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= psy2479
(156 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 48 LKNTEFQPSSLKIDLTRADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSS-SC 106
LK+ S ++ L++ + + F CI C+ +++P+TT C H+ C CLDR SC
Sbjct: 32 LKDRPASGSPFQLFLSKVEET-FQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSC 90
Query: 107 PLCKTSLA 114
P C+ L
Sbjct: 91 PACRYDLG 98
>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 = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 70 FDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSS-SCPLCKTSLADVGIL 119
F C+ C+ +++PVTT C H+ C CL R SCP C+ L I+
Sbjct: 79 FMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIM 129
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 68 SDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLAD--VGILATTCIE 125
++ CI+C + VT C HS+C C++ + CP+C+ + ++ CI
Sbjct: 52 NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCIN 111
Query: 126 K 126
K
Sbjct: 112 K 112
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 24/46 (52%)
Query: 68 SDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSL 113
++ CI+C + VT C HS+C C++ + CP+C+ +
Sbjct: 52 NELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDI 97
>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 = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 67 SSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLAD--VGILATTCI 124
++ CI+C + VT C HS+C C++ + CP+C+ + ++ CI
Sbjct: 62 ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCI 121
Query: 125 EK 126
K
Sbjct: 122 NK 123
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 48/103 (46%), Gaps = 11/103 (10%)
Query: 61 DLTRADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYS---SSCPLCKTSLADVG 117
++ A +C +C I +PV+T C H +C C+ + L+ S CPLCK +
Sbjct: 13 NVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS 72
Query: 118 ILATT----CIEKRLKAINKTFELIDQSERSQEFTMAPPIKRG 156
+ +T +E+ LK I F+L E + + A K+G
Sbjct: 73 LQESTRFSQLVEELLKIIC-AFQLDTGLEYANSYNFA---KKG 111
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 39.3 bits (90), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 72 CILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSS---CPLCKTSL 113
C +C + KPVT CGH++C C+ + + S CPLCKTS+
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSV 67
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 58 LKIDLTRADSSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLD-YSSSCPLCK 110
L +D C +C + PV T C H +C +C+ RCL S CP C+
Sbjct: 12 LAVDFPAHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCR 65
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 68 SDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCL-DYSSSCPL 108
S ++C +C + + V TPCGH +C C+ + + D CP+
Sbjct: 24 SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 65
>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 = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 67 SSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCL-DYSSSCPL 108
S ++C +C + + V TPCGH +C C+ + + D CP+
Sbjct: 16 ESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 58
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 35.0 bits (79), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 67 SSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCL-DYSSSCPL 108
S ++C +C + + V TPCGH +C C+ + + D CP+
Sbjct: 4 GSKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 46
>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 = 34.7 bits (78), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 67 SSDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCL-DYSSSCPL 108
S ++C +C + + V TPCGH +C C+ + + D CP+
Sbjct: 16 ESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 58
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 34.3 bits (77), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 8/87 (9%)
Query: 72 CILCRSTIWKPVTT-PCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKA 130
C+LC T C HS+C C+ R L+ S CP+C + L +K L+
Sbjct: 18 CVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQD 77
Query: 131 INKTFELI-----DQSERSQEFTMAPP 152
I ++L+ ++ +R ++F A P
Sbjct: 78 I--VYKLVPGLFKNEMKRRRDFYAAHP 102
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 34.3 bits (77), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 8/87 (9%)
Query: 72 CILCRSTIWKPVTT-PCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKA 130
C+LC T C HS+C C+ R L+ S CP+C + L +K L+
Sbjct: 18 CVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQD 77
Query: 131 INKTFELI-----DQSERSQEFTMAPP 152
I ++L+ ++ +R ++F A P
Sbjct: 78 I--VYKLVPGLFKNEMKRRRDFYAAHP 102
>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 = 34.3 bits (77), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 21/31 (67%)
Query: 86 PCGHSYCWMCLDRCLDYSSSCPLCKTSLADV 116
PC H++C++C+ R + + +CPLCK + V
Sbjct: 23 PCLHAFCYVCITRWIRQNPTCPLCKVPVESV 53
>pdb|3KNV|A Chain A, Crystal Structure Of The Ring And First Zinc Finger
Domains Of Traf2
Length = 141
Score = 33.9 bits (76), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 20/44 (45%)
Query: 53 FQPSSLKIDLTRADSSDFDCILCRSTIWKPVTTPCGHSYCWMCL 96
QP K L + + C CR+ + +P CGH YC CL
Sbjct: 15 LQPGFSKTLLGTKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCL 58
>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 = 33.9 bits (76), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 6/50 (12%)
Query: 69 DFDCILCRSTIWKPVTTPCGHSYCWMCL-----DRCLDYS-SSCPLCKTS 112
+ C +C + +P++ CGHS+C CL LD SSCP+C+ S
Sbjct: 19 EVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRIS 68
>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 = 33.1 bits (74), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 27/46 (58%)
Query: 87 CGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKAIN 132
C H+YC +C+ + L Y + CP C ++ + + +++ +K++N
Sbjct: 41 CSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELVKSLN 86
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 33.1 bits (74), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 72 CILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSS---CPLC 109
C +C + KPVT CGH++C C+ + + S CPLC
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 32.3 bits (72), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 69 DFDCILCRSTIWKPVTTPCGHSYCWMCL------DRCLDYSSSCPLCKT 111
