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= 012092
(471 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 100 bits (249), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 42/83 (50%), Positives = 56/83 (67%)
Query: 86 VIVKLSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRTHCASR 145
++V + E+ CPICL +++ T T ECLHRFC +CI A+R GN ECP CR S+
Sbjct: 44 IVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 103
Query: 146 RSLRDDLNYDALIAALYPDIDKY 168
RSLR D N+DALI+ +YP D+Y
Sbjct: 104 RSLRPDPNFDALISKIYPSRDEY 126
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 40/78 (51%), Positives = 53/78 (67%)
Query: 86 VIVKLSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRTHCASR 145
++V + E+ CPICL +++ T T ECLHRFC +CI A+R GN ECP CR S+
Sbjct: 43 IVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 102
Query: 146 RSLRDDLNYDALIAALYP 163
RSLR D N+DALI+ +YP
Sbjct: 103 RSLRPDPNFDALISKIYP 120
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 39/77 (50%), Positives = 52/77 (67%)
Query: 86 VIVKLSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRTHCASR 145
++V + E+ CPICL +++ T T ECLHRFC +CI A+R GN ECP CR S+
Sbjct: 24 IVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 83
Query: 146 RSLRDDLNYDALIAALY 162
RSLR D N+DALI+ +Y
Sbjct: 84 RSLRPDPNFDALISKIY 100
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 4/83 (4%)
Query: 88 VKLSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRTHCASRRS 147
+K++++ + C +C G T++ECLH FC+ CI + + + CP C R
Sbjct: 3 IKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRP 61
Query: 148 L---RDDLNYDALIAALYPDIDK 167
L R D ++ L P + K
Sbjct: 62 LLNIRSDKTLQDIVYKLVPGLFK 84
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 46.2 bits (108), Expect = 4e-05, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 4/83 (4%)
Query: 88 VKLSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRTHCASRRS 147
+K++++ + C +C G T++ECLH FC+ CI + + + CP C R
Sbjct: 7 IKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRP 65
Query: 148 L---RDDLNYDALIAALYPDIDK 167
L R D ++ L P + K
Sbjct: 66 LLNIRSDKTLQDIVYKLVPGLFK 88
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 46.2 bits (108), Expect = 4e-05, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 4/83 (4%)
Query: 88 VKLSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRTHCASRRS 147
+K++++ + C +C G T++ECLH FC+ CI + + + CP C R
Sbjct: 7 IKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRP 65
Query: 148 L---RDDLNYDALIAALYPDIDK 167
L R D ++ L P + K
Sbjct: 66 LLNIRSDKTLQDIVYKLVPGLFK 88
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 45.8 bits (107), Expect = 6e-05, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 90 LSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPAC 138
LS++ + C IC G + T+ ECLH FC+ CI + +N CP C
Sbjct: 9 LSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYY-SNRCPKC 56
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 45.4 bits (106), Expect = 6e-05, Method: Composition-based stats.
Identities = 21/53 (39%), Positives = 34/53 (64%), Gaps = 3/53 (5%)
Query: 90 LSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDK--AMRLGNNECPACRT 140
++ +++EV CPICL I++K T+ +C H FC +CI + G +CP C+T
Sbjct: 14 VNKLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLCKT 65
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 46/74 (62%), Gaps = 4/74 (5%)
Query: 90 LSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAM--RLGNNECPACRTHCASRRS 147
++ ++K ++CPICL +I++ + +C H FC+ C+ K + + G ++CP C+ ++RS
Sbjct: 15 INAMQKILECPICLELIKEPVST-KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI-TKRS 72
Query: 148 LRDDLNYDALIAAL 161
L++ + L+ L
Sbjct: 73 LQESTRFSQLVEEL 86
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 32/51 (62%), Gaps = 3/51 (5%)
Query: 90 LSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDK--AMRLGNNECPAC 138
++ +++EV CPICL I++K T+ +C H FC +CI + G +CP C
Sbjct: 14 VNKLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLC 63
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 90 LSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRL-----GNNECPACR 139
L I++EV CPICL ++++ + +C H FCR CI G CP CR
Sbjct: 13 LEMIKEEVTCPICLELLKEPVSA-DCNHSFCRACITLNYESNRNTDGKGNCPVCR 66
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 42.0 bits (97), Expect = 8e-04, Method: Composition-based stats.
Identities = 17/39 (43%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 98 QCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECP 136
+CPICL +R+ C HRFC+ CI K++R ++CP
Sbjct: 8 ECPICLMALREA-VQTPCGHRFCKACIIKSIRDAGHKCP 45
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 41.6 bits (96), Expect = 9e-04, Method: Composition-based stats.
