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= 043554
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 27/46 (58%), Positives = 32/46 (69%)
Query: 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
EC +CL E DGE+ R LP+C HGFH C+D WL SHS+CP CR
Sbjct: 5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 28/51 (54%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157
ECP+C ++ GE VR LP CNH FH CI WL H SCP CR SL N
Sbjct: 17 ECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN 66
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 1/45 (2%)
Query: 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
T C +C+ +F + +RVLP CNH FH +C+D WL ++ +CP CR
Sbjct: 24 TLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
+C ICL +GE VR LP C H FH C+D WL+++ CP CR
Sbjct: 16 KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 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 = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
CPIC E+V G+ LP C+H FH C+ WL +CP CR
Sbjct: 43 CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 28/54 (51%), Gaps = 5/54 (9%)
Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERS 160
EC IC+ DG +LP C H F +CID W H +CP CR + NE S
Sbjct: 17 ECCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANESS 65
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERS 160
C +CL +F +++ + P C H FH +C+ WL CP C +L + S
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLS 69
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 33.9 bits (76), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
+C IC F++ V C H F CI+ W+ CP CR +
Sbjct: 55 QCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 33.5 bits (75), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
+C IC F++ V C H F CI+ W+ CP CR +
Sbjct: 55 QCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|4A0C|D Chain D, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|F Chain F, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0L|F Chain F, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|I Chain I, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 98
Score = 33.1 bits (74), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 17/81 (20%)
Query: 82 TGLKKRDLRRI-PVAVYGEGVDIPATECPICLGEFVD--------------GEKVRVLPK 126
G K+ ++++ VA++ DI C IC +D E
Sbjct: 7 AGKKRFEVKKWNAVALWA--WDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV 64
Query: 127 CNHGFHVRCIDTWLLSHSSCP 147
CNH FH CI WL + CP
Sbjct: 65 CNHAFHFHCISRWLKTRQVCP 85
>pdb|1U6G|B Chain B, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
pdb|2HYE|D Chain D, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 108
Score = 33.1 bits (74), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 17/81 (20%)
Query: 82 TGLKKRDLRRI-PVAVYGEGVDIPATECPICLGEFVD--------------GEKVRVLPK 126
G K+ ++++ VA++ DI C IC +D E
Sbjct: 17 AGKKRFEVKKWNAVALWA--WDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV 74
Query: 127 CNHGFHVRCIDTWLLSHSSCP 147
CNH FH CI WL + CP
Sbjct: 75 CNHAFHFHCISRWLKTRQVCP 95
>pdb|1LDJ|B Chain B, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
pdb|1LDK|C Chain C, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 90
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 26/77 (33%), Gaps = 14/77 (18%)
Query: 85 KKRDLRRIPVAVYGEGVDIPATECPICLGEFVD--------------GEKVRVLPKCNHG 130
KKR + AV DI C IC +D E CNH
Sbjct: 1 KKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHA 60
Query: 131 FHVRCIDTWLLSHSSCP 147
FH CI WL + CP
Sbjct: 61 FHFHCISRWLKTRQVCP 77
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 17/81 (20%)
Query: 82 TGLKKRDLRRI-PVAVYGEGVDIPATECPICLGEFVD--------------GEKVRVLPK 126
G K+ ++++ VA++ DI C IC +D E
Sbjct: 26 AGKKRFEVKKWNAVALWA--WDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV 83
Query: 127 CNHGFHVRCIDTWLLSHSSCP 147
CNH FH CI WL + CP
Sbjct: 84 CNHAFHFHCISRWLKTRQVCP 104
>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 = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
+C IC F++ V C H F CI+ W+ CP CR +
Sbjct: 66 QCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|3DPL|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation.
pdb|3RTR|B Chain B, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|D Chain D, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|F Chain F, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|H Chain H, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|4F52|B Chain B, Structure Of A Glomulin-Rbx1-Cul1 Complex
pdb|4F52|D Chain D, Structure Of A Glomulin-Rbx1-Cul1 Complex
Length = 106
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 17/81 (20%)
Query: 82 TGLKKRDLRRI-PVAVYGEGVDIPATECPICLGEFVD--------------GEKVRVLPK 126
G K+ ++++ VA++ DI C IC +D E
Sbjct: 15 AGKKRFEVKKWNAVALWA--WDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV 72
Query: 127 CNHGFHVRCIDTWLLSHSSCP 147
CNH FH CI WL + CP
Sbjct: 73 CNHAFHFHCISRWLKTRQVCP 93
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 11/64 (17%)
Query: 102 DIPATECPICLGEFVDG-----------EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
D+ C IC + +D + V V +CNH FH C+ W+ ++ CP C+
Sbjct: 12 DVECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
Query: 151 HSLL 154
+
Sbjct: 72 QDWV 75
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 25/77 (32%), Gaps = 14/77 (18%)
Query: 85 KKRDLRRIPVAVYGEGVDIPATECPICLGEFVD--------------GEKVRVLPKCNHG 130
KKR + A DI C IC +D E CNH
Sbjct: 11 KKRFEVKKSNASAQSAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHA 70
Query: 131 FHVRCIDTWLLSHSSCP 147
FH CI WL + CP
Sbjct: 71 FHFHCISRWLKTRQVCP 87
>pdb|3DQV|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|Y Chain Y, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 106
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 30/81 (37%), Gaps = 17/81 (20%)
Query: 82 TGLKKRDLRRI-PVAVYGEGVDIPATECPICLGEFVD--------------GEKVRVLPK 126
G K+ ++++ VA++ DI C IC D E
