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= 011622
(481 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 = 101 bits (252), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 43/83 (51%), Positives = 56/83 (67%)
Query: 96 VFVELPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHCASR 155
+ V + ++ CPICL ++K T T ECLHRFC +CI ++R GN ECP CR S+
Sbjct: 44 IVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 103
Query: 156 RSLRDDPNYDALISALYPDIDKY 178
RSLR DPN+DALIS +YP D+Y
Sbjct: 104 RSLRPDPNFDALISKIYPSRDEY 126
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 96.3 bits (238), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 41/78 (52%), Positives = 53/78 (67%)
Query: 96 VFVELPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHCASR 155
+ V + ++ CPICL ++K T T ECLHRFC +CI ++R GN ECP CR S+
Sbjct: 43 IVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 102
Query: 156 RSLRDDPNYDALISALYP 173
RSLR DPN+DALIS +YP
Sbjct: 103 RSLRPDPNFDALISKIYP 120
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 92.0 bits (227), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 39/70 (55%), Positives = 50/70 (71%)
Query: 103 IRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHCASRRSLRDDP 162
+ ++ CPICL ++K T T ECLHRFC +CI ++R GN ECP CR S+RSLR DP
Sbjct: 31 LHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDP 90
Query: 163 NYDALISALY 172
N+DALIS +Y
Sbjct: 91 NFDALISKIY 100
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 4/83 (4%)
Query: 98 VELPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHCASRRS 157
+++ E+ + C +C G T++ECLH FC+ CI + + + CP C R
Sbjct: 3 IKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRP 61
Query: 158 L---RDDPNYDALISALYPDIDK 177
L R D ++ L P + K
Sbjct: 62 LLNIRSDKTLQDIVYKLVPGLFK 84
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 4/83 (4%)
Query: 98 VELPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHCASRRS 157
+++ E+ + C +C G T++ECLH FC+ CI + + + CP C R
Sbjct: 7 IKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRP 65
Query: 158 L---RDDPNYDALISALYPDIDK 177
L R D ++ L P + K
Sbjct: 66 LLNIRSDKTLQDIVYKLVPGLFK 88
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 4/83 (4%)
Query: 98 VELPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHCASRRS 157
+++ E+ + C +C G T++ECLH FC+ CI + + + CP C R
Sbjct: 7 IKITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRP 65
Query: 158 L---RDDPNYDALISALYPDIDK 177
L R D ++ L P + K
Sbjct: 66 LLNIRSDKTLQDIVYKLVPGLFK 88
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 46/78 (58%), Gaps = 4/78 (5%)
Query: 103 IRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSM--RLGNNECPACRTHCASRRSLRD 160
++K ++CPICL +IK+ + +C H FC+ C+ K + + G ++CP C+ ++RSL++
Sbjct: 18 MQKILECPICLELIKEPVST-KCDHIFCKFCMLKLLNQKKGPSQCPLCKND-ITKRSLQE 75
Query: 161 DPNYDALISALYPDIDKY 178
+ L+ L I +
Sbjct: 76 STRFSQLVEELLKIICAF 93
>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 = 42.0 bits (97), Expect = 8e-04, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 101 PEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECP 146
P + +CPICL +++ C HRFC+ CI KS+R ++CP
Sbjct: 13 PPLESKYECPICLMALREA-VQTPCGHRFCKACIIKSIRDAGHKCP 57
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 42.0 bits (97), Expect = 8e-04, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 33/51 (64%), Gaps = 3/51 (5%)
Query: 102 EIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDK--SMRLGNNECPACRT 150
+++++V CPICL I++K T+ +C H FC +CI + G +CP C+T
Sbjct: 16 KLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLCKT 65
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 100 LPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPAC 148
L E+ + C IC G + T+ ECLH FC+ CI + +N CP C
Sbjct: 9 LSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYY-SNRCPKC 56
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 30/55 (54%), Gaps = 6/55 (10%)
Query: 100 LPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRL-----GNNECPACR 149
L I+++V CPICL ++K+ + +C H FCR CI + G CP CR
Sbjct: 13 LEMIKEEVTCPICLELLKEPVSA-DCNHSFCRACITLNYESNRNTDGKGNCPVCR 66
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 100 LPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHCASRRSLR 159
L ++ + QC C ++ + T + C H C++C+D+S R CPACR +++
Sbjct: 46 LSKVEETFQCICCQELVFRPITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQ 104
Query: 160 DDPNYDALISALYP 173
+ +++ L+P
Sbjct: 105 VNQPLQTVLNQLFP 118
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 101 PEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPA 147
P + +CPICL +++ C HRFC+ CI KS+R ++CP
Sbjct: 20 PPLESKYECPICLMALREAVQT-PCGHRFCKACIIKSIRDAGHKCPV 65
