bits (56), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 21/55 (38%)
Query: 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV 161
GS +C + + V+ C H+ CL W CP CR + E +
Sbjct: 331 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 385
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 26.2 bits (56), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 21/55 (38%)
Query: 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV 161
GS +C + + V+ C H+ CL W CP CR + E +
Sbjct: 331 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 385
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 26.2 bits (56), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 21/55 (38%)
Query: 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV 161
GS +C + + V+ C H+ CL W CP CR + E +
Sbjct: 21 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 75
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 21/55 (38%)
Query: 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV 161
GS +C + + V+ C H+ CL W CP CR + E +
Sbjct: 24 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 78
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
0.327 0.140 0.470
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,598,630
Number of Sequences: 62578
Number of extensions: 152187
Number of successful extensions: 421
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 398
Number of HSP's gapped (non-prelim): 41
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)