Sbjct: 15 AGKKRFEVKKWNAVALWA--WDIVVDNCAICRNHIXDLCIECQANQASATSEECTVAWGV 72
Query: 127 CNHGFHVRCIDTWLLSHSSCP 147
CNH FH CI WL + CP
Sbjct: 73 CNHAFHFHCISRWLKTRQVCP 93
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 31.6 bits (70), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 85 KKRDLRRIPVAVYGEGVDIPATECPICL---GEFVDGEKVRVLPKCNHGFHVRCIDTWLL 141
KK + +R G G CPIC+ E V ++ V +C H F +C+ L
Sbjct: 56 KKINHKRYHPIYIGSG----TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK 111
Query: 142 SHSSCPNCRHSL 153
+ ++CP CR +
Sbjct: 112 NANTCPTCRKKI 123
Score = 30.8 bits (68), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 107 ECPICL---GEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
CPIC+ E V ++ V +C H F +C+ L + ++CP CR +
Sbjct: 9 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
>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 = 31.6 bits (70), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
A CPICL D + C H F CI W+ + +CP C+
Sbjct: 5 AERCPICLE---DPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCK 47
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 31.6 bits (70), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 108 CPICL---GEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
CPIC+ E V ++ V +C H F +C+ L + ++CP CR +
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>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 = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 107 ECPICL---GEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
CPIC+ E V ++ V +C H F +C+ L + ++CP CR +
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.8 bits (68), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 108 CPICL---GEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
CPIC+ E V ++ V +C H F +C+ L + ++CP CR +
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 30.0 bits (66), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 21/51 (41%)
Query: 102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHS 152
++ CPICL + V + C H H C + L CP C HS
Sbjct: 2 NVSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 52
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC 149
P C +C G F+D + +C H F CI +L + CP C
Sbjct: 10 PHLMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 52
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC 149
P C +C G F+D + +C H F CI +L + CP C
Sbjct: 14 PHLMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC 149
P C +C G F+D + +C H F CI +L + CP C
Sbjct: 14 PHLMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>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 = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC 149
C IC F ++P+C+H + CI +L + CP C
Sbjct: 25 CGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|1G71|A Chain A, Crystal Structure Of Pyrococcus Furiosus Dna Primase
pdb|1G71|B Chain B, Crystal Structure Of Pyrococcus Furiosus Dna Primase
Length = 347
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 24/61 (39%), Gaps = 15/61 (24%)
Query: 104 PATECPICLG--------------EFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC 149
P T CPICL E + E + V+ G+H+R +D W L S
Sbjct: 110 PGTVCPICLEDAKELAKDTLIILREELGFENIHVV-YSGRGYHIRILDEWALQLDSKSRE 168
Query: 150 R 150
R
Sbjct: 169 R 169
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSS-----CPNCRHS 152
C +C G D +K + +C+ FH+ C+D L S S CP CR+
Sbjct: 177 CHLCGGR-QDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND 225
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSS-----CPNCRHS 152
C +C G D +K + +C+ FH+ C+D L S S CP CR+
Sbjct: 193 CHLCGGR-QDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND 241
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 27.3 bits (59), Expect = 5.9, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSS-----CPNCRH 151
C +C G D +K + +C+ FH+ C+D L S S CP CR+
Sbjct: 8 CHLCGGR-QDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 55
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSS---CPNC 149
ECPIC+ F + + L C H +C++ L S + CP C
Sbjct: 17 ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 26.6 bits (57), Expect = 8.6, Method: Composition-based stats.
Identities = 11/35 (31%), Positives = 16/35 (45%)
Query: 63 CSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVY 97
CSH + P+ + V L LRR+P A +
Sbjct: 16 CSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANF 50
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain
Structure
Length = 680
Score = 26.6 bits (57), Expect = 8.6, Method: Composition-based stats.
Identities = 11/35 (31%), Positives = 16/35 (45%)
Query: 63 CSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVY 97
CSH + P+ + V L LRR+P A +
Sbjct: 11 CSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANF 45
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 26.6 bits (57), Expect = 8.8, Method: Composition-based stats.
Identities = 11/35 (31%), Positives = 16/35 (45%)
Query: 63 CSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVY 97
CSH + P+ + V L LRR+P A +
Sbjct: 21 CSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANF 55
>pdb|1V33|A Chain A, Crystal Structure Of Dna Primase From Pyrococcus
Horikoshii
pdb|1V34|A Chain A, Crystal Structure Of Pyrococcus Horikoshii Dna Primase-utp
Complex
Length = 366
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 13/60 (21%)
Query: 104 PATECPICLGEF--VDGEKVRVLPK-----------CNHGFHVRCIDTWLLSHSSCPNCR 150
P T CPICL + + + V +L + G+H+R +D W L S R
Sbjct: 130 PGTVCPICLNDAKEIVRDTVIILREELGFNDIHIIYSGRGYHIRVLDEWALKLDSKSRER 189
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
0.320 0.133 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,559,232
Number of Sequences: 62578
Number of extensions: 151566
Number of successful extensions: 385
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 347
Number of HSP's gapped (non-prelim): 47
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)