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 74 SRSSGDGEKDEFVIVKLSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNN 133
S SSG E + + + + +CPICL +R+ C HRFC+ CI K++R +
Sbjct: 3 SGSSGMEEIQGYDVEFDPPLESKYECPICLMALREA-VQTPCGHRFCKACIIKSIRDAGH 61
Query: 134 ECP 136
+CP
Sbjct: 62 KCP 64
>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The P1
Space Group
pdb|3HCU|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
pdb|3HCU|C Chain C, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
Length = 118
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 93 IRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECP 136
+ + +CPICL +R+ C HRFC+ CI K++R ++CP
Sbjct: 15 LESKYECPICLMALREA-VQTPCGHRFCKACIIKSIRDAGHKCP 57
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 37/74 (50%), Gaps = 1/74 (1%)
Query: 90 LSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRTHCASRRSLR 149
LS + + QC C ++ + T + C H C++C+D++ R CPACR +++
Sbjct: 46 LSKVEETFQCICCQELVFRPITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQ 104
Query: 150 DDLNYDALIAALYP 163
+ ++ L+P
Sbjct: 105 VNQPLQTVLNQLFP 118
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 7/56 (12%)
Query: 97 VQCPICLG----IIRKTRTVM--ECLHRFCRECIDKAMRLGNNECPACRTHCASRR 146
V CPIC+ I++ R ++ EC H FC +C+ +++ N CP CR +R
Sbjct: 4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINHKR 58
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 7/56 (12%)
Query: 97 VQCPICLG----IIRKTRTVM--ECLHRFCRECIDKAMRLGNNECPACRTHCASRR 146
V CPIC+ I++ R ++ EC H FC +C+ +++ N CP CR +R
Sbjct: 8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINHKR 62
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 7/56 (12%)
Query: 97 VQCPICLG----IIRKTRTVM--ECLHRFCRECIDKAMRLGNNECPACRTHCASRR 146
V CPIC+ I++ R ++ EC H FC +C+ +++ N CP CR +R
Sbjct: 73 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINHKR 127
>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 = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 7/56 (12%)
Query: 97 VQCPICLG----IIRKTRTVM--ECLHRFCRECIDKAMRLGNNECPACRTHCASRR 146
V CPIC+ I++ R ++ EC H FC +C+ +++ N CP CR +R
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINHKR 65
>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 = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 98 QCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACR 139
+CPICL + CLH FC CI + +R N CP C+
Sbjct: 7 RCPICLEDPSNYSMALPCLHAFCYVCITRWIR-QNPTCPLCK 47
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 38.9 bits (89), Expect = 0.006, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 95 KEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRTHC 142
K + C IC I+ C H FCR CI + +++ + CP+CR C
Sbjct: 22 KSISCQICEHILADP-VETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68
>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Tripartite Motif-Containing Protein 5
Length = 85
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 32/55 (58%), Gaps = 6/55 (10%)
Query: 90 LSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECID-----KAMRLGNNECPACR 139
L ++++EV CPICL ++ + + ++C H FC+ C+ + G + CP CR
Sbjct: 13 LVNVKEEVTCPICLELLTQPLS-LDCGHSFCQACLTANHKKSMLDKGESSCPVCR 66
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 38.1 bits (87), Expect = 0.010, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 7/53 (13%)
Query: 92 DIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRL------GNNECPAC 138
++++EV CPICL ++ + + ++C H CR CI + + G + CP C
Sbjct: 8 NVQEEVTCPICLELLTEPLS-LDCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 93 IRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPA 137
+ + +CPICL +R+ C HRFC+ CI K++R ++CP
Sbjct: 15 LESKYECPICLMALREAVQT-PCGHRFCKACIIKSIRDAGHKCPV 58
>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 = 36.2 bits (82), Expect = 0.041, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 82 KDEFVIVKLSDI-RKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRT 140
+ E V+ ++D+ E+QC IC + T + C H FC CI++ M+ ECP CR
Sbjct: 49 QKEEVLSHMNDVLENELQCIICSEYFIEAVT-LNCAHSFCSYCINEWMKR-KIECPICRK 106
Query: 141 HCASR 145
S+
Sbjct: 107 DIKSK 111
>pdb|1Z6U|A Chain A, Np95-Like Ring Finger Protein Isoform B [homo Sapiens]
pdb|1Z6U|B Chain B, Np95-Like Ring Finger Protein Isoform B [homo Sapiens]
Length = 150
Score = 36.2 bits (82), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 17/78 (21%), Positives = 32/78 (41%), Gaps = 1/78 (1%)
Query: 90 LSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRTHCASRRSLR 149
L + + C C ++ + T EC H C++C+ ++ + CPACR +
Sbjct: 72 LKKLEQSFMCVCCQELVYQPVTT-ECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMI 130
Query: 150 DDLNYDALIAALYPDIDK 167
+ L+ +P K
Sbjct: 131 PNEILQTLLDLFFPGYSK 148
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 35.4 bits (80), Expect = 0.062, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 82 KDEFVIVKLSDI-RKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRT 140
+ E V+ ++D+ E+QC IC + T + C H FC CI++ M+ ECP CR
Sbjct: 38 QKEEVLSHMNDVLENELQCIICSEYFIEAVT-LNCAHSFCSYCINEWMKR-KIECPICRK 95
Query: 141 HCASR 145
