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= 027648
(220 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 34/62 (54%), Gaps = 7/62 (11%)
Query: 162 TFSCPICMGPLSEAT-------STKCGHIFCKDCIKGAIAAQGKCPNCRQKVGKRGIFRV 214
T SCPICM SE ST+CGH+FC C++ ++ CP CR+K+ + +
Sbjct: 10 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPI 69
Query: 215 YL 216
Y+
Sbjct: 70 YI 71
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 35/65 (53%), Gaps = 7/65 (10%)
Query: 159 AAPTFSCPICMGPLSEAT-------STKCGHIFCKDCIKGAIAAQGKCPNCRQKVGKRGI 211
+ T SCPICM SE ST+CGH+FC C++ ++ CP CR+K+ +
Sbjct: 4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 63
Query: 212 FRVYL 216
+Y+
Sbjct: 64 HPIYI 68
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 35/65 (53%), Gaps = 7/65 (10%)
Query: 159 AAPTFSCPICMGPLSEAT-------STKCGHIFCKDCIKGAIAAQGKCPNCRQKVGKRGI 211
+ T SCPICM SE ST+CGH+FC C++ ++ CP CR+K+ +
Sbjct: 69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 128
Query: 212 FRVYL 216
+Y+
Sbjct: 129 HPIYI 133
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 7/60 (11%)
Query: 164 SCPICMGPLSEAT-------STKCGHIFCKDCIKGAIAAQGKCPNCRQKVGKRGIFRVYL 216
SCPICM SE ST+CGH+FC C++ ++ CP CR+K+ + +Y+
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIYI 64
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 7/55 (12%)
Query: 162 TFSCPICMGPLSEAT-------STKCGHIFCKDCIKGAIAAQGKCPNCRQKVGKR 209
T SCPICM SE ST+CGH+FC C++ ++ CP CR+K+ +
Sbjct: 15 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 69
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 158 AAAPTFSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQ---GKCPNCRQKVGKRGI 211
A CPIC+ + E STKC HIFCK C+ + + +CP C+ + KR +
Sbjct: 17 AMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL 73
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 35/65 (53%), Gaps = 3/65 (4%)
Query: 150 LQLPQDPMAAAPTFSCPICMGPLSEATSTK-CGHIFCKDCIKGAIAAQGK-CPNCRQK-V 206
L++ P + CPIC+ L +TK C H FC DCI A+ + K CP CR+K V
Sbjct: 42 LEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLV 101
Query: 207 GKRGI 211
KR +
Sbjct: 102 SKRSL 106
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 35/65 (53%), Gaps = 3/65 (4%)
Query: 150 LQLPQDPMAAAPTFSCPICMGPLSEATSTK-CGHIFCKDCIKGAIAAQGK-CPNCRQK-V 206
L++ P + CPIC+ L +TK C H FC DCI A+ + K CP CR+K V
Sbjct: 22 LEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLV 81
Query: 207 GKRGI 211
KR +
Sbjct: 82 SKRSL 86
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 35/65 (53%), Gaps = 3/65 (4%)
Query: 150 LQLPQDPMAAAPTFSCPICMGPLSEATSTK-CGHIFCKDCIKGAIAAQGK-CPNCRQK-V 206
L++ P + CPIC+ L +TK C H FC DCI A+ + K CP CR+K V
Sbjct: 41 LEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLV 100
Query: 207 GKRGI 211
KR +
Sbjct: 101 SKRSL 105
>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 = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/39 (53%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQG-KCP 200
+ CPIC+ L EA T CGH FCK CI +I G KCP
Sbjct: 19 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCP 57
>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 = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/39 (53%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQG-KCP 200
+ CPIC+ L EA T CGH FCK CI +I G KCP
Sbjct: 19 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCP 57
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/39 (53%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQG-KCP 200
+ CPIC+ L EA T CGH FCK CI +I G KCP
Sbjct: 26 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCP 64
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/39 (53%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQG-KCP 200
+ CPIC+ L EA T CGH FCK CI +I G KCP
Sbjct: 7 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCP 45
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 150 LQLPQDPMAAAPTFSCPICMGPLSEATSTKCGHIFCKDCIKGAI-AAQGKCPNCRQKVG 207
+ LP+D + + C ICM L E + C H CK C + + A CP CR++V
Sbjct: 3 MALPKDAIPSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS 61
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 161 PTFSCPICMGPLSEATS-TKCGHIFCKDCIKGAIAAQGKCPNC 202
P C IC G L +AT+ T+C H FCK CI +CP C
Sbjct: 14 PYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKC 56
