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= 042206
(184 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 = 63.5 bits (153), Expect = 6e-11, Method: Composition-based stats.
Identities = 24/50 (48%), Positives = 31/50 (62%)
Query: 115 AVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
A++ C +CL E DG+E + +C H FH C+D WL HSTCPLCR
Sbjct: 1 AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>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 = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 111 QNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
++ AV + C IC E+ GD C+H FH+ C+ WL TCP+CR
Sbjct: 32 EDHGAVGQEMCCPICCSEYVKGDV-ATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
C ICL +G++ + R C H+FHQ C+D WL + CP+CR
Sbjct: 17 CTICLSILEEGEDVR-RLPCMHLFHQVCVDQWLITNKKCPICR 58
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 6/61 (9%)
Query: 105 INNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
N +HQ++ + CV+C+ +F +V CNH FH C+D WL + TCP+CR
Sbjct: 14 FNPNNHQSEQTL-----CVVCMCDFESRQLLRVL-PCNHEFHAKCVDKWLKANRTCPICR 67
Query: 165 G 165
Sbjct: 68 A 68
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 106 NNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
++ S ++ V C +C ++ G+ + + CNH+FH +CI WL+ H +CP+CR
Sbjct: 2 SSGSSGTEEHVGSGLECPVCKEDYALGESVR-QLPCNHLFHDSCIVPWLEQHDSCPVCR 59
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171
+N C +CL +F+ DE + C H FH+ C+ WL+ CPLC V ++A
Sbjct: 12 LNLHELCAVCLEDFKPRDELGI-CPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA 66
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 8/86 (9%)
Query: 90 SKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTC 149
+K +K A K +++ SH ND N+ C+IC F + V C H F C
Sbjct: 28 TKEEKEKMQAQKEEVL---SHMNDVLENELQ-CIICSEYFIEA----VTLNCAHSFCSYC 79
Query: 150 IDDWLDDHSTCPLCRGRVRRIAWPSV 175
I++W+ CP+CR ++ + V
Sbjct: 80 INEWMKRKIECPICRKDIKSKTYSLV 105
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 8/86 (9%)
Query: 90 SKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTC 149
+K +K A K +++ SH ND N+ C+IC F + V C H F C
Sbjct: 28 TKEEKEKMQAQKEEVL---SHMNDVLENELQ-CIICSEYFIEA----VTLNCAHSFCSYC 79
Query: 150 IDDWLDDHSTCPLCRGRVRRIAWPSV 175
I++W+ CP+CR ++ + V
Sbjct: 80 INEWMKRKIECPICRKDIKSKTYSLV 105
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 8/86 (9%)
Query: 90 SKFKKVSWTAFKRDIINNKSHQNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTC 149
+K +K A K +++ SH ND N+ C+IC F + V C H F C
Sbjct: 39 TKEEKEKMQAQKEEVL---SHMNDVLENELQ-CIICSEYFIEA----VTLNCAHSFCSYC 90
Query: 150 IDDWLDDHSTCPLCRGRVRRIAWPSV 175
I++W+ CP+CR ++ + V
Sbjct: 91 INEWMKRKIECPICRKDIKSKTYSLV 116
>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 = 37.4 bits (85), Expect = 0.005, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 23/47 (48%)
Query: 119 TSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRG 165
+S C ICL + C H+ H+TC ++ L + CPLC G
Sbjct: 5 SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 14/24 (58%), Positives = 15/24 (62%)
Query: 141 CNHIFHQTCIDDWLDDHSTCPLCR 164
C H F Q CID W D H CP+CR
Sbjct: 32 CAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 3/69 (4%)
Query: 102 RDIINNKSHQNDDAVNKTSTCVICL---GEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS 158
R IN+K + + T +C IC+ E V ++C H+F C+ D L + +
Sbjct: 55 RKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN 114
Query: 159 TCPLCRGRV 167
TCP CR ++
Sbjct: 115 TCPTCRKKI 123
Score = 33.5 bits (75), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 119 TSTCVICL---GEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
T +C IC+ E V ++C H+F C+ D L + +TCP CR ++
Sbjct: 7 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%)
Query: 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCR 164
V C+ C E + D V +CNH FH C+ W+ ++ CPLC+
Sbjct: 23 VQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 7/59 (11%)
Query: 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDH---STCPLCRGRVRR 169
+A+ K C ICL ++ V +KC+HIF + C+ L+ S CPLC+ + +
Sbjct: 16 NAMQKILECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK 70
>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 = 34.3 bits (77), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 119 TSTCVICL---GEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
T +C IC+ E V ++C H+F C+ D L + +TCP CR ++
Sbjct: 10 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 34.3 bits (77), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 119 TSTCVICL---GEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
T +C IC+ E V ++C H+F C+ D L + +TCP CR ++
Sbjct: 15 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 33.5 bits (75), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
+N CV+C G F D +C H F +TCI +L+ CP+C +V +
Sbjct: 12 LNPHLMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPICDVQVHK 62
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 33.5 bits (75), Expect = 0.078, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 20/42 (47%)
Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLC 163
C ICL + C H+ H+TC ++ L + CPLC
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 33.5 bits (75), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
+N CV+C G F D +C H F +TCI +L+ CP+C +V +
Sbjct: 12 LNPHLMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPICDVQVHK 62
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 33.1 bits (74), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 116 VNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRR 169
+N CV+C G F D +C H F +TCI +L+ CP+C +V +
Sbjct: 8 LNPHLMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPICDVQVHK 58
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.1 bits (74), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 121 TCVICL---GEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRV 167
+C IC+ E V ++C H+F C+ D L + +TCP CR ++
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>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 = 0.11, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 133 DECKVR-SKCNHIFHQTCIDDWLDDHSTCPL 162
+EC V CNH FH CI WL CPL
Sbjct: 75 EECTVAWGVCNHAFHFHCISRWLKTRQVCPL 105
>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 = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 133 DECKVR-SKCNHIFHQTCIDDWLDDHSTCPL 162
+EC V CNH FH CI WL CPL
Sbjct: 66 EECTVAWGVCNHAFHFHCISRWLKTRQVCPL 96
>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 = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 133 DECKVR-SKCNHIFHQTCIDDWLDDHSTCPL 162
+EC V CNH FH CI WL CPL
Sbjct: 56 EECTVAWGVCNHAFHFHCISRWLKTRQVCPL 86
>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 = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 133 DECKVR-SKCNHIFHQTCIDDWLDDHSTCPL 162
+EC V CNH FH CI WL CPL
Sbjct: 64 EECTVAWGVCNHAFHFHCISRWLKTRQVCPL 94
>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 = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 133 DECKVR-SKCNHIFHQTCIDDWLDDHSTCPL 162
+EC V CNH FH CI WL CPL
Sbjct: 64 EECTVAWGVCNHAFHFHCISRWLKTRQVCPL 94
>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 = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 122 CVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHSTCPLCRGRVRRIA 171
C ICL D + C H F CI W+ + TCPLC+ V +
Sbjct: 8 CPICL---EDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVV 54
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 132 GDECKVR-SKCNHIFHQTCIDDWLDDHSTCPL 162
+EC V CNH FH CI WL CPL
Sbjct: 57 SEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 88
>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 = 32.0 bits (71), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 133 DECKVR-SKCNHIFHQTCIDDWLDDHSTCPL 162
+EC V CNH FH CI WL CPL
Sbjct: 48 EECTVAWGVCNHAFHFHCISRWLKTRQVCPL 78
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 10/57 (17%)
Query: 114 DAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCI------DDWLDDHSTCPLCR 164
+ + + TC ICL ++ V + CNH F + CI + D CP+CR
Sbjct: 14 EMIKEEVTCPICLELLKE----PVSADCNHSFCRACITLNYESNRNTDGKGNCPVCR 66
>pdb|3LRQ|A Chain A, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|B Chain B, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|C Chain C, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|D Chain D, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d
Length = 100
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 111 QNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWL-DDHSTCPLCRG 165
Q+ +++ + C IC + RD C C+ + +CI WL + + CP CR
Sbjct: 14 QSVESIAEVFRCFICXEKLRDARLC---PHCSKLCCFSCIRRWLTEQRAQCPHCRA 66
>pdb|2WSP|A Chain A, Thermotoga Maritima Alpha-L-Fucosynthase, Tmd224g, In
Complex With Alpha-L-Fuc-(1-2)-Beta-L-Fuc-N3
pdb|2WSP|B Chain B, Thermotoga Maritima Alpha-L-Fucosynthase, Tmd224g, In
Complex With Alpha-L-Fuc-(1-2)-Beta-L-Fuc-N3
Length = 449
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 111 QNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIF 145
+ DA+ TS C + DG E + KCN IF
Sbjct: 350 KYGDAIYGTSVWERCCAKTEDGTEIRFTRKCNRIF 384
>pdb|1HL8|A Chain A, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
pdb|1HL8|B Chain B, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
pdb|1HL9|A Chain A, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With A Mechanism Based Inhibitor
pdb|1HL9|B Chain B, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With A Mechanism Based Inhibitor
Length = 449
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 111 QNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIF 145
+ DA+ TS C + DG E + KCN IF
Sbjct: 350 KYGDAIYGTSVWERCCAKTEDGTEIRFTRKCNRIF 384
>pdb|2ZWY|A Chain A, Alpha-L-Fucosidase
pdb|2ZWY|B Chain B, Alpha-L-Fucosidase
pdb|2ZWZ|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Core1
pdb|2ZWZ|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Core1
pdb|2ZX5|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10
pdb|2ZX5|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10
pdb|2ZX6|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10-1c
pdb|2ZX6|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10-1c
pdb|2ZX7|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c
pdb|2ZX7|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c
pdb|2ZX8|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c-O
pdb|2ZX8|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c-O
pdb|2ZX9|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, B4
pdb|2ZX9|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, B4
pdb|2ZXA|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Fnj-Acetyl
pdb|2ZXA|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Fnj-Acetyl
pdb|2ZXB|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Ph-6fnj
pdb|2ZXB|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Ph-6fnj
pdb|2ZXD|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Iso-6fnj
pdb|2ZXD|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Iso-6fnj
Length = 455
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 111 QNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIF 145
+ DA+ TS C + DG E + KCN IF
Sbjct: 350 KYGDAIYGTSVWERCCAKTEDGTEIRFTRKCNRIF 384
>pdb|1ODU|A Chain A, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With Fucose
pdb|1ODU|B Chain B, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With Fucose
Length = 449
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 111 QNDDAVNKTSTCVICLGEFRDGDECKVRSKCNHIF 145
+ DA+ TS C + DG E + KCN IF
Sbjct: 350 KYGDAIYGTSVWERCCAKTEDGTEIRFTRKCNRIF 384
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 26.6 bits (57), Expect = 8.7, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 7/47 (14%)
Query: 120 STCVICLGEFRDGDECKVRSKCNHIFHQTCIDDWLDDHS---TCPLC 163
++C +CL ++ V +C H F + CI W +D CP+C
Sbjct: 16 ASCSVCLEYLKE----PVIIECGHNFCKACITRWWEDLERDFPCPVC 58
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 0.132 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,843,917
Number of Sequences: 62578
Number of extensions: 164079
Number of successful extensions: 287
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 33
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 251
Number of HSP's gapped (non-prelim): 39
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)