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= psy4141
(353 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DGR|A Chain A, Solution Structure Of The Second Kh Domain In Ring Finger
And Kh Domain Containing Protein 1
Length = 83
Score = 109 bits (272), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 52/69 (75%), Positives = 62/69 (89%)
Query: 82 TIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDKEPVFEVTGAPDSVEIARQEI 141
TI+VRVPY+VVGLVVGPKGATIKRIQ +T+TYIVTP RDKEPVF VTG P++V+ AR+EI
Sbjct: 11 TIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGRDKEPVFAVTGMPENVDRAREEI 70
Query: 142 ESHIIRRTG 150
E+HI R+G
Sbjct: 71 EAHITLRSG 79
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/43 (53%), Positives = 30/43 (69%)
Query: 7 SGCKIKALRAKTNTYIKTPVRGEEPVFVVTGRKEDVARAKREI 49
G IK ++ +T+TYI TP R +EPVF VTG E+V RA+ EI
Sbjct: 28 KGATIKRIQQRTHTYIVTPGRDKEPVFAVTGMPENVDRAREEI 70
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 301 RQCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCR 342
R C +C D+EV+ IPCGH C ECA R CP+CR
Sbjct: 296 RTCKVCMDKEVSVVFIPCGHLVVCQECAPSL----RKCPICR 333
>pdb|3EB5|A Chain A, Structure Of The Ciap2 Ring Domain
pdb|3EB6|A Chain A, Structure Of The Ciap2 Ring Domain Bound To Ubch5b
Length = 74
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 301 RQCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMR 350
R C +C D+EV+ IPCGH C +CA R CP+CR + +R
Sbjct: 25 RTCKVCMDKEVSIVFIPCGHLVVCKDCAPSL----RKCPICRSTIKGTVR 70
>pdb|2ECG|A Chain A, Solution Structure Of The Ring Domain Of The Baculoviral
Iap Repeat-Containing Protein 4 From Homo Sapiens
Length = 75
Score = 42.4 bits (98), Expect = 4e-04, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 303 CYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRI 351
C +C DR + +PCGH C +CAE CPMC + +I
Sbjct: 28 CKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFKQKI 72
>pdb|4IC3|A Chain A, Crystal Structure Of The F495l Mutant Xiap Ring Domain
pdb|4IC3|B Chain B, Crystal Structure Of The F495l Mutant Xiap Ring Domain
Length = 74
Score = 42.0 bits (97), Expect = 5e-04, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 303 CYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRII 352
C +C DR + +PCGH C +CAE CPMC + +I+
Sbjct: 27 CKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFKQKIL 72
>pdb|4IC2|A Chain A, Crystal Structure Of The Xiap Ring Domain
pdb|4IC2|B Chain B, Crystal Structure Of The Xiap Ring Domain
Length = 74
Score = 41.2 bits (95), Expect = 8e-04, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 303 CYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRI 351
C +C DR + +PCGH C +CAE CPMC + +I
Sbjct: 27 CKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFKQKI 71
>pdb|2OPU|A Chain A, Solution Nmr Structure Of The First Domain Of Ksrp
Length = 89
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 46/89 (51%), Gaps = 5/89 (5%)
Query: 65 SGALSPLSPPTGVPGHVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-VTPSRDKEP 123
S L P+ PP +T E RVP +VGL++G G I +IQ + + ++P P
Sbjct: 2 SSQLGPIHPPPRT--SMTEEYRVPDGMVGLIIGRGGEQINKIQQDSGCKVQISPDSGGLP 59
Query: 124 VFEV--TGAPDSVEIARQEIESHIIRRTG 150
V TGAP+SV+ A+ ++ + R G
Sbjct: 60 ERSVSLTGAPESVQKAKMMLDDIVSRGRG 88
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 28/50 (56%), Gaps = 5/50 (10%)
Query: 301 RQCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMR 350
R C +C DR V+ +PCGH C+ECA + CP+CR PV +R
Sbjct: 14 RTCKVCLDRAVSIVFVPCGH-LVCAECAPGL----QLCPICRAPVRSRVR 58
>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHN|B Chain B, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|C Chain C, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|E Chain E, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|G Chain G, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
Length = 79
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 303 CYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRI 351
C +C + E+ PCGH C CA + ++CP+CR V +
Sbjct: 21 CMVCCEEEINSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEHVQHV 65
>pdb|1J4W|A Chain A, Complex Of The Kh3 And Kh4 Domains Of Fbp With A
Single_stranded 29mer Dna Oligonucleotide From The Fuse
Element Of The C-Myc Oncogene
Length = 174
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 38/81 (46%), Gaps = 9/81 (11%)
Query: 71 LSPPTGVPGHVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIV---TPSRDKEP---V 124
+ PP G+ I VP GL++G G TIK I Q+ I P + +P +
Sbjct: 97 MGPPGGLQEFNFI---VPTGKTGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKL 153
Query: 125 FEVTGAPDSVEIARQEIESHI 145
F + G P ++ ARQ IE I
Sbjct: 154 FTIRGTPQQIDYARQLIEEKI 174
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 38/76 (50%), Gaps = 12/76 (15%)
Query: 79 GHVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-------VTPSRDKEPVFEVTGAP 131
G I+V +P VG+V+G G IK+IQ+ I TP R + ++TG P
Sbjct: 1 GSHMIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPER----IAQITGPP 56
Query: 132 DSVEIARQEIESHIIR 147
D + A EI + ++R
Sbjct: 57 DRAQHA-AEIITDLLR 71
>pdb|1ZZI|A Chain A, Crystal Structure Analysis Of The Third Kh Domain Of Hnrnp
K In Complex With Ssdna
pdb|1ZZI|B Chain B, Crystal Structure Analysis Of The Third Kh Domain Of Hnrnp
K In Complex With Ssdna
pdb|1ZZJ|A Chain A, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZJ|B Chain B, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZJ|C Chain C, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZK|A Chain A, Crystal Structure Of The Third Kh Domain Of Hnrnp K At
0.95a Resolution
Length = 82
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 21/90 (23%), Positives = 46/90 (51%), Gaps = 16/90 (17%)
Query: 66 GALSPLSPPTGVPGHVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-----VTPSRD 120
GA+ P+ +T +V +P + G ++G G IK+I+H++ I + S D
Sbjct: 1 GAMGPI---------ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSED 51
Query: 121 KEPVFEVTGAPDSVEIARQEIESHIIRRTG 150
+ + +TG D ++ A+ +++ + + +G
Sbjct: 52 R--IITITGTQDQIQNAQYLLQNSVKQYSG 79
>pdb|1X4N|A Chain A, Solution Structure Of Kh Domain In Fuse Binding Protein 1
Length = 92
Score = 35.0 bits (79), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 81 VTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-VTPSRDKEPVFE--VTGAPDSVEIA 137
+T E +VP +VG ++G G I RIQ ++ I + P P +TG P+SV+ A
Sbjct: 15 MTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLPERSCMLTGTPESVQSA 74
Query: 138 RQ 139
++
Sbjct: 75 KR 76
>pdb|1J5K|A Chain A, Complex Of The Kh3 Domain Of Hnrnp K With A
Single_stranded 10mer Dna Oligonucleotide
Length = 89
Score = 34.7 bits (78), Expect = 0.084, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 41/75 (54%), Gaps = 7/75 (9%)
Query: 81 VTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-----VTPSRDKEPVFEVTGAPDSVE 135
+T +V +P + G ++G G IK+I+H++ I + S D+ + +TG D ++
Sbjct: 14 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDR--IITITGTQDQIQ 71
Query: 136 IARQEIESHIIRRTG 150
A+ +++ + + +G
Sbjct: 72 NAQYLLQNSVKQYSG 86
>pdb|2EA5|A Chain A, Solution Structure Of The Ring Domain Of The Human Cell
Growth Regulator With Ring Finger Domain 1 Protein
Length = 68
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 301 RQCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRI 351
+ C +C + V L+PC H C C + + + CPMCR V ++ +
Sbjct: 16 KDCVVCQNGTVNWVLLPCRHTCLCDGCVK----YFQQCPMCRQFVQESFAL 62
>pdb|2HH2|A Chain A, Solution Structure Of The Fourth Kh Domain Of Ksrp
Length = 107
Score = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Query: 87 VPYKVVGLVVGPKGATIKRIQHQTNTYI-----VTPSRDKE-PVFEVTGAPDSVEIARQE 140
+P GLV+G G +K I QT ++ + P+ D +F + G+P ++ A+Q
Sbjct: 13 IPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSPQQIDHAKQL 72
Query: 141 IESHI 145
IE I
Sbjct: 73 IEEKI 77
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 302 QCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQA 348
+C +C D ++PC H+F C +C ++ D R CP+CR+ + A
Sbjct: 17 ECCICMDGRAD-LILPCAHSF-CQKCIDKWSDRHRNCPICRLQMTGA 61
>pdb|3U1K|A Chain A, Crystal Structure Of Human Pnpase
pdb|3U1K|C Chain C, Crystal Structure Of Human Pnpase
pdb|3U1K|B Chain B, Crystal Structure Of Human Pnpase
pdb|3U1K|D Chain D, Crystal Structure Of Human Pnpase
Length = 630
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 44/141 (31%), Positives = 61/141 (43%), Gaps = 24/141 (17%)
Query: 3 KISRSGCKIKALRAKTNTYIKTPVRGEEPVFVVTGRKEDVARAKREILSAADH-FSALRA 61
KI+ + I AL+A IK P P+ +V + + AK+EIL + S RA
Sbjct: 507 KIAGTNKGITALQAD----IKLP---GIPIKIVMEAIQQASVAKKEILQIMNKTISKPRA 559
Query: 62 SRKSGALSPLSPPTGVPGHVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDK 121
SRK G V V+VP VGP G +K++Q +T VT S+
Sbjct: 560 SRKEN------------GPVVETVQVPLSKRAKFVGPGGYNLKKLQAETG---VTISQVD 604
Query: 122 EPVFEVTG-APDSVEIARQEI 141
E F V P ++ AR I
Sbjct: 605 EETFSVFAPTPSAMHEARDFI 625
>pdb|2HH3|A Chain A, Solution Structure Of The Third Kh Domain Of Ksrp
Length = 106
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 83 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDK---EPVFEVTGAPDSVEIA 137
I+V VP VG+V+G G IK+IQ+ I D E + + G PD E A
Sbjct: 13 IDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHA 70
>pdb|4B8T|A Chain A, Rna Binding Protein Solution Structure Of The Third Kh
Domain Of Ksrp In Complex With The G-rich Target
Sequence
Length = 106
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 83 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDK---EPVFEVTGAPDSVEIA 137
I+V VP VG+V+G G IK+IQ+ I D E + + G PD E A
Sbjct: 13 IDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHA 70
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 32.7 bits (73), Expect = 0.30, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 303 CYLCNDREVTHALIPCGHNFFCSEC----AERTCDFDRTCPMCRVPVNQ 347
C +C D I CGHN FC +C E +C F + CP+C+ V +
Sbjct: 23 CPICLDILQKPVTIDCGHN-FCLKCITQIGETSCGFFK-CPLCKTSVRK 69
>pdb|1X4M|A Chain A, Solution Structure Of Kh Domain In Far Upstream Element
Binding Protein 1
Length = 94
Score = 32.7 bits (73), Expect = 0.32, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 84 EVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVT-----PSRDKEPVFEVTGAPDSVEIAR 138
E+ +P GLV+G G TIK++Q + +V + + +TG P V+ A+
Sbjct: 18 EIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRITGDPYKVQQAK 77
Query: 139 QEIESHIIRRTGS 151
E+ +IR GS
Sbjct: 78 -EMVLELIRDQGS 89
>pdb|2JVZ|A Chain A, Solution Nmr Structure Of The Second And Third Kh Domains
Of Ksrp
Length = 164
Score = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 83 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDK---EPVFEVTGAPDSVEIA 137
I+V VP VG+V+G G IK+IQ+ I D E + + G PD E A
Sbjct: 93 IDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPDRCEHA 150
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 84 EVRVPYKVVGLVVGPKGATIKRIQHQTNTYIV 115
E+ +P GLV+G G TIK++Q + ++
Sbjct: 5 EIMIPAGKAGLVIGKGGETIKQLQERAGVKMI 36
>pdb|3ZTG|A Chain A, Solution Structure Of The Ring Finger-Like Domain Of
Retinoblastoma Binding Protein-6 (Rbbp6)
pdb|3ZTG|B Chain B, Solution Structure Of The Ring Finger-Like Domain Of
Retinoblastoma Binding Protein-6 (Rbbp6)
Length = 92
Score = 32.0 bits (71), Expect = 0.55, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 303 CYLCNDREVTHALIPCGHNFFCSECAERTCDF---DRTCPMC 341
C +C D +IPC N +C EC RT + TCP C
Sbjct: 16 CLICKDIMTDAVVIPCCGNSYCDECI-RTALLESDEHTCPTC 56
>pdb|2CTK|A Chain A, Solution Structure Of The 12th Kh Type I Domain From Human
Vigilin
Length = 104
Score = 32.0 bits (71), Expect = 0.60, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 81 VTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRD-KEPVFEVTGAPDSVEIAR 138
VTIEV VP+ + V+G KG+ I+++ + I P+ + + + +TG +++ A+
Sbjct: 17 VTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPAPELQSDIIAITGLAANLDRAK 75
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 31.2 bