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= psy17011
(321 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 = 252 bits (644), Expect = 2e-67, Method: Compositional matrix adjust.
Identities = 118/145 (81%), Positives = 130/145 (89%)
Query: 10 TKSWELSMYELNRTPQEAITDNTEIAVSPRSLHSELMCPICLDMLKKTMTTKECLHRFCS 69
+K+WELS+YEL RTPQEAITD EI VSPRSLHSELMCPICLDMLK TMTTKECLHRFC+
Sbjct: 20 SKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCA 79
Query: 70 DCIITALRSGNKECPTCRKKLVSKRSLRADPNFDLLISKIYPSRDEYEAHQVRVLEKLNK 129
DCIITALRSGNKECPTCRKKLVSKRSLR DPNFD LISKIYPSRDEYEAHQ RVL ++NK
Sbjct: 80 DCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYPSRDEYEAHQERVLARINK 139
Query: 130 SHSQAALVQSINEGIKLQSQHRLQR 154
++Q AL SI EG+K+Q+ +RLQR
Sbjct: 140 HNNQQALSHSIEEGLKIQAMNRLQR 164
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 198 bits (503), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 92/103 (89%), Positives = 96/103 (93%)
Query: 10 TKSWELSMYELNRTPQEAITDNTEIAVSPRSLHSELMCPICLDMLKKTMTTKECLHRFCS 69
+K+WELS+YEL RTPQEAITD EI VSPRSLHSELMCPICLDMLK TMTTKECLHRFC+
Sbjct: 19 SKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCA 78
Query: 70 DCIITALRSGNKECPTCRKKLVSKRSLRADPNFDLLISKIYPS 112
DCIITALRSGNKECPTCRKKLVSKRSLR DPNFD LISKIYPS
Sbjct: 79 DCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIYPS 121
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 192 bits (488), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 90/100 (90%), Positives = 93/100 (93%)
Query: 11 KSWELSMYELNRTPQEAITDNTEIAVSPRSLHSELMCPICLDMLKKTMTTKECLHRFCSD 70
K+WELS+YEL RTPQEAITD EI VSPRSLHSELMCPICLDMLK TMTTKECLHRFC+D
Sbjct: 1 KTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCAD 60
Query: 71 CIITALRSGNKECPTCRKKLVSKRSLRADPNFDLLISKIY 110
CIITALRSGNKECPTCRKKLVSKRSLR DPNFD LISKIY
Sbjct: 61 CIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKIY 100
>pdb|3GS2|A Chain A, Ring1b C-Terminal DomainCBX7 CBOX COMPLEX
pdb|3GS2|C Chain C, Ring1b C-Terminal DomainCBX7 CBOX COMPLEX
pdb|3IXS|A Chain A, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|C Chain C, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|E Chain E, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|G Chain G, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|I Chain I, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
pdb|3IXS|K Chain K, Ring1b C-Terminal DomainRYBP C-Terminal Domain Complex
Length = 111
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 47/83 (56%), Gaps = 12/83 (14%)
Query: 247 VESATDGEVDHLTKYLTMRLRLEG------------SDICDSNFGIYVSPSSNNFILLPG 294
++++ + VDHL+KYL +RL LE + + IY++ +S F +L G
Sbjct: 26 IKTSGNATVDHLSKYLAVRLALEELRSKGESNQMNLDTASEKQYTIYIATASGQFTVLDG 85
Query: 295 NQSLRQIHDKYWKSEKPLEVYYS 317
+ SL + +KYWK KP+E+YY+
Sbjct: 86 SFSLELVSEKYWKVNKPMELYYA 108
>pdb|3H8H|A Chain A, Structure Of The C-Terminal Domain Of Human Rnf2RING1B
Length = 112
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 47/83 (56%), Gaps = 12/83 (14%)
Query: 247 VESATDGEVDHLTKYLTMRLRLEG------------SDICDSNFGIYVSPSSNNFILLPG 294
++++ + VDHL+KYL +RL LE + + IY++ +S F +L G
Sbjct: 30 IKTSGNATVDHLSKYLAVRLALEELRSKGESNQMNLDTASEKQYTIYIATASGQFTVLNG 89
Query: 295 NQSLRQIHDKYWKSEKPLEVYYS 317
+ SL + +KYWK KP+E+YY+
Sbjct: 90 SFSLELVSEKYWKVNKPMELYYA 112
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 48.5 bits (114), Expect = 4e-06, Method: Composition-based stats.