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 39.7 bits (91), Expect = 0.001, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 10/68 (14%)
Query: 139 TSNNNKNDAAPLQLPQDPMAAAPTFSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGK 198
+S ++ N A L +P+ C IC+ S C H+FC C+KGA +
Sbjct: 2 SSGSSGNTAPSLTVPE----------CAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKR 51
Query: 199 CPNCRQKV 206
C CRQ++
Sbjct: 52 CALCRQEI 59
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 162 TFSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQ-GKCPNCRQKVGKRGI 211
+F C C + + +T+C H CKDC++ + AQ CP CR +G+ I
Sbjct: 78 SFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYI 128
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 156 PMAAAPTFSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGK-CPNCR 203
P + SC IC L++ T C H+FC+ CI + G CP+CR
Sbjct: 17 PAHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCR 65
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGKCPNCRQKVGKR 209
C IC EA + C H FC CI + + +CP CR+ + +
Sbjct: 54 LQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 100
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGKCPNCRQKVGKR 209
C IC EA + C H FC CI + + +CP CR+ + +
Sbjct: 54 LQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 100
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGKCPNCRQKVGKR 209
C IC EA + C H FC CI + + +CP CR+ + +
Sbjct: 65 LQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 111
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 37/94 (39%), Gaps = 11/94 (11%)
Query: 135 INVDTSNNNKNDAAPLQLPQDPMAAAP----------TFSCPICMGPLSEATSTKCGHIF 184
I D SN + L P + +P TF C C + +T C H
Sbjct: 15 IREDKSNAKLWNEVLASLKDRPASGSPFQLFLSKVEETFQCICCQELVFRPITTVCQHNV 74
Query: 185 CKDCIKGAIAAQ-GKCPNCRQKVGKRGIFRVYLP 217
CKDC+ + AQ CP CR +G+ +V P
Sbjct: 75 CKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQP 108
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 37.0 bits (84), Expect = 0.009, Method: Composition-based stats.
Identities = 19/50 (38%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 165 CPICMGPLSEATSTKCGHIFCKDCIKGAIAAQG---KCPNCRQKVGKRGI 211
CPIC+ L + + CGH FC CI KCP C+ V K I
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI 72
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 164 SCPICMGPLSEATSTKCGHIFCKDCIKGAIAA------QGKCPNCR 203
+CPIC+ L E S C H FC+ CI + +G CP CR
Sbjct: 21 TCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCR 66
>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 = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 6/47 (12%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCI----KGAIAAQGK--CPNCR 203
+CPIC+ L++ S CGH FC+ C+ K ++ +G+ CP CR
Sbjct: 20 VTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCR 66
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 161 PTFSCPICMGPLSEATST-KCGHIFCKDCIKGAIAAQGKCPNCRQKVGK 208
P C +C G +AT+ +C H FCK CI + CP C +V K
Sbjct: 14 PHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK 62
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 161 PTFSCPICMGPLSEATST-KCGHIFCKDCIKGAIAAQGKCPNCRQKVGK 208
P C +C G +AT+ +C H FCK CI + CP C +V K
Sbjct: 14 PHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK 62
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 161 PTFSCPICMGPLSEATST-KCGHIFCKDCIKGAIAAQGKCPNCRQKVGK 208
P C +C G +AT+ +C H FCK CI + CP C +V K
Sbjct: 10 PHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK 58
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 35.4 bits (80), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 25/47 (53%), Gaps = 7/47 (14%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCI----KGAIAAQG---KCPNC 202
+CPIC+ L+E S CGH C+ CI K A+ + G CP C
Sbjct: 13 VTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59
>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 = 35.0 bits (79), Expect = 0.030, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQG-KCPNCRQKVGKRGIF 212
+ C C L T+CGH FC+ C+ +++ KC C++ + K +F
Sbjct: 16 YKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESIVKDKVF 66
>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 = 0.11, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 164 SCPICMGPLSEATSTKCGHIFCKDCI 189
SC +C+ L E +CGH FCK CI
Sbjct: 17 SCSVCLEYLKEPVIIECGHNFCKACI 42
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 32.7 bits (73), Expect = 0.17, Method: Composition-based stats.