+ C +C + +PV+ C HS+C C+ +R D +CP+C+
Sbjct: 19 EVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRV 67
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 32.3 bits (72), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 68 SDFDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSS-SCPLCKTSLA 114
S+ C +C + +PVT PC H+ C C ++ +S CP C+ ++
Sbjct: 14 SECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS 61
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 32.0 bits (71), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 86 PCGHSYCWMCLDRCLDYSSSCPLCKTSL 113
PC HS+C C+D+ D +CP+C+ +
Sbjct: 31 PCAHSFCQKCIDKWSDRHRNCPICRLQM 58
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 32.0 bits (71), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 23/45 (51%)
Query: 71 DCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLAD 115
+C +C T PV+ PC H +C++C+ C LC+ + +
Sbjct: 17 ECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE 61
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 31.6 bits (70), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 39/85 (45%), Gaps = 8/85 (9%)
Query: 72 CILCRSTIWKPVTT-PCGHSYCWMCLDRCLDYSSSCPLCKTSLADVGILATTCIEKRLKA 130
C+LC T C HS+C C+ R L+ S CP+C + L +K L+
Sbjct: 14 CVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQD 73
Query: 131 INKTFELI-----DQSERSQEFTMA 150
I ++L+ ++ +R ++F A
Sbjct: 74 I--VYKLVPGLFKNEMKRRRDFYAA 96
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.8 bits (68), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 83 VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSL 113
V+T CGH +C CL L +++CP C+ +
Sbjct: 36 VSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 30.8 bits (68), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 18/47 (38%)
Query: 70 FDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADV 116
F C +CR PV T C H +C C + C +C +
Sbjct: 16 FRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTGGI 62
>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 = 30.4 bits (67), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 83 VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSL 113
V+T CGH +C CL L +++CP C+ +
Sbjct: 31 VSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.4 bits (67), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 83 VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSL 113
V+T CGH +C CL L +++CP C+ +
Sbjct: 24 VSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 30.0 bits (66), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 83 VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSL 113
V+T CGH +C CL L +++CP C+ +
Sbjct: 28 VSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
Score = 30.0 bits (66), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 83 VTTPCGHSYCWMCLDRCLDYSSSCPLCKTSL 113
V+T CGH +C CL L +++CP C+ +
Sbjct: 93 VSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 30.0 bits (66), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 69 DFDCILCRSTIWKPVTTPCGHSYCWMCLD-------RCLDYSSSCPLCKTS 112
+ C +C + +P++ CGHS C C+ + SSCP+C S
Sbjct: 12 EVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGIS 62
>pdb|2EA5|A Chain A, Solution Structure Of The Ring Domain Of The Human Cell
Growth Regulator With Ring Finger Domain 1 Protein
Length = 68
Score = 29.6 bits (65), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 56 SSLKIDLTRADSSDFDCILCRSTIWKPVTTPCGHSYCWMCL-DRCLDYSSSCPLCK 110
SS + ++ + DC++C++ V PC H+ CL D C+ Y CP+C+
Sbjct: 2 SSGSSGVEPSEENSKDCVVCQNGTVNWVLLPCRHT----CLCDGCVKYFQQCPMCR 53
>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 = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 70 FDCILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSS-SCPLCKTSL 113
+ C C + P T CGH +C C+ L SS C C+ S+
Sbjct: 16 YKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESI 60
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 87 CGHSYCWMCLDRCLDYSSSCPLCKTSL 113
CGH + C+D L S+CPLC+ ++
Sbjct: 27 CGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 72 CILCRSTIWKPVTTPCGHSYCWMCLDRC---LDYSSSCPLC 109
C +C + +PV CGH++C C+ R L+ CP+C
Sbjct: 18 CSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>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 = 26.9 bits (58), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 72 CILCRSTIWKPVTTPC-GHSYCWMCLDRCLDYSS--SCPLCKTS 112
C++C+ + V PC G+SYC C+ L S +CP C +
Sbjct: 16 CLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 59
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 26.9 bits (58), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 86 PCGHSYCWMCLDRCLDYSSSCPLCKTSLADVG 117
PC H + C+D+ L + +CP+C+ AD G
Sbjct: 43 PCNHEFHAKCVDKWLKANRTCPICR---ADSG 71
>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHN|B Chain B, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|C Chain C, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|E Chain E, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|G Chain G, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
Length = 79
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 3/45 (6%)
Query: 72 CILCRSTIWKPVTTPCGHSYCWMCLDRCLDYSSSCPLCKTSLADV 116
C++C PCGH+ +C + C SCP+C++ + V
Sbjct: 21 CMVCCEEEINSTFCPCGHT---VCCESCAAQLQSCPVCRSRVEHV 62
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 72 CILCRSTIWKPVT-TPCGHSYCWMCLDRCLDYSSSCPLCK 110
C +C+ + T T C H++C C+ R YS+ CP C
Sbjct: 18 CSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCN 57
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
0.321 0.134 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,012,899
Number of Sequences: 62578
Number of extensions: 136137
Number of successful extensions: 413
Number of sequences better than 100.0: 61
Number of HSP's better than 100.0 without gapping: 43
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 365
Number of HSP's gapped (non-prelim): 63
length of query: 156
length of database: 14,973,337
effective HSP length: 91
effective length of query: 65
effective length of database: 9,278,739
effective search space: 603118035
effective search space used: 603118035
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: 47 (22.7 bits)