Identities = 30/91 (32%), Positives = 41/91 (45%), Gaps = 13/91 (14%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSL---R 97
L+ LMC +C T ECLH FC CI+ L + +K CP C ++ R L R
Sbjct: 8 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRPLLNIR 66
Query: 98 ADPNFDLLISKIYPS---------RDEYEAH 119
+D ++ K+ P RD Y AH
Sbjct: 67 SDKTLQDIVYKLVPGLFKNEMKRRRDFYAAH 97
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 44/72 (61%), Gaps = 4/72 (5%)
Query: 40 SLHSELMCPICLDMLKKTMTTKECLHRFCSDCIITAL--RSGNKECPTCRKKLVSKRSLR 97
++ L CPICL+++K+ ++TK C H FC C++ L + G +CP C+ ++KRSL+
Sbjct: 17 AMQKILECPICLELIKEPVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKND-ITKRSLQ 74
Query: 98 ADPNFDLLISKI 109
F L+ ++
Sbjct: 75 ESTRFSQLVEEL 86
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 41/91 (45%), Gaps = 13/91 (14%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSL---R 97
L+ LMC +C T ECLH FC CI+ L + +K CP C ++ R L R
Sbjct: 12 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRPLLNIR 70
Query: 98 ADPNFDLLISKIYPS---------RDEYEAH 119
+D ++ K+ P RD Y AH
Sbjct: 71 SDKTLQDIVYKLVPGLFKNEMKRRRDFYAAH 101
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 46.6 bits (109), Expect = 2e-05, Method: Composition-based stats.
Identities = 26/59 (44%), Positives = 35/59 (59%), Gaps = 4/59 (6%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCI--ITALRSGNKECPTCRKKLVSKRSLR 97
L E++CPICLD+L+K +T +C H FC CI I G +CP C K V K ++R
Sbjct: 17 LQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLC-KTSVRKNAIR 73
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 41/91 (45%), Gaps = 13/91 (14%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSL---R 97
L+ LMC +C T ECLH FC CI+ L + +K CP C ++ R L R
Sbjct: 12 LNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRPLLNIR 70
Query: 98 ADPNFDLLISKIYPS---------RDEYEAH 119
+D ++ K+ P RD Y AH
Sbjct: 71 SDKTLQDIVYKLVPGLFKNEMKRRRDFYAAH 101
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 45.8 bits (107), Expect = 3e-05, Method: Composition-based stats.
Identities = 20/44 (45%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECP 84
L S+ CPICL L++ + T C HRFC CII ++R +CP
Sbjct: 22 LESKYECPICLMALREAVQTP-CGHRFCKACIIKSIRDAGHKCP 64
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 45.4 bits (106), Expect = 4e-05, Method: Composition-based stats.
Identities = 20/44 (45%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECP 84
L S+ CPICL L++ + T C HRFC CII ++R +CP
Sbjct: 3 LGSKYECPICLMALREAVQTP-CGHRFCKACIIKSIRDAGHKCP 45
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 45.4 bits (106), Expect = 4e-05, Method: Composition-based stats.