Identities = 16/41 (39%), Positives = 19/41 (46%), Gaps = 3/41 (7%)
Query: 165 CPICMGPLSEATSTKCGHIFCKDCIKGAIAAQG---KCPNC 202
CPIC+ L + + CGH FC CI KCP C
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 21/50 (42%), Gaps = 2/50 (4%)
Query: 163 FSCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGKCPNCRQKVGKRGIF 212
F C IC TKC H FC+ C A +C C Q G GIF
Sbjct: 16 FRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTG--GIF 63
>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 = 32.0 bits (71), Expect = 0.27, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 165 CPICM-GPLSEATSTKCGHIFCKDCIKGAIAAQGKCPNCRQKV 206
CPIC+ P + + + C H FC CI I CP C+ V
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 32.0 bits (71), Expect = 0.28, Method: Composition-based stats.
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 165 CPICMGPLSEATSTK----CGHIFCKDCIKGAIAAQGKCPNCRQKV 206
C +C+ L + + CGH F +C+ + + CP CR V
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 28/138 (20%), Positives = 50/138 (36%), Gaps = 7/138 (5%)
Query: 80 NNSRRNHSQVVDQLRHVLTDAGGLLDSLQEVTDLAILYVKQRRNRPDEATPDNCCINVDT 139
N + ++ Q + A L+D++ + A K D N ++ +
Sbjct: 213 NVINKQEHDIIKQKTQIPLQARELIDTILVKGNAAANIFKNSLKEIDSTLYKNLFVDKNM 272
Query: 140 SNNNKNDAAPLQLPQDPMAAAPTFSCPICMGPLSEATSTKCGH-IFCKDCIKGAIAAQGK 198
D + L L + +C +CM CGH + C++C + K
Sbjct: 273 KYIPTEDVSGLSLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQEC----APSLRK 328
Query: 199 CPNCRQKVGKRGIFRVYL 216
CP CR + +G R +L
Sbjct: 329 CPICRGII--KGTVRTFL 344
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 30.8 bits (68), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 7/54 (12%)
Query: 158 AAAPTFSCPICMGPLSEA----TSTKCGHIFCKDCIKGAIAAQ---GKCPNCRQ 204
A CPICM +E CGH C+ C++ +A+ +CP C +
Sbjct: 11 ALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64
>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 = 30.4 bits (67), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 4/68 (5%)
Query: 140 SNNNKNDAAP-LQLPQDPMAAAPTFSCPICMGPLSE---ATSTKCGHIFCKDCIKGAIAA 195
++ DA P + + +D A CPIC + AT C H F K C+ +
Sbjct: 17 ASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK 76
Query: 196 QGKCPNCR 203
G CP CR
Sbjct: 77 SGTCPVCR 84
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 30.4 bits (67), Expect = 0.83, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 165 CPICMGPLSEATSTK---CGHIFCKDCIKGAIAAQGKCPNCR 203
C IC+ L E + C H+F + C+ + KCP CR
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICR 58
>pdb|3H8A|A Chain A, Crystal Structure Of E. Coli Enolase Bound To Its Cognate
Rnase E Recognition Domain
pdb|3H8A|B Chain B, Crystal Structure Of E. Coli Enolase Bound To Its Cognate
Rnase E Recognition Domain
pdb|3H8A|C Chain C, Crystal Structure Of E. Coli Enolase Bound To Its Cognate
Rnase E Recognition Domain
pdb|3H8A|D Chain D, Crystal Structure Of E. Coli Enolase Bound To Its Cognate
Rnase E Recognition Domain
Length = 432
Score = 30.0 bits (66), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 21 RILPELDLNYPPTDGNIATNSQEYPFDGHSDSRGDIGDCVEVIDDDLAIINQRIFAEA 78
L EL YP +I E +DG + +GD ++++ DDL + N +I E
Sbjct: 275 HFLEELTKQYPIV--SIEDGLDESDWDGFAYQTKVLGDKIQLVGDDLFVTNTKILKEG 330
>pdb|1E9I|A Chain A, Enolase From E.Coli
pdb|1E9I|B Chain B, Enolase From E.Coli
pdb|1E9I|C Chain C, Enolase From E.Coli
pdb|1E9I|D Chain D, Enolase From E.Coli
pdb|2FYM|A Chain A, Crystal Structure Of E. Coli Enolase Complexed With The
Minimal Binding Segment Of Rnase E.
