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= 041030
(249 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 31/55 (56%), Gaps = 10/55 (18%)
Query: 168 CPICKEEFXXXXXXXXXXXEVMIMELPCKHLYHSDCIVPWLRHYSTTCPVCRYEL 222
CP+CKE++ + +LPC HL+H CIVPWL + +CPVCR L
Sbjct: 18 CPVCKEDYALGES---------VRQLPCNHLFHDSCIVPWLEQHD-SCPVCRKSL 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 = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 39/81 (48%), Gaps = 12/81 (14%)
Query: 139 PAPVSAVEALKRVRISESTQLTRSNEVQCCPICKEEFXXXXXXXXXXXEVMIMELPCKHL 198
PA +++AL + ++E + CCPIC E+ + ELPC H
Sbjct: 16 PASKESIDALPEILVTEDHGAV--GQEMCCPICCSEYVKGD---------VATELPCHHY 64
Query: 199 YHSDCIVPWLRHYSTTCPVCR 219
+H C+ WL+ S TCPVCR
Sbjct: 65 FHKPCVSIWLQK-SGTCPVCR 84
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 189 MIMELPCKHLYHSDCIVPWLRHYSTTCPVCRYE 221
++ LPC H +H+ C+ WL+ + TCP+CR +
Sbjct: 38 LLRVLPCNHEFHAKCVDKWLK-ANRTCPICRAD 69
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 35.4 bits (80), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 14/74 (18%)
Query: 163 NEVQCCPICKEEFXXXXXXXXXXXEVMIMELPCKHLYHSDCIVPWLRHYSTTCPVCRYEL 222
NE+QC IC E F + + L C H + S CI W++ CP+CR ++
Sbjct: 52 NELQC-IICSEYF------------IEAVTLNCAHSFCSYCINEWMKR-KIECPICRKDI 97
Query: 223 KDSIIGSGGDNIMN 236
K DN +N
Sbjct: 98 KSKTYSLVLDNXIN 111
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 35.0 bits (79), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 14/74 (18%)
Query: 163 NEVQCCPICKEEFXXXXXXXXXXXEVMIMELPCKHLYHSDCIVPWLRHYSTTCPVCRYEL 222
NE+QC IC E F + + L C H + S CI W++ CP+CR ++
Sbjct: 52 NELQC-IICSEYF------------IEAVTLNCAHSFCSYCINEWMKR-KIECPICRKDI 97
Query: 223 KDSIIGSGGDNIMN 236
K DN +N
Sbjct: 98 KSKTYSLVLDNCIN 111
>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 = 0.044, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 14/74 (18%)
Query: 163 NEVQCCPICKEEFXXXXXXXXXXXEVMIMELPCKHLYHSDCIVPWLRHYSTTCPVCRYEL 222
NE+QC IC E F + + L C H + S CI W++ CP+CR ++
Sbjct: 63 NELQC-IICSEYF------------IEAVTLNCAHSFCSYCINEWMKR-KIECPICRKDI 108
Query: 223 KDSIIGSGGDNIMN 236
K DN +N
Sbjct: 109 KSKTYSLVLDNCIN 122
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 194 PCKHLYHSDCIVPWLRHYSTTCPVCRYELKDS 225
PC HL + C+ W CP CR E+K +
Sbjct: 44 PCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 75
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 190 IMELPCKHLYHSDCIVPWLRHYSTTCPVCRYELKDSI 226
+ LPC HL+H C+ WL + CP+CR +++ +
Sbjct: 30 VRRLPCMHLFHQVCVDQWL-ITNKKCPICRVDIEAQL 65
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 32.7 bits (73), Expect = 0.19, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 10/63 (15%)
Query: 156 STQLTRSNEVQCCPICKEEFXXXXXXXXXXXEVMIMELPCKHLYHSDCIVPWLRHYSTTC 215
S ++ N + C +C E+F E+ I PCKH +H C++ WL C
Sbjct: 6 SGKVKELNLHELCAVCLEDFKPRD-------ELGI--CPCKHAFHRKCLIKWL-EVRKVC 55
Query: 216 PVC 218
P+C
Sbjct: 56 PLC 58
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 194 PCKHLYHSDCIVPWLRHYSTTCPVCRYELKDS 225
PC HL + C+ W CP CR E+K +
Sbjct: 41 PCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 72
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 194 PCKHLYHSDCIVPWLRHYSTTCPVCRYELKDS 225
PC HL + C+ W CP CR E+K +
Sbjct: 351 PCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 382
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 194 PCKHLYHSDCIVPWLRHYSTTCPVCRYELKDS 225
PC HL + C+ W CP CR E+K +
Sbjct: 351 PCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 382
>pdb|2Y1M|A Chain A, Structure Of Native C-Cbl
pdb|2Y1M|B Chain B, Structure Of Native C-Cbl
pdb|2Y1M|C Chain C, Structure Of Native C-Cbl
pdb|2Y1M|D Chain D, Structure Of Native C-Cbl
pdb|2Y1M|E Chain E, Structure Of Native C-Cbl
pdb|2Y1M|F Chain F, Structure Of Native C-Cbl
pdb|2Y1N|A Chain A, Structure Of C-Cbl-Zap-70 Peptide Complex
pdb|2Y1N|C Chain C, Structure Of C-Cbl-Zap-70 Peptide Complex