S+
Sbjct: 96 DIKSK 100
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 35.4 bits (80), Expect = 0.068, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 82 KDEFVIVKLSDI-RKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRT 140
+ E V+ ++D+ E+QC IC + T + C H FC CI++ M+ ECP CR
Sbjct: 38 QKEEVLSHMNDVLENELQCIICSEYFIEAVT-LNCAHSFCSYCINEWMKR-KIECPICRK 95
Query: 141 HCASR 145
S+
Sbjct: 96 DIKSK 100
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 34.7 bits (78), Expect = 0.12, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 90 LSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNE--CPAC 138
L +++ E C +CL +++ ++EC H FC+ CI + + CP C
Sbjct: 9 LENLQVEASCSVCLEYLKEP-VIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 7/49 (14%)
Query: 97 VQCPICLG----IIRKTRTVM--ECLHRFCRECIDKAMRLGNNECPACR 139
V CPIC+ I++ R ++ EC H FC +C+ +++ N CP CR
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCR 63
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 7/72 (9%)
Query: 90 LSDIRKEVQCPICLGIIRKTRT---VMECLHRFCRECIDK--AMRLGNNECPACR--THC 142
L +R+ ++CPIC+ + + ++ C H CR+C++K A + CP C T
Sbjct: 9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRI 68
Query: 143 ASRRSLRDDLNY 154
S L D+L
Sbjct: 69 TSLTQLTDNLTV 80
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 96 EVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACR 139
E QC IC+ I+ + T + C H C+ C + + CP CR
Sbjct: 15 ECQCGICMEILVEPVT-LPCNHTLCKPCFQSTVEKASLCCPFCR 57
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 89 KLSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACR 139
++ + E +C IC+ + ++ C H FC++CIDK N CP CR
Sbjct: 8 RVKQLTDEEECCICMD--GRADLILPCAHSFCQKCIDKWSDRHRN-CPICR 55
>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 = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 2/65 (3%)
Query: 97 VQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRTHCASRRSLRDDLNYDA 156
++C IC + +C H +C CI K + +CP C + L+++ D
Sbjct: 23 LRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSY-KTQCPTCCV-TVTEPDLKNNRILDE 80
Query: 157 LIAAL 161
L+ +L
Sbjct: 81 LVKSL 85
>pdb|1JM7|B Chain B, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 117
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 90 LSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACRT 140
L + K ++C C I+R+ + C H FC C+ + G CP C T
Sbjct: 16 LDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTG---CPVCYT 63
>pdb|3ZTG|A Chain A, Solution Structure Of The Ring Finger-Like Domain Of
Retinoblastoma Binding Protein-6 (Rbbp6)
pdb|3ZTG|B Chain B, Solution Structure Of The Ring Finger-Like Domain Of
Retinoblastoma Binding Protein-6 (Rbbp6)
Length = 92
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 35/69 (50%), Gaps = 12/69 (17%)
Query: 93 IRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNE--CPACRTHCASRRSLRD 150
I E+ C IC I+ + C + +C ECI A+ L ++E CP C ++
Sbjct: 10 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTAL-LESDEHTCPTCH---------QN 59
Query: 151 DLNYDALIA 159
D++ DALIA
Sbjct: 60 DVSPDALIA 68
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 95 KEVQCPICLGII--RKTRTVMECLHRFCRECIDKAMRLGNNECPACRT 140
++ C +C+ R+ V+ C H F +C+DK ++ N CP CR
Sbjct: 22 EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLK-ANRTCPICRA 68
>pdb|2ECY|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger)" Domain Of Tnf Receptor-Associated Factor 3
Length = 66
Score = 28.9 bits (63), Expect = 5.7, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 114 ECLHRFCRECIDKAMRLGNNECPACR 139
EC HRFC C+ + + +C AC+
Sbjct: 32 ECGHRFCESCMAALLSSSSPKCTACQ 57
>pdb|1UR6|B Chain B, Nmr Based Structural Model Of The Ubch5b-Cnot4 Complex
Length = 52
Score = 28.9 bits (63), Expect = 7.1, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 97 VQCPIC---LGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACR 139
V+CP+C L I C ++ CR C + N CPACR
Sbjct: 1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACR 46
>pdb|1BOR|A Chain A, Transcription Factor Pml, A Proto-Oncoprotein, Nmr, 1
Representative Structure At Ph 7.5, 30 C, In The
Presence Of Zinc
Length = 56
Score = 28.5 bits (62), Expect = 8.0, Method: Composition-based stats.
Identities = 13/58 (22%), Positives = 26/58 (44%), Gaps = 14/58 (24%)
Query: 82 KDEFVIVKLSDIRKEVQCPICLGIIRKTRTVMECLHRFCRECIDKAMRLGNNECPACR 139
++EF ++ + E +CP ++ CLH C C++ + +CP C+
Sbjct: 1 EEEFQFLRCQQCQAEAKCP----------KLLPCLHTLCSGCLEAS----GMQCPICQ 44
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
0.316 0.131 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,835,742
Number of Sequences: 62578
Number of extensions: 437062
Number of successful extensions: 835
Number of sequences better than 100.0: 47
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 804
Number of HSP's gapped (non-prelim): 48
length of query: 471
length of database: 14,973,337
effective HSP length: 102
effective length of query: 369
effective length of database: 8,590,381
effective search space: 3169850589
effective search space used: 3169850589
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)