Identities = 22/48 (45%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCI--ITALRSGNKECPTC 86
L E++CPICLD+L+K +T +C H FC CI I G +CP C
Sbjct: 17 LQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLC 63
>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 = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 7/54 (12%)
Query: 47 CPICLDML------KKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKR 94
CPIC+D + + + EC H FCS C+ +L++ N CPTCRKK+ KR
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHKR 65
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 44.3 bits (103), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 7/54 (12%)
Query: 47 CPICLDMLK------KTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKR 94
CPIC+D + + + EC H FCS C+ +L++ N CPTCRKK+ KR
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHKR 58
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 7/54 (12%)
Query: 47 CPICLDML------KKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKR 94
CPIC+D + + + EC H FCS C+ +L++ N CPTCRKK+ KR
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHKR 62
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 7/54 (12%)
Query: 47 CPICLDML------KKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKR 94
CPIC+D + + + EC H FCS C+ +L++ N CPTCRKK+ KR
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHKR 127
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPT 85
L S+ CPICL L++ + T C HRFC CII ++R +CP
Sbjct: 15 LESKYECPICLMALREAVQTP-CGHRFCKACIIKSIRDAGHKCPV 58
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPT 85
L S+ CPICL L++ + T C HRFC CII ++R +CP
Sbjct: 15 LESKYECPICLMALREAVQTP-CGHRFCKACIIKSIRDAGHKCPV 58
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 42.0 bits (97), Expect = 4e-04, Method: Composition-based stats.
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRS-----GNKECPTCR 87
+ E+ CPICL++LK+ ++ +C H FC CI S G CP CR
Sbjct: 16 IKEEVTCPICLELLKEPVSA-DCNHSFCRACITLNYESNRNTDGKGNCPVCR 66
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 30/50 (60%), Gaps = 7/50 (14%)
Query: 47 CPICLDMLK------KTMTTKECLHRFCSDCIITALRSGNKECPTCRKKL 90
CPIC+D + + + EC H FCS C+ +L++ N CPTCRKK+
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI 66
>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 = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 39 RSLHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSLRA 98
+ L MC C +++ + +TT EC H C DC+ + ++ CP CR L +
Sbjct: 73 KKLEQSFMCVCCQELVYQPVTT-ECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIP 131
Query: 99 DPNFDLLISKIYPS 112
+ L+ +P
Sbjct: 132 NEILQTLLDLFFPG 145
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 44 ELMCPICLDMLKKTMTTKECLHRFCSDCIITA-LRSGNKECPTCRKKLVSKRSLRAD 99
EL+C IC D++ + C + +C +CI TA L S CPTC + VS +L A+
Sbjct: 13 ELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIAN 69
>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human
Retinoblastoma-Binding Protein 6
Length = 74
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 44 ELMCPICLDMLKKTMTTKECLHRFCSDCIITA-LRSGNKECPTCRKKLVSKRSLRA 98
EL+C IC D++ + C + +C +CI TA L S CPTC + VS +L
Sbjct: 15 ELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALSG 70
>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 = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSK 93
L +EL C IC + + +T C H FCS CI ++ ECP CRK + SK
Sbjct: 61 LENELQCIICSEYFIEAVTLN-CAHSFCSYCINEWMKR-KIECPICRKDIKSK 111
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSK 93
L +EL C IC + + +T C H FCS CI ++ ECP CRK + SK
Sbjct: 50 LENELQCIICSEYFIEAVTLN-CAHSFCSYCINEWMKRK-IECPICRKDIKSK 100
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 45 LMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSLRADPNFDL 104
C C +++ + +TT C H C DC+ + R+ CP CR L +++ +
Sbjct: 53 FQCICCQELVFRPITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQT 111
Query: 105 LISKIYPS 112
++++++P
Sbjct: 112 VLNQLFPG 119
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSK 93
L +EL C IC + + +T C H FCS CI ++ ECP CRK + SK
Sbjct: 50 LENELQCIICSEYFIEAVTLN-CAHSFCSYCINEWMKRK-IECPICRKDIKSK 100
>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 = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 6/49 (12%)
Query: 44 ELMCPICLDMLKKTMTTKECLHRFCSDCII-----TALRSGNKECPTCR 87
E+ CPICL++L + ++ +C H FC C+ + L G CP CR
Sbjct: 19 EVTCPICLELLTQPLSL-DCGHSFCQACLTANHKKSMLDKGESSCPVCR 66
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 45 LMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTC 86
++C IC L T ECLH FC CI+ N+ CP C
Sbjct: 16 ILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNR-CPKC 56
>pdb|3KNV|A Chain A, Crystal Structure Of The Ring And First Zinc Finger
Domains Of Traf2
Length = 141
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTC 86
L ++ +C C ++L++ +C HR+CS C+ + L SG + C C
Sbjct: 28 LEAKYLCSACRNVLRRPFQA-QCGHRYCSFCLASILSSGPQNCAAC 72
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 34.3 bits (77), Expect = 0.090, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 43 SELMCPICLD--MLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSLRADP 100
S L CP+C + L +++ C H F CI+ L + CP CRK L + + P
Sbjct: 14 SGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQ-HDSCPVCRKSLTGQNTATNPP 72
>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 = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 11/86 (12%)
Query: 23 TPQEAITDNTEIAVSPRSLHSEL-----MCPICLDMLKKTMTTKECLHRFCSDCIITALR 77
TPQ D+ ++ L+ E+ +C IC + K + + C H C+ C+ +
Sbjct: 310 TPQ----DHIKVTQEQYELYCEMGSTFQLCKICAEN-DKDVKIEPCGHLMCTSCLTSWQE 364
Query: 78 SGNKECPTCRKKLVSKRSLRADPNFD 103
S + CP CR ++ + DP FD
Sbjct: 365 SEGQGCPFCRCEIKGTEPIVVDP-FD 389
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 33.5 bits (75), Expect = 0.15, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 40 SLHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKE--CPTC 86
+L E C +CL+ LK+ + EC H FC CI ++ CP C
Sbjct: 11 NLQVEASCSVCLEYLKEPVII-ECGHNFCKACITRWWEDLERDFPCPVC 58
>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 = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 39 RSLHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTC 86
+++ L C IC + M +C H +CS CI L S +CPTC
Sbjct: 17 KTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFL-SYKTQCPTC 63
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 37/83 (44%), Gaps = 10/83 (12%)
Query: 23 TPQEAITDNTEIAVSPRSLHSEL-----MCPICLDMLKKTMTTKECLHRFCSDCIITALR 77
TPQ D+ ++ L+ E+ +C IC + K + + C H C+ C+ +
Sbjct: 310 TPQ----DHIKVTQEQYELYCEMGSTFQLCKICAEN-DKDVKIEPCGHLMCTSCLTSWQE 364
Query: 78 SGNKECPTCRKKLVSKRSLRADP 100
S + CP CR ++ + DP
Sbjct: 365 SEGQGCPFCRCEIKGTEPIVVDP 387
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 7/75 (9%)
Query: 43 SELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVS------KRSL 96
SE C IC+++L + +T C H C C + + + CP CR+++ S +R+
Sbjct: 14 SECQCGICMEILVEPVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNS 72
Query: 97 RADPNFDLLISKIYP 111
+ +I K YP
Sbjct: 73 LVNVELWTIIQKHYP 87
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 7/56 (12%)
Query: 37 SPRSLHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALR------SGNKECPTC 86
S ++ E+ CPICL++L + ++ +C H C CI + + G CP C
Sbjct: 5 SSGNVQEEVTCPICLELLTEPLSL-DCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59
>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 = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 47 CPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVS-KRSLRADPNF 102
CPICL+ CLH FC CI +R N CP C+ + S ++ +D F
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVESVVHTIESDSEF 63
>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 = 33.5 bits (75), Expect = 0.17, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 62 ECLHRFCSDCIITALRSGNKECPTCRKKLVSKR 94
EC HRFC C+ L S + +C C++ +V +
Sbjct: 32 ECGHRFCESCMAALLSSSSPKCTACQESIVKDK 64
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 46 MCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSLRADPNFD 103
+C IC + K + + C H C+ C+ + S + CP CR ++ + DP FD
Sbjct: 336 LCKICAEN-DKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDP-FD 391
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 46 MCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSLRADPNFD 103