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 17/39 (43%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 108 QCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECP 146
+CPICL +++ C HRFC+ CI KS+R ++CP
Sbjct: 8 ECPICLMALREA-VQTPCGHRFCKACIIKSIRDAGHKCP 45
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 31/49 (63%), Gaps = 3/49 (6%)
Query: 102 EIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDK--SMRLGNNECPAC 148
+++++V CPICL I++K T+ +C H FC +CI + G +CP C
Sbjct: 16 KLQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLC 63
>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 = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 36/87 (41%), Gaps = 5/87 (5%)
Query: 91 EKPEFVFVELPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRT 150
E P F L ++ + C C ++ + T EC H C++C+ +S + CPACR
Sbjct: 67 EGPNF----LKKLEQSFMCVCCQELVYQPVTT-ECFHNVCKDCLQRSFKAQVFSCPACRH 121
Query: 151 HCASRRSLRDDPNYDALISALYPDIDK 177
+ + L+ +P K
Sbjct: 122 DLGQNYIMIPNEILQTLLDLFFPGYSK 148
>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 = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 101 PEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPA 147
P + +CPICL +++ C HRFC+ CI KS+R ++CP
Sbjct: 13 PPLESKYECPICLMALREAVQT-PCGHRFCKACIIKSIRDAGHKCPV 58
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 37.4 bits (85), Expect = 0.018, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 105 KDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHC 152
K + C IC I+ C H FCR CI + +++ + CP+CR C
Sbjct: 22 KSISCQICEHILADP-VETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68
>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 = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 33/55 (60%), Gaps = 6/55 (10%)
Query: 100 LPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECI----DKSMR-LGNNECPACR 149
L ++++V CPICL ++ + + ++C H FC+ C+ KSM G + CP CR
Sbjct: 13 LVNVKEEVTCPICLELLTQPLS-LDCGHSFCQACLTANHKKSMLDKGESSCPVCR 66
>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 = 35.4 bits (80), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 108 QCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRT 150
+CPICL + CLH FC CI + +R N CP C+
Sbjct: 7 RCPICLEDPSNYSMALPCLHAFCYVCITRWIR-QNPTCPLCKV 48
>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 = 35.4 bits (80), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 7/49 (14%)
Query: 107 VQCPICLG----IIKKTRTVM--ECLHRFCRECIDKSMRLGNNECPACR 149
V CPIC+ I++ R ++ EC H FC +C+ S++ N CP CR
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCR 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 = 0.078, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 7/52 (13%)
Query: 103 IRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMR------LGNNECPAC 148
++++V CPICL ++ + + ++C H CR CI S + G + CP C
Sbjct: 9 VQEEVTCPICLELLTEPLS-LDCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 35.0 bits (79), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 7/49 (14%)
Query: 107 VQCPICLG----IIKKTRTVM--ECLHRFCRECIDKSMRLGNNECPACR 149
V CPIC+ I++ R ++ EC H FC +C+ S++ N CP CR
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCR 63
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 35.0 bits (79), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 7/49 (14%)
Query: 107 VQCPICLG----IIKKTRTVM--ECLHRFCRECIDKSMRLGNNECPACR 149
V CPIC+ I++ R ++ EC H FC +C+ S++ N CP CR
Sbjct: 4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCR 51
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 7/49 (14%)
Query: 107 VQCPICLG----IIKKTRTVM--ECLHRFCRECIDKSMRLGNNECPACR 149
V CPIC+ I++ R ++ EC H FC +C+ S++ N CP CR
Sbjct: 8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCR 55
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 7/49 (14%)
Query: 107 VQCPICLG----IIKKTRTVM--ECLHRFCRECIDKSMRLGNNECPACR 149
V CPIC+ I++ R ++ EC H FC +C+ S++ N CP CR
Sbjct: 73 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCR 120
>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 = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 3/74 (4%)
Query: 103 IRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHCASR-RSLRDD 161
+ ++QC IC + T + C H FC CI++ M+ ECP CR S+ SL D
Sbjct: 61 LENELQCIICSEYFIEAVT-LNCAHSFCSYCINEWMK-RKIECPICRKDIKSKTYSLVLD 118
Query: 162 PNYDALISALYPDI 175
+ +++ L ++
Sbjct: 119 NCINKMVNNLSSEV 132
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 32.7 bits (73), Expect = 0.50, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 103 IRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHCASR 155
+ ++QC IC + T + C H FC CI++ M+ ECP CR S+
Sbjct: 50 LENELQCIICSEYFIEAVT-LNCAHSFCSYCINEWMKR-KIECPICRKDIKSK 100
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 32.7 bits (73), Expect = 0.51, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 103 IRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRTHCASR 155