Length = 389
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 194 PCKHLYHSDCIVPWLRHYSTTCPVCRYELKDS 225
PC HL + C+ W CP CR E+K +
Sbjct: 349 PCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 380
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 194 PCKHLYHSDCIVPWLRHYSTTCPVCRYELKDS 225
PC HL + C+ W CP CR E+K +
Sbjct: 349 PCGHLMCTSCLTSWQESEGQGCPFCRCEIKGT 380
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 32.0 bits (71), Expect = 0.36, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 194 PCKHLYHSDCIVPWLRHYSTTCPVCRYELKDS 225
PC HL + C+ W CP CR E+K +
Sbjct: 43 PCGHLMCTSCLTAWQESDGQGCPFCRCEIKGT 74
>pdb|3VGO|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|B Chain B, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|C Chain C, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
Length = 394
Score = 31.6 bits (70), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 194 PCKHLYHSDCIVPWLRHYSTTCPVCRYELKDS 225
PC HL + C+ W CP CR E+K +
Sbjct: 355 PCGHLMCTSCLTAWQESDGQGCPFCRCEIKGT 386
>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 = 31.6 bits (70), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 191 MELPCKHLYHSDCIVPWLRHYSTTCPVCRYELKDSIIGSGGDNIMNDH 238
M LPC H + CI W+R + TCP+C+ ++ + D+ D
Sbjct: 20 MALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVESVVHTIESDSEFGDQ 66
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 195 CKHLYHSDCIVPWLRHYSTTCPVCRYEL 222
C H + +DCI+ LR + CP CR +L
Sbjct: 73 CLHRFCADCIITALRSGNKECPTCRKKL 100
>pdb|3EB5|A Chain A, Structure Of The Ciap2 Ring Domain
pdb|3EB6|A Chain A, Structure Of The Ciap2 Ring Domain Bound To Ubch5b
Length = 74
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 16/69 (23%)
Query: 158 QLTRSNEVQCCPICKEEFXXXXXXXXXXXEVMIMELPCKHLYHSDCIVPWLRHYSTTCPV 217
QL R E + C +C ++ EV I+ +PC HL P LR CP+
Sbjct: 17 QLRRLQEERTCKVCMDK------------EVSIVFIPCGHLVVCKDCAPSLRK----CPI 60
Query: 218 CRYELKDSI 226
CR +K ++
Sbjct: 61 CRSTIKGTV 69
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 195 CKHLYHSDCIVPWLRHYSTTCPVCRYEL 222
C H + +DCI+ LR + CP CR +L
Sbjct: 72 CLHRFCADCIITALRSGNKECPTCRKKL 99
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 30.4 bits (67), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 195 CKHLYHSDCIVPWLRHYSTTCPVCR 219
C H +H++C+ WL +S TCP+CR
Sbjct: 27 CGHGFHAECVDMWLGSHS-TCPLCR 50
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 195 CKHLYHSDCIVPWLRHYSTTCPVCRYEL 222
C H + +DCI+ LR + CP CR +L
Sbjct: 53 CLHRFCADCIITALRSGNKECPTCRKKL 80
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 191 MELPCKHLYHSDCIVPWLRHYSTTCPVCRY 220
+E CKHL+ CI+ L+ + CP CRY
Sbjct: 37 VETSCKHLFCRICILRCLKVMGSYCPSCRY 66
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 193 LPCKHLYHSDCIVPWL-RHYSTTCPVCRYELKDSIIGSG 230
LPC H + CI W RH + CP+CR ++ + SG
Sbjct: 30 LPCAHSFCQKCIDKWSDRHRN--CPICRLQMTGANESSG 66
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 195 CKHLYHSDCIVPWLRHYSTTCPVCRYELKDS 225
C+H DC+ R +CP CRY+L S
Sbjct: 70 CQHNVCKDCLDRSFRAQVFSCPACRYDLGRS 100
>pdb|2D8S|A Chain A, Solution Structure Of The Ring Domain Of The Human
Cellular Modulator Of Immune Recognition Protein
Length = 80
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 134 DAAPTPAPVSAVEALKRVRISESTQLTRSNEVQCCPICKEEF 175
D +P P +L V + Q +S++ +CC +CK EF
Sbjct: 27 DESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEF 68
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
0.322 0.134 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,044,449
Number of Sequences: 62578
Number of extensions: 272657
Number of successful extensions: 11600
Number of sequences better than 100.0: 55
Number of HSP's better than 100.0 without gapping: 36
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 11532
Number of HSP's gapped (non-prelim): 71
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)