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= 024938
(260 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 7/68 (10%)
Query: 32 NVPEKDGSFFECNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCK 91
NV EC ICL+ ++PV T C H++C C+ K L+ + CP+CK
Sbjct: 13 NVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGP-------SQCPLCK 65
Query: 92 ANISVASL 99
+I+ SL
Sbjct: 66 NDITKRSL 73
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 7/48 (14%)
Query: 43 CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVC 90
C++CL+ ++PV+ CGH +C CI +W + E+ CPVC
Sbjct: 18 CSVCLEYLKEPVIIECGHNFCKACITRW-------WEDLERDFPCPVC 58
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 10/59 (16%)
Query: 38 GSFFE-CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANIS 95
GS F+ C IC ++ +D + CGHL C C+ W + + Q CP C+ I
Sbjct: 331 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSW---------QESEGQGCPFCRCEIK 380
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 10/59 (16%)
Query: 38 GSFFE-CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANIS 95
GS F+ C IC ++ +D + CGHL C C+ W + + Q CP C+ I
Sbjct: 331 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSW---------QESEGQGCPFCRCEIK 380
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 10/59 (16%)
Query: 38 GSFFE-CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANIS 95
GS F+ C IC ++ +D + CGHL C C+ W + + Q CP C+ I
Sbjct: 329 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSW---------QESEGQGCPFCRCEIK 378
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 10/59 (16%)
Query: 38 GSFFE-CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANIS 95
GS F+ C IC ++ +D + CGHL C C+ W + + Q CP C+ I
Sbjct: 329 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSW---------QESEGQGCPFCRCEIK 378
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 38.1 bits (87), Expect = 0.005, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 10/58 (17%)
Query: 38 GSFFE-CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANI 94
GS F+ C IC ++ +D + CGHL C C+ W + Q CP C+ I
Sbjct: 23 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTAW---------QESDGQGCPFCRCEI 71
>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 = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 10/59 (16%)
Query: 38 GSFFE-CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANIS 95
GS F+ C IC ++ +D + CGHL C C+ W + Q CP C+ I
Sbjct: 335 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTAW---------QESDGQGCPFCRCEIK 384
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 37.7 bits (86), Expect = 0.006, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 23/52 (44%), Gaps = 7/52 (13%)
Query: 43 CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANI 94
C ICLD Q PV CGH +C CI + CP+CK ++
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFF-------KCPLCKTSV 67
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 11/56 (19%)
Query: 42 ECNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANISVA 97
EC IC+D D ++ C H +C CI KW ++ +NCP+C+ ++ A
Sbjct: 17 ECCICMDGRADLILP-CAHSFCQKCIDKW----------SDRHRNCPICRLQMTGA 61
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 37.4 bits (85), Expect = 0.009, Method: Composition-based stats.
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 38 GSFFECNICLDSAQDPVVTLCGHLYCWPCIYK 69
GS +EC ICL + ++ V T CGH +C CI K
Sbjct: 4 GSKYECPICLMALREAVQTPCGHRFCKACIIK 35
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 37.0 bits (84), Expect = 0.011, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 4/59 (6%)
Query: 43 CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANISVASLVP 101
C ICL+ ++PV C H +C CI + S + + NCPVC+ +L P
Sbjct: 22 CPICLELLKEPVSADCNHSFCRACIT----LNYESNRNTDGKGNCPVCRVPYPFGNLKP 76
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 10/58 (17%)
Query: 38 GSFFE-CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANI 94
GS F+ C IC ++ +D + CGHL C C+ W + + Q CP C+ I
Sbjct: 24 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSW---------QESEGQGCPFCRCEI 72
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 36.2 bits (82), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 10/58 (17%)
Query: 38 GSFFE-CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANI 94
GS F+ C IC ++ +D + CGHL C C+ W + + Q CP C+ I
Sbjct: 21 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSW---------QESEGQGCPFCRCEI 69
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 35.0 bits (79), Expect = 0.041, Method: Composition-based stats.
Identities = 14/25 (56%), Positives = 15/25 (60%)
Query: 43 CNICLDSAQDPVVTLCGHLYCWPCI 67
C ICLD Q PV CGH +C CI
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCI 47
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 35.0 bits (79), Expect = 0.047, Method: Composition-based stats.
Identities = 15/31 (48%), Positives = 20/31 (64%)
Query: 39 SFFECNICLDSAQDPVVTLCGHLYCWPCIYK 69
S +EC ICL + ++ V T CGH +C CI K
Sbjct: 24 SKYECPICLMALREAVQTPCGHRFCKACIIK 54
>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 = 35.0 bits (79), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 34/81 (41%), Gaps = 10/81 (12%)
Query: 35 EKDGSFFECNICLDSAQDPVVT-LCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKAN 93
E F C IC + +D + C L C+ CI +WL EQ+ CP C+A
Sbjct: 17 ESIAEVFRCFICXEKLRDARLCPHCSKLCCFSCIRRWL---------TEQRAQCPHCRAP 67
Query: 94 ISVASLVPLYGRGGISSASDS 114
+ + LV ++ D+
Sbjct: 68 LQLRELVNCRWAEEVTQQLDT 88
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 34.7 bits (78), Expect = 0.060, Method: Composition-based stats.
Identities = 19/73 (26%), Positives = 30/73 (41%), Gaps = 17/73 (23%)
Query: 38 GSFFECNICLDSAQDPV-------VTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVC 90
G+ C IC+D + V T CGH++C C+ D+ + CP C
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR----------DSLKNANTCPTC 50
Query: 91 KANISVASLVPLY 103
+ I+ P+Y
Sbjct: 51 RKKINHKRYHPIY 63
>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 = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 39 SFFECNICLDSAQDPVVTLCGHLYCWPCIYKWL 71
S +EC ICL + ++ V T CGH +C CI K +
Sbjct: 17 SKYECPICLMALREAVQTPCGHRFCKACIIKSI 49
>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 = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 39 SFFECNICLDSAQDPVVTLCGHLYCWPCIYKWL 71
S +EC ICL + ++ V T CGH +C CI K +
Sbjct: 17 SKYECPICLMALREAVQTPCGHRFCKACIIKSI 49
>pdb|1T1H|A Chain A, Nmr Solution Structure Of The U Box Domain From Atpub14,
An Armadillo Repeat Containing Protein From Arabidopsis
Thaliana
Length = 78
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 27/64 (42%), Gaps = 9/64 (14%)
Query: 40 FFECNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANISVASL 99
+F C I L+ +DPV+ G Y I KWL D + CP + + A L
Sbjct: 8 YFRCPISLELMKDPVIVSTGQTYERSSIQKWL---------DAGHKTCPKSQETLLHAGL 58
Query: 100 VPLY 103
P Y
Sbjct: 59 TPNY 62
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 18/34 (52%)
Query: 43 CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTS 76
C IC DPV T C HL+C CI + L V S
Sbjct: 26 CQICEHILADPVETSCKHLFCRICILRCLKVMGS 59
>pdb|4AUQ|B Chain B, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|E Chain E, Structure Of Birc7-Ubch5b-Ub Complex
Length = 62
Score = 32.7 bits (73), Expect = 0.19, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 14/52 (26%)
Query: 43 CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANI 94
C +CLD A V CGHL C C Q CP+C+A +
Sbjct: 16 CKVCLDRAVSIVFVPCGHLVCAECA--------------PGLQLCPICRAPV 53
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 19/42 (45%)
Query: 41 FECNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADE 82
F C IC + Q+PVVT C H +C C + D+
Sbjct: 16 FRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQ 57
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 13/74 (17%)
Query: 22 QKWSPTSAPTNVPEKDGSFFECNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDAD 81
QK S +V E + +C IC + + V C H +C CI +W+
Sbjct: 38 QKEEVLSHMNDVLENE---LQCIICSEYFIEAVTLNCAHSFCSYCINEWM---------- 84
Query: 82 EQQQNCPVCKANIS 95
+++ CP+C+ +I
Sbjct: 85 KRKIECPICRKDIK 98
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 13/72 (18%)
Query: 27 TSAPTNVPEKDGSFFECNICLD--SAQDPVVTL-CGHLYCWPCIYKWLHVQTSSLDADEQ 83
+S + E GS EC +C + + + V L C HL+ CI WL EQ
Sbjct: 2 SSGSSGTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWL----------EQ 51
Query: 84 QQNCPVCKANIS 95
+CPVC+ +++
Sbjct: 52 HDSCPVCRKSLT 63
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 13/74 (17%)
Query: 22 QKWSPTSAPTNVPEKDGSFFECNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDAD 81
QK S +V E + +C IC + + V C H +C CI +W+
Sbjct: 38 QKEEVLSHMNDVLENE---LQCIICSEYFIEAVTLNCAHSFCSYCINEWM---------- 84
Query: 82 EQQQNCPVCKANIS 95
+++ CP+C+ +I
Sbjct: 85 KRKIECPICRKDIK 98
>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 = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 13/81 (16%)
Query: 15 EEDASLKQKWSPTSAPTNVPEKDGSFFECNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQ 74
E++ QK S +V E + +C IC + + V C H +C CI +W+
Sbjct: 42 EKEKMQAQKEEVLSHMNDVLENE---LQCIICSEYFIEAVTLNCAHSFCSYCINEWM--- 95
Query: 75 TSSLDADEQQQNCPVCKANIS 95
+++ CP+C+ +I
Sbjct: 96 -------KRKIECPICRKDIK 109
>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 = 32.0 bits (71), Expect = 0.39, Method: Composition-based stats.
Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 17/68 (25%)
Query: 43 CNICLDSAQDPV-------VTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANIS 95
C IC+D + V T CGH++C C+ D+ + CP C+ I+
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR----------DSLKNANTCPTCRKKIN 62
Query: 96 VASLVPLY 103
P+Y
Sbjct: 63 HKRYHPIY 70
>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 = 0.98, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 26/52 (50%), Gaps = 9/52 (17%)
Query: 43 CNICLDSAQDPVVT-LCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKAN 93
C IC D D VV CG+ YC CI +T+ L++DE CP C N
Sbjct: 16 CLICKDIMTDAVVIPCCGNSYCDECI------RTALLESDE--HTCPTCHQN 59
>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 = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 43 CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCK 91
C ICL+ P+ CGH +C C+ + + S LD E +CPVC+
Sbjct: 22 CPICLELLTQPLSLDCGHSFCQACLTA--NHKKSMLDKGE--SSCPVCR 66
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3
Ubiquitin- Protein Ligase Uhrf1
Length = 124
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 31/77 (40%), Gaps = 9/77 (11%)
Query: 18 ASLKQKWSPTSAPTNVPEKDGSFFECNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSS 77
ASLK + + S K F+C C + P+ T+C H C C+ + Q S
Sbjct: 30 ASLKDRPASGSPFQLFLSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFS 89
Query: 78 LDADEQQQNCPVCKANI 94
CP C+ ++
Sbjct: 90 ---------CPACRYDL 97
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 9/54 (16%)
Query: 42 ECNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANIS 95
+C IC++ +PV C H C PC V+ +SL CP C+ +S
Sbjct: 17 QCGICMEILVEPVTLPCNHTLCKPCFQS--TVEKASL-------CCPFCRRRVS 61
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 42 ECNICLDSAQDPVVTLCGHLYCWPCI--YKWL 71
EC ICL + PV C H++C+ C+ WL
Sbjct: 17 ECAICLQTCVHPVSLPCKHVFCYLCVKGASWL 48
>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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 11/54 (20%)
Query: 42 ECNICLDSAQDPVVTL-CGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANI 94
C ICL+ + + L C H +C+ CI +W+ Q CP+CK +
Sbjct: 7 RCPICLEDPSNYSMALPCLHAFCYVCITRWI----------RQNPTCPLCKVPV 50
>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 = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 34/92 (36%), Gaps = 15/92 (16%)
Query: 8 PETGYATEEDASLKQKWSPT-----SAPTNVPEKDGSFFECNICLDSAQDPVVTLCGHLY 62
P+ + ED ++ W P + + + SF C C + PV T C H
Sbjct: 42 PQQQHLIREDCQNQKLWDEVLSHLVEGPNFLKKLEQSFM-CVCCQELVYQPVTTECFHNV 100
Query: 63 CWPCIYKWLHVQTSSLDADEQQQNCPVCKANI 94
C C+ + Q S CP C+ ++
Sbjct: 101 CKDCLQRSFKAQVFS---------CPACRHDL 123
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 18/77 (23%)
Query: 41 FECNICLDSAQDPV-------VTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKAN 93
C IC+D + V T CGH++C C+ D+ + CP C+
Sbjct: 8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR----------DSLKNANTCPTCRKK 57
Query: 94 ISVASLVPLY-GRGGIS 109
I+ P+Y G G +S
Sbjct: 58 INHKRYHPIYIGSGTVS 74
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 17/70 (24%)
Query: 41 FECNICLDSAQDPV-------VTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKAN 93
C IC+D + V T CGH++C C+ D+ + CP C+
Sbjct: 73 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLR----------DSLKNANTCPTCRKK 122
Query: 94 ISVASLVPLY 103
I+ P+Y
Sbjct: 123 INHKRYHPIY 132
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 43 CNICLDSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVC 90
C ICL+ +P+ CGH C CI +S+ + +CPVC
Sbjct: 15 CPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGG---KSSCPVC 59
>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human
Retinoblastoma-Binding Protein 6
Length = 74
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 26/52 (50%), Gaps = 9/52 (17%)
Query: 43 CNICLDSAQDPVVT-LCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKAN 93
C IC D D VV CG+ YC CI +T+ L++DE CP C N
Sbjct: 18 CLICKDIMTDAVVIPCCGNSYCDECI------RTALLESDE--HTCPTCHQN 61
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 28.1 bits (61), Expect = 5.5, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 13/56 (23%)
Query: 42 ECNICL---DSAQDPVVTLCGHLYCWPCIYKWLHVQTSSLDADEQQQNCPVCKANI 94
+C ICL + +D C HL+ C+ +WL + CP+C+ +I
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLIT----------NKKCPICRVDI 61
>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 = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 31/80 (38%), Gaps = 14/80 (17%)
Query: 17 DASLKQKWSPTSAPTNVPEKDGSFFECNICLDSAQDPVVT-LCGHLYCWPCIYKWLHVQT 75
D+ + +W P A V + C IC + ++ C H YC CI K+L +T
Sbjct: 2 DSLAESRWPPGLA---VMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKT 58
Query: 76 SSLDADEQQQNCPVCKANIS 95
CP C ++
Sbjct: 59 ----------QCPTCCVTVT 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
0.317 0.131 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,513,107
Number of Sequences: 62578
Number of extensions: 221808
Number of successful extensions: 412
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 371
Number of HSP's gapped (non-prelim): 48
length of query: 260
length of database: 14,973,337
effective HSP length: 97
effective length of query: 163
effective length of database: 8,903,271
effective search space: 1451233173
effective search space used: 1451233173
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: 50 (23.9 bits)