pdb|2FYM|C Chain C, Crystal Structure Of E. Coli Enolase Complexed With The
Minimal Binding Segment Of Rnase E.
pdb|2FYM|D Chain D, Crystal Structure Of E. Coli Enolase Complexed With The
Minimal Binding Segment Of Rnase E.
pdb|2FYM|F Chain F, Crystal Structure Of E. Coli Enolase Complexed With The
Minimal Binding Segment Of Rnase E
Length = 431
Score = 30.0 bits (66), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 21 RILPELDLNYPPTDGNIATNSQEYPFDGHSDSRGDIGDCVEVIDDDLAIINQRIFAEA 78
L EL YP +I E +DG + +GD ++++ DDL + N +I E
Sbjct: 274 HFLEELTKQYPIV--SIEDGLDESDWDGFAYQTKVLGDKIQLVGDDLFVTNTKILKEG 329
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 165 CPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGK-CPNCR 203
C IC + CGH+ C C+ ++G+ CP CR
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 374
>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 = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 165 CPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGK-CPNCR 203
C IC + CGH+ C C+ ++G+ CP CR
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 374
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 165 CPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGK-CPNCR 203
C IC + CGH+ C C+ ++G+ CP CR
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 376
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 1/40 (2%)
Query: 165 CPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGK-CPNCR 203
C IC + CGH+ C C+ ++G+ CP CR
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 376
>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 = 29.3 bits (64), Expect = 1.6, Method: Composition-based stats.
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 164 SCPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGKCPNCRQKVGKR 209
+C +C+ CGH+ C +C G CP CR V R
Sbjct: 15 TCKVCLDRAVSIVFVPCGHLVCAECAPGLQL----CPICRAPVRSR 56
>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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 165 CPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGK-CPNCR 203
C IC + CGH+ C C+ + G+ CP CR
Sbjct: 341 CKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCR 380
>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 = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 165 CPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGK-CPNCRQKVGKRGIFRVYLPT 218
C +C +T CGH C + + AAQ + CP CR +V + VYLPT
Sbjct: 21 CMVCCEEEINSTFCPCGHTVCCE----SCAAQLQSCPVCRSRV--EHVQHVYLPT 69
>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 = 3.7, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 165 CPICMGPLSEATST-KCGHIFCKDCIKGAIAAQGKCPNC 202
C IC + A +C H +C CI+ ++ + +CP C
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 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 = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 5/59 (8%)
Query: 149 PLQLPQDPMAAAPTFSCPICMGPLSEATSTKC-GHIFCKDCIKGAI--AAQGKCPNCRQ 204
PL DP+ C IC +++A C G+ +C +CI+ A+ + + CP C Q
Sbjct: 2 PLGSEDDPIPDE--LLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 58
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 26.9 bits (58), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 165 CPICMGPLSEATSTKCGHIFCKDCIKGAIAAQGK-CPNCRQKV 206
C IC + CGH+ C C+ ++G+ CP CR ++
Sbjct: 27 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 69
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
0.319 0.135 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,704,288
Number of Sequences: 62578
Number of extensions: 263279
Number of successful extensions: 691
Number of sequences better than 100.0: 67
Number of HSP's better than 100.0 without gapping: 37
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 644
Number of HSP's gapped (non-prelim): 69
length of query: 220
length of database: 14,973,337
effective HSP length: 95
effective length of query: 125
effective length of database: 9,028,427
effective search space: 1128553375
effective search space used: 1128553375
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)