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= 003547
(811 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 62.4 bits (150), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 41/72 (56%), Gaps = 6/72 (8%)
Query: 8 LEKMGRELKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSG------SNCPVCKVPYHRR 61
LE + E+ CPICL LL VS CNH FC ACI + +S NCPVC+VPY
Sbjct: 13 LEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG 72
Query: 62 EIRAAPHMDNLV 73
++ H+ N+V
Sbjct: 73 NLKPNLHVANIV 84
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 59.7 bits (143), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 38/68 (55%), Gaps = 7/68 (10%)
Query: 13 RELKCPICLSLLSSAVSLTCNHVFCNACI-------VKSMKSGSNCPVCKVPYHRREIRA 65
E+ CPICL LL+ +SL C H C ACI V SM S+CPVC + Y ++A
Sbjct: 11 EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQA 70
Query: 66 APHMDNLV 73
H+ N+V
Sbjct: 71 NQHLANIV 78
>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 = 59.3 bits (142), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 42/72 (58%), Gaps = 6/72 (8%)
Query: 8 LEKMGRELKCPICLSLLSSAVSLTCNHVFCNACIV----KSM--KSGSNCPVCKVPYHRR 61
L + E+ CPICL LL+ +SL C H FC AC+ KSM K S+CPVC++ Y
Sbjct: 13 LVNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPE 72
Query: 62 EIRAAPHMDNLV 73
IR H+ N+V
Sbjct: 73 NIRPNRHVANIV 84
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 53.9 bits (128), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 38/66 (57%), Gaps = 3/66 (4%)
Query: 11 MGRELKCPICLSLLSSAVSLTCNHVFCNACIVKSM---KSGSNCPVCKVPYHRREIRAAP 67
M + L+CPICL L+ VS C+H+FC C++K + K S CP+CK +R ++ +
Sbjct: 18 MQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQEST 77
Query: 68 HMDNLV 73
LV
Sbjct: 78 RFSQLV 83
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 42/69 (60%), Gaps = 4/69 (5%)
Query: 14 ELKCPICLSLLSSAVSLT-CNHVFCNACIVKSMKSGSN-CPVC-KVPYHRREIRAAPHMD 70
EL CPICL +L + ++ C H FC CI+ +++SG+ CP C K +R +R P+ D
Sbjct: 54 ELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFD 113
Query: 71 NLVS-VYKS 78
L+S +Y S
Sbjct: 114 ALISKIYPS 122
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 42/69 (60%), Gaps = 4/69 (5%)
Query: 14 ELKCPICLSLLSSAVSLT-CNHVFCNACIVKSMKSGSN-CPVC-KVPYHRREIRAAPHMD 70
EL CPICL +L + ++ C H FC CI+ +++SG+ CP C K +R +R P+ D
Sbjct: 53 ELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFD 112
Query: 71 NLVS-VYKS 78
L+S +Y S
Sbjct: 113 ALISKIYPS 121
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 50.8 bits (120), Expect = 3e-06, Method: Composition-based stats.
Identities = 22/44 (50%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 11 MGRELKCPICLSLLSSAVSLTCNHVFCNACIVKSMK-SGSNCPV 53
+G + +CPICL L AV C H FC ACI+KS++ +G CPV
Sbjct: 3 LGSKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 46
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 49.3 bits (116), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 39/64 (60%), Gaps = 3/64 (4%)
Query: 14 ELKCPICLSLLSSAVSLT-CNHVFCNACIVKSMKSGSN-CPVC-KVPYHRREIRAAPHMD 70
EL CPICL +L + ++ C H FC CI+ +++SG+ CP C K +R +R P+ D
Sbjct: 34 ELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFD 93
Query: 71 NLVS 74
L+S
Sbjct: 94 ALIS 97
>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 = 48.5 bits (114), Expect = 1e-05, Method: Composition-based stats.
Identities = 21/39 (53%), Positives = 26/39 (66%), Gaps = 1/39 (2%)
Query: 16 KCPICLSLLSSAVSLTCNHVFCNACIVKSMK-SGSNCPV 53
+CPICL L AV C H FC ACI+KS++ +G CPV
Sbjct: 20 ECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 58
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 48.1 bits (113), Expect = 2e-05, Method: Composition-based stats.
