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= 047298
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 134 RCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV 182
RC ICL + + + CLH F CI W +N +CPLC+ + + V
Sbjct: 7 RCPICLEDPSNYSMALPCLHAFCYVCITRWI-RQNPTCPLCKVPVESVV 54
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 145 SVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDM 178
SV Q+ C H FH+ CI W + + SCP+CR +
Sbjct: 30 SVRQLPCNHLFHDSCIVPWLEQHD-SCPVCRKSL 62
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 35.0 bits (79), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA 181
C IC+ G +I + C H F +KCI W D R+ +CP+CR M A
Sbjct: 18 CCICM-DGRADLI-LPCAHSFCQKCIDKWSD-RHRNCPICRLQMTGA 61
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 35.0 bits (79), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 134 RCAICLG--SGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV 182
+C ICL V ++ C+H FH+ C+ W N CP+CR D+ +
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLIT-NKKCPICRVDIEAQL 65
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 34.7 bits (78), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
C ICL ++ +CLH+F CI + N CP CR + +
Sbjct: 57 CPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS 102
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 34.3 bits (77), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
C ICL ++ +CLH+F CI + N CP CR + +
Sbjct: 37 CPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS 82
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 34.3 bits (77), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMAT 180
C ICL ++ +CLH+F CI + N CP CR + +
Sbjct: 56 CPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVS 101
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 33.9 bits (76), Expect = 0.053, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 4/45 (8%)
Query: 135 CAICLGS---GTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRF 176
CA+CL G + C H FH +C+ W + + +CPLCR
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHS-TCPLCRL 51
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 33.1 bits (74), Expect = 0.087, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDN--RNYSCPLC 174
C++CL VI ++C H F + CI W+++ R++ CP+C
Sbjct: 18 CSVCLEYLKEPVI-IECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 33.1 bits (74), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 149 MDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA 181
+ C H+FH KC+ W N +CP+CR D +
Sbjct: 42 LPCNHEFHAKCVDKWLK-ANRTCPICRADSGPS 73
>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 = 31.6 bits (70), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 10/44 (22%)
Query: 148 QMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVIESMFSKPL 191
++ C H FH+ C++ W ++ +CP+CR MF PL
Sbjct: 58 ELPCHHYFHKPCVSIWL-QKSGTCPVCR---------CMFPPPL 91
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 31.6 bits (70), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLC 174
C +C G + ++CLH F + CI + + Y CP+C
Sbjct: 18 CVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKY-CPIC 56
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 31.2 bits (69), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLC 174
C +C G + ++CLH F + CI + + Y CP+C
Sbjct: 18 CVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKY-CPIC 56
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 31.2 bits (69), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 135 CAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLC 174
C +C G + ++CLH F + CI + + Y CP+C
Sbjct: 14 CVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKY-CPIC 52
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 30.8 bits (68), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 6/63 (9%)
Query: 134 RCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATA----VIESMFSK 189
+C IC +V ++C H F CI W R CP+CR D+ + V+++ +K
Sbjct: 55 QCIICSEYFIEAVT-LNCAHSFCSYCINEWMK-RKIECPICRKDIKSKTYSLVLDNXINK 112
Query: 190 PLN 192
+N
Sbjct: 113 MVN 115
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 30.4 bits (67), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 134 RCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV 182
+C IC +V ++C H F CI W R CP+CR D+ +