+ ++QC IC + T + C H FC CI++ M+ ECP CR S+
Sbjct: 50 LENELQCIICSEYFIEAVT-LNCAHSFCSYCINEWMKR-KIECPICRKDIKSK 100
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 31.6 bits (70), Expect = 0.91, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 100 LPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNE--CPAC 148
L ++ + C +CL +K+ ++EC H FC+ CI + + CP C
Sbjct: 9 LENLQVEASCSVCLEYLKEP-VIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|3N3Y|A Chain A, Crystal Structure Of Thymidylate Synthase X (Thyx) From
Helicobacter Pylori With Fad And Dump At 2.31a
Resolution
pdb|3N3Y|B Chain B, Crystal Structure Of Thymidylate Synthase X (Thyx) From
Helicobacter Pylori With Fad And Dump At 2.31a
Resolution
pdb|3N3Y|C Chain C, Crystal Structure Of Thymidylate Synthase X (Thyx) From
Helicobacter Pylori With Fad And Dump At 2.31a
Resolution
pdb|3N3Y|D Chain D, Crystal Structure Of Thymidylate Synthase X (Thyx) From
Helicobacter Pylori With Fad And Dump At 2.31a
Resolution
Length = 216
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 35/92 (38%), Positives = 43/92 (46%), Gaps = 7/92 (7%)
Query: 301 DGGCIENDL--EVGRESRGISP--GLVWNPEMLAWGRGGTRSNTRHGSASGCNSKSSRST 356
DGGC + +L VG R S L +N E+ RG + +RH AS + KSSR T
Sbjct: 38 DGGCKDKELIHRVGNIFRHSSTLEHLYYNFEIKGLSRGALQELSRHRIAS-LSVKSSRYT 96
Query: 357 -RLNKLVEYLRSLQENNDELDVRLMLVSADTQ 387
R K VE L E N E R LV D +
Sbjct: 97 LRELKEVESFLPLNETNLE-RAREFLVFVDNE 127
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 3/65 (4%)
Query: 88 TSGEKPEFVFVELPEIRKDVQCPICLGIIKKTRT--VMECLHRFCRECIDKSMRLGNNEC 145
+SG+ P + F + C +C+ + + V+ C H F +C+DK ++ N C
Sbjct: 5 SSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLK-ANRTC 63
Query: 146 PACRT 150
P CR
Sbjct: 64 PICRA 68
>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 = 1.6, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 100 LPEIRKDVQCPICLGIIKKTRT---VMECLHRFCRECIDKSM--RLGNNECPAC 148
L +R+ ++CPIC+ + + ++ C H CR+C++K + + CP C
Sbjct: 9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
>pdb|3AH5|A Chain A, Crystal Structure Of Flavin Dependent Thymidylate Synthase
Thyx From Helicobacter Pylori Complexed With Fad And
Dump
pdb|3AH5|B Chain B, Crystal Structure Of Flavin Dependent Thymidylate Synthase
Thyx From Helicobacter Pylori Complexed With Fad And
Dump
pdb|3AH5|C Chain C, Crystal Structure Of Flavin Dependent Thymidylate Synthase
Thyx From Helicobacter Pylori Complexed With Fad And
Dump
pdb|3AH5|D Chain D, Crystal Structure Of Flavin Dependent Thymidylate Synthase
Thyx From Helicobacter Pylori Complexed With Fad And
Dump
pdb|3AH5|E Chain E, Crystal Structure Of Flavin Dependent Thymidylate Synthase
Thyx From Helicobacter Pylori Complexed With Fad And
Dump
pdb|3AH5|F Chain F, Crystal Structure Of Flavin Dependent Thymidylate Synthase
Thyx From Helicobacter Pylori Complexed With Fad And
Dump
Length = 216
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 34/92 (36%), Positives = 43/92 (46%), Gaps = 7/92 (7%)
Query: 301 DGGCIENDL--EVGRESRGISP--GLVWNPEMLAWGRGGTRSNTRHGSASGCNSKSSRST 356
DGGC + +L VG R S L +N E+ RG + +RH AS + KSSR T
Sbjct: 30 DGGCKDKELIHRVGNIFRHSSTLEHLYYNFEIKGLSRGALQELSRHRIAS-LSVKSSRYT 88
Query: 357 -RLNKLVEYLRSLQENNDELDVRLMLVSADTQ 387
R K VE L E N E + LV D +
Sbjct: 89 LRELKEVESFLPLNETNLE-RAKEFLVFVDNE 119
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 100 LPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACR 149
+ ++ + +C IC+ + ++ C H FC++CIDK N CP CR
Sbjct: 9 VKQLTDEEECCICMD--GRADLILPCAHSFCQKCIDKWSDRHRN-CPICR 55
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 106 DVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACR 149
+ QC IC+ I+ + T + C H C+ C ++ + CP CR
Sbjct: 15 ECQCGICMEILVEPVT-LPCNHTLCKPCFQSTVEKASLCCPFCR 57
>pdb|1JM7|B Chain B, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 117
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 100 LPEIRKDVQCPICLGIIKKTRTVMECLHRFCRECIDKSMRLGNNECPACRT 150
L + K ++C C I+++ + C H FC C+ + G CP C T
Sbjct: 16 LDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTG---CPVCYT 63
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.131 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,107,803
Number of Sequences: 62578
Number of extensions: 325687
Number of successful extensions: 645
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 613
Number of HSP's gapped (non-prelim): 51
length of query: 481
length of database: 14,973,337
effective HSP length: 103
effective length of query: 378
effective length of database: 8,527,803
effective search space: 3223509534
effective search space used: 3223509534
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)