Identities = 21/39 (53%), Positives = 26/39 (66%), Gaps = 1/39 (2%)
Query: 16 KCPICLSLLSSAVSLTCNHVFCNACIVKSMK-SGSNCPV 53
+CPICL L AV C H FC ACI+KS++ +G CPV
Sbjct: 27 ECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 65
>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 = 47.8 bits (112), Expect = 3e-05, Method: Composition-based stats.
Identities = 21/39 (53%), Positives = 26/39 (66%), Gaps = 1/39 (2%)
Query: 16 KCPICLSLLSSAVSLTCNHVFCNACIVKSMK-SGSNCPV 53
+CPICL L AV C H FC ACI+KS++ +G CPV
Sbjct: 20 ECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 58
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 47.0 bits (110), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 9/73 (12%)
Query: 6 SHL-EKMGRELKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGSNCPVCKVPYHRREIR 64
SH+ + + EL+C IC AV+L C H FC+ CI + MK CP+C R++I+
Sbjct: 44 SHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPIC-----RKDIK 98
Query: 65 AAPH---MDNLVS 74
+ + +DN ++
Sbjct: 99 SKTYSLVLDNXIN 111
>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|G Chain G, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|H Chain H, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|K Chain K, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|L Chain L, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
Length = 149
Score = 46.6 bits (109), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 9/73 (12%)
Query: 6 SHL-EKMGRELKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGSNCPVCKVPYHRREIR 64
SH+ + + EL+C IC AV+L C H FC+ CI + MK CP+C R++I+
Sbjct: 55 SHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPIC-----RKDIK 109
Query: 65 AAPH---MDNLVS 74
+ + +DN ++
Sbjct: 110 SKTYSLVLDNCIN 122
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 46.2 bits (108), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 9/73 (12%)
Query: 6 SHL-EKMGRELKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGSNCPVCKVPYHRREIR 64
SH+ + + EL+C IC AV+L C H FC+ CI + MK CP+C R++I+
Sbjct: 44 SHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPIC-----RKDIK 98
Query: 65 AAPH---MDNLVS 74
+ + +DN ++
Sbjct: 99 SKTYSLVLDNCIN 111
>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 = 46.2 bits (108), Expect = 7e-05, Method: Composition-based stats.
Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 16 KCPICLSLLSS-AVSLTCNHVFCNACIVKSMKSGSNCPVCKVP 57
+CPICL S+ +++L C H FC CI + ++ CP+CKVP
Sbjct: 7 RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVP 49
>pdb|1JM7|B Chain B, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 117
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 42/72 (58%), Gaps = 3/72 (4%)
Query: 5 RSHLEKMGRELKCPICLSLLSSAVSLT-CNHVFCNACIVKSMKSGSNCPVCKVPYHRREI 63
R+ L+++ + L+C C ++L V L C H+FC+ C+ + G+ CPVC P +++
Sbjct: 13 RAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWIQDL 70
Query: 64 RAAPHMDNLVSV 75
+ +D+++ +
Sbjct: 71 KINRQLDSMIQL 82
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 43.9 bits (102), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 31/50 (62%), Gaps = 3/50 (6%)
Query: 9 EKMGRELKCPIC---LSLLSSAVSLTCNHVFCNACIVKSMKSGSNCPVCK 55
E +G L+CP+C +L S L CNH+F ++CIV ++ +CPVC+
Sbjct: 10 EHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCR 59
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 7 HLEKMGRELKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGSN---CPVCKVPYHRREI 63
+ K+ E+ CPICL +L V++ C H FC CI + ++ CP+CK + I
Sbjct: 13 FVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI 72
Query: 64 R 64
R
Sbjct: 73 R 73
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 5 RSHLEKMGRELKCPICLSLLSSAVSLT-CNHVFCNACIVKSMKSGSNCPVCKVPYHR 60
R + ++ L C +C A ++ C H FC CIV+ +++ CP+C V H+
Sbjct: 2 RIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK 58
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 5 RSHLEKMGRELKCPICLSLLSSAVSLT-CNHVFCNACIVKSMKSGSNCPVCKVPYHR 60
R + ++ L C +C A ++ C H FC CIV+ +++ CP+C V H+
Sbjct: 6 RIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK 62
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 3/50 (6%)
Query: 8 LEKMGRELKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGS---NCPVC 54
+ K+ E+ CPICL +L V++ C H FC CI + ++ CP+C
Sbjct: 14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 5 RSHLEKMGRELKCPICLSLLSSAVSLT-CNHVFCNACIVKSMKSGSNCPVCKVPYHR 60
R + ++ L C +C A ++ C H FC CIV+ +++ CP+C V H+
Sbjct: 6 RIKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK 62
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 13 RELKCPICLSLLSSAVSLTCNHVFCNACIVKSMK-SGSNCPVCKVP 57
+ + C IC +L+ V +C H+FC CI++ +K GS CP C+ P
Sbjct: 22 KSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYP 67
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 38.5 bits (88), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 8 LEKMGRELKCPICLSLLSSAVSLT-CNHVFCNACIVKSMKSGSNCPVCKVPYHRREIRAA 66
L ++ + C IC L A ++T C H FC +CIV+ + CP C + H+ + +
Sbjct: 9 LSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLSG 68
Query: 67 P 67
P
Sbjct: 69 P 69
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 38.1 bits (87), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 7/51 (13%)
Query: 12 GRELKCPICLSLLSSAV-------SLTCNHVFCNACIVKSMKSGSNCPVCK 55
G + CPIC+ S V S C HVFC+ C+ S+K+ + CP C+
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 37.7 bits (86), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 14 ELKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGSNCPVCKVPYHRREI 63
E +C IC+ +L V+L CNH C C +++ S C P+ RR +
Sbjct: 15 ECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLC----CPFCRRRV 60
>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 = 37.7 bits (86), Expect = 0.027, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 15 LKCPICLSLLSSAVSL-TCNHVFCNACIVKSMKSGSNCPVCKVPYHRREIRAAPHMDNLV 73
L+C IC + A+ + C+H +C+ CI K + + CP C V +++ +D LV
Sbjct: 23 LRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELV 82
>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 = 37.4 bits (85), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 7/48 (14%)
Query: 15 LKCPICLSLLSSAV-------SLTCNHVFCNACIVKSMKSGSNCPVCK 55
+ CPIC+ S V S C HVFC+ C+ S+K+ + CP C+
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58
>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 = 37.4 bits (85), Expect = 0.036, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 11 MGRELKCPICLSLLSS---AVSLTCNHVFCNACIVKSMKSGSNCPVCK 55
+G+E+ CPIC S A L C+H F C+ ++ CPVC+
Sbjct: 37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 37.0 bits (84), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 8/63 (12%)
Query: 1 MGDQRSHLEKMGR-ELKCPICLSLLSSAV-------SLTCNHVFCNACIVKSMKSGSNCP 52
+ +R H +G + CPIC+ S V S C HVFC+ C+ S+K+ + CP
Sbjct: 58 INHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCP 117
Query: 53 VCK 55
C+
Sbjct: 118 TCR 120
Score = 36.6 bits (83), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 7/48 (14%)
Query: 15 LKCPICLSLLSSAV-------SLTCNHVFCNACIVKSMKSGSNCPVCK 55
+ CPIC+ S V S C HVFC+ C+ S+K+ + CP C+
Sbjct: 8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 37.0 bits (84), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 8 LEKMGRELKCPICLSLLSSAVSLTCNHVFCNACIVK---SMKSGSNCPVC 54
LE + E C +CL L V + C H FC ACI + ++ CPVC
Sbjct: 9 LENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 36.6 bits (83), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 7/48 (14%)
Query: 15 LKCPICLSLLSSAV-------SLTCNHVFCNACIVKSMKSGSNCPVCK 55
+ CPIC+ S V S C HVFC+ C+ S+K+ + CP C+
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>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 = 35.8 bits (81), Expect = 0.10, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 4/60 (6%)
Query: 2 GDQRSHLEKMGRELKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGSNCPVCKVPYHRR 61
G + L ++ E C +CL S V + C H+ C C CP+C+ P R
Sbjct: 1 GSVEAQLRRLQEERTCKVCLDRAVSIVFVPCGHLVCAEC----APGLQLCPICRAPVRSR 56
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 34.7 bits (78), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%)
Query: 16 KCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGSNCPVCK 55
+C ICL VSL C HVFC C+ + G C +C+
Sbjct: 17 ECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCR 56
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 34.3 bits (77), Expect = 0.27, Method: Composition-based stats.
Identities = 12/43 (27%), Positives = 20/43 (46%)
Query: 15 LKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGSNCPVCKVP 57
+C IC + V C H FC +C ++ ++ C +C P
Sbjct: 16 FRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQP 58
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 16 KCPICLSLLS---SAVSLTCNHVFCNACIVKSMKSGSNCPVCKV 56
KC ICLS+L L C H+F C+ + + + CP+C+V
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRV 59
>pdb|2ECM|A Chain A, Solution Structure Of The Ring Domain Of The Ring Finger
And Chy Zinc Finger Domain-Containing Protein 1 From
Mus Musculus
Length = 55
Score = 33.1 bits (74), Expect = 0.59, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 17 CPICLSLLSS----AVSLTCNHVFCNACIVKSMKSGSNCPVCKVP 57
CPICL + + A L C H+ C + +K G CP+C P
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGP 52
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 33.1 bits (74), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 8 LEKMGRELKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGSNCPVCKV 56
++++ E +C IC+ + + L C H FC CI K NCP+C++
Sbjct: 9 VKQLTDEEECCICMDGRADLI-LPCAHSFCQKCIDKWSDRHRNCPICRL 56
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 32.0 bits (71), Expect = 1.3, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 4/42 (9%)
Query: 17 CPICLSLLSS----AVSLTCNHVFCNACIVKSMKSGSNCPVC 54
CPICL + + A L C H+ C + +K G CP+C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|1BOR|A Chain A, Transcription Factor Pml, A Proto-Oncoprotein, Nmr, 1
Representative Structure At Ph 7.5, 30 C, In The
Presence Of Zinc
Length = 56
Score = 31.6 bits (70), Expect = 1.9, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 15 LKCPICLSLLSSAVSLTCNHVFCNACIVKSMKSGSNCPVCKVPY 58
L+C C + L C H C+ C+ SG CP+C+ P+
Sbjct: 7 LRCQQCQAEAKCPKLLPCLHTLCSGCL---EASGMQCPICQAPW 47
>pdb|3VK6|A Chain A, Crystal Structure Of A Phosphotyrosine Binding Domain
Length = 101
Score = 30.4 bits (67), Expect = 4.2, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 30 LTCNHVFCNACIVKSMKSGSN-CPVCKVPYHRRE 62
+ C HVFC C + K G CP C P R E
Sbjct: 18 IPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIE 51
>pdb|3L5K|A Chain A, The Crystal Structure Of Human Haloacid Dehalogenase-Like
Hydrolase Domain Containing 1a (Hdhd1a)
Length = 250
Score = 30.4 bits (67), Expect = 4.6, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 28/62 (45%), Gaps = 10/62 (16%)
Query: 256 HGKSDGLDFFESEIFEWTQRACSPELLPSPAKTQVADAEENGKGLEAALQGSNTVVDISN 315
HGK D +IF AC+ P PA + E+ G+EAAL VV + +
Sbjct: 169 HGKPD------PDIF----LACAKRFSPPPAMEKCLVFEDAPNGVEAALAAGMQVVMVPD 218
Query: 316 GN 317
GN
Sbjct: 219 GN 220
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
0.311 0.127 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,495,416
Number of Sequences: 62578
Number of extensions: 950641
Number of successful extensions: 1571
Number of sequences better than 100.0: 61
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1513
Number of HSP's gapped (non-prelim): 65
length of query: 811
length of database: 14,973,337
effective HSP length: 107
effective length of query: 704
effective length of database: 8,277,491
effective search space: 5827353664
effective search space used: 5827353664
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (26.2 bits)