Sbjct: 55 QCIICSEYFIEAVT-LNCAHSFCSYCINEWMK-RKIECPICRKDIKSKT 101
>pdb|1NP7|A Chain A, Crystal Structure Analysis Of Synechocystis Sp. Pcc6803
Cryptochrome
pdb|1NP7|B Chain B, Crystal Structure Analysis Of Synechocystis Sp. Pcc6803
Cryptochrome
Length = 489
Score = 30.4 bits (67), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 7/49 (14%)
Query: 37 FHFFEFPKASSRYDD----LRGLILNVKRLPADTYHELVDDILISMTDE 81
F +F PK S +YD LR + +K LP D H+ L+S T++
Sbjct: 409 FRYFNIPKQSQQYDPQGTYLRHWLPELKNLPGDKIHQ---PWLLSATEQ 454
>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 = 30.0 bits (66), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 134 RCAICLGSGTGSVIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAV 182
+C IC +V ++C H F CI W R CP+CR D+ +
Sbjct: 66 QCIICSEYFIEAVT-LNCAHSFCSYCINEWMK-RKIECPICRKDIKSKT 112
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 151 CLHQFHEKCIACWFDNRNYSCPLCRFDM 178
C H FH KC+ W + R CPLC +
Sbjct: 36 CKHAFHRKCLIKWLEVRKV-CPLCNMPV 62
>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 = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 18/37 (48%)
Query: 147 IQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI 183
+ +C H + C+ F + +SCP CR D+ I
Sbjct: 92 VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYI 128
>pdb|3H6G|A Chain A, Crystal Structure Of The Glur6 Amino Terminal Domain Dimer
Assembly
pdb|3H6G|B Chain B, Crystal Structure Of The Glur6 Amino Terminal Domain Dimer
Assembly
pdb|3H6H|A Chain A, Crystal Structure Of The Glur6 Amino Terminal Domain Dimer
Assembly Mpd Form
pdb|3H6H|B Chain B, Crystal Structure Of The Glur6 Amino Terminal Domain Dimer
Assembly Mpd Form
pdb|3QLV|C Chain C, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD
TETRAMER ASSEMBLY
pdb|3QLV|D Chain D, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD
TETRAMER ASSEMBLY
pdb|3QLV|F Chain F, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD
TETRAMER ASSEMBLY
pdb|3QLV|H Chain H, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD
TETRAMER ASSEMBLY
pdb|3QLV|J Chain J, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD
TETRAMER ASSEMBLY
Length = 395
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 15/49 (30%)
Query: 33 INDLFHFFEFPKASSRYDDLRGLI---------------LNVKRLPADT 66
I DL FF++ + YDD GLI L +++LPADT
Sbjct: 129 ILDLVQFFKWKTVTVVYDDSTGLIRLQELIKAPSRYNLRLKIRQLPADT 177
>pdb|3QLT|A Chain A, Crystal Structure Of A Gluk2 (Glur6) Glycan Wedge
Homodimer Assembly
pdb|3QLT|B Chain B, Crystal Structure Of A Gluk2 (Glur6) Glycan Wedge
Homodimer Assembly
pdb|3QLU|C Chain C, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD DIMER
ASSEMBLY
pdb|3QLU|D Chain D, Crystal Structure Of The Gluk2GLUK5 (GLUR6KA2) ATD DIMER
ASSEMBLY
Length = 395
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 15/49 (30%)
Query: 33 INDLFHFFEFPKASSRYDDLRGLI---------------LNVKRLPADT 66
I DL FF++ + YDD GLI L +++LPADT
Sbjct: 129 ILDLVQFFKWKTVTVVYDDSTGLIRLQELIKAPSRYNLRLKIRQLPADT 177
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 146 VIQMDCLHQFHEKCIACWFDNRNYSCPLCRFDMATAVI 183
V+ +C H FH C++ W +N CPLC+ D I
Sbjct: 43 VVWGECNHSFHNCCMSLWV-KQNNRCPLCQQDWVVQRI 79
>pdb|4AXD|A Chain A, Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase In Complex
With Amppnp
Length = 456
Score = 26.6 bits (57), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 157 EKCIACWFDNRNYSCPLCRFDMATAVIESMFSKPLN 192
E I C++D N CP+CR S+ + PL+
Sbjct: 321 EGAIHCYYDIINQPCPICREGRPLEAELSLHALPLD 356
>pdb|4AQK|A Chain A, Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase In Complex
With Adp And Ip6
pdb|4AXF|A Chain A, Insp5 2-K In Complex With Ins(3,4,5,6)p4 Plus Amppnp
Length = 456
Score = 26.6 bits (57), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 157 EKCIACWFDNRNYSCPLCRFDMATAVIESMFSKPLN 192
E I C++D N CP+CR S+ + PL+
Sbjct: 321 EGAIHCYYDIINQPCPICREGRPLEAELSLHALPLD 356
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
0.325 0.140 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,637,726
Number of Sequences: 62578
Number of extensions: 156579
Number of successful extensions: 444
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 418
Number of HSP's gapped (non-prelim): 38
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: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 49 (23.5 bits)