+C IC + K + + C H C+ C+ + S + CP CR ++ + DP FD
Sbjct: 336 LCKICAEN-DKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDP-FD 391
>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 = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 30 DNTEIAVSPRSLHSEL-----MCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECP 84
D+ ++ L+ E+ +C IC + K + + C H C+ C+ S + CP
Sbjct: 319 DHIKVTQEQYELYCEMGSTFQLCKICAEN-DKDVKIEPCGHLMCTSCLTAWQESDGQGCP 377
Query: 85 TCRKKLVSKRSLRADP 100
CR ++ + DP
Sbjct: 378 FCRCEIKGTEPIIVDP 393
>pdb|3VK6|A Chain A, Crystal Structure Of A Phosphotyrosine Binding Domain
Length = 101
Score = 32.7 bits (73), Expect = 0.25, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 63 CLHRFCSDCIITALRSGNKECPTC 86
C H FC DC I + G+K CP C
Sbjct: 20 CKHVFCYDCAILHEKKGDKMCPGC 43
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 32.7 bits (73), Expect = 0.26, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 1/55 (1%)
Query: 46 MCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSLRADP 100
+C IC + K + + C H C+ C+ S + CP CR ++ + DP
Sbjct: 28 LCKICAEN-DKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCEIKGTEPIIVDP 81
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 32.3 bits (72), Expect = 0.33, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 46 MCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSLRADP 100
+C IC + K + + C H C+ C+ + S + CP CR ++ + DP
Sbjct: 29 LCKICAEN-DKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDP 82
>pdb|1JM7|B Chain B, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 117
Score = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 41 LHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTC 86
L L C C ++L++ + C H FCS+C+ + +G CP C
Sbjct: 19 LEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTG---CPVC 61
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 31.2 bits (69), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 38 PRSLHSELMCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNKECPTCR 87
P + C IC +L + T C H FC CI+ L+ CP+CR
Sbjct: 17 PAHFVKSISCQICEHILADPVET-SCKHLFCRICILRCLKVMGSYCPSCR 65
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 31.2 bits (69), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 7/82 (8%)
Query: 27 AITDNTEIAVSPRSLHSEL-----MCPICLDMLKKTMTTKECLHRFCSDCIITALRSGNK 81
++ D+ ++ L+ E+ +C IC + K + + C H C+ C+ + S +
Sbjct: 2 SLQDHIKVTQEQYELYCEMGSTFQLCKICAEN-DKDVKIEPCGHLMCTSCLTSWQESEGQ 60
Query: 82 ECPTCRKKLVSKRSLRADPNFD 103
CP CR ++ + DP FD
Sbjct: 61 GCPFCRCEIKGTEPIVVDP-FD 81
>pdb|3HTK|C Chain C, Crystal Structure Of Mms21 And Smc5 Complex
Length = 267
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 44 ELMCPICLDMLKKTMTTKECLHRFCSDCIITALRS-GNKECPTCR-KKLVSKRSLRADPN 101
EL CPI + + +++C H F D I L+ ++CP ++VS R DP
Sbjct: 181 ELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPI 240
Query: 102 FDL 104
+L
Sbjct: 241 MEL 243
>pdb|1WEO|A Chain A, Solution Structure Of Ring-Finger In The Catalytic Subunit
(Irx3) Of Cellulose Synthase
Length = 93
Score = 28.9 bits (63), Expect = 4.4, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 23/60 (38%), Gaps = 9/60 (15%)
Query: 47 CPICLDMLKKTM------TTKECLHRFCSDCIITALRSGNKECPTCRKKLVSKRSLRADP 100
C IC D + T+ EC C C R G + CP C+ + + LR P
Sbjct: 19 CEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRY---KRLRGSP 75
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
0.313 0.128 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,734,527
Number of Sequences: 62578
Number of extensions: 257987
Number of successful extensions: 470
Number of sequences better than 100.0: 59
Number of HSP's better than 100.0 without gapping: 37
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 413
Number of HSP's gapped (non-prelim): 60
length of query: 321
length of database: 14,973,337
effective HSP length: 99
effective length of query: 222
effective length of database: 8,778,115
effective search space: 1948741530
effective search space used: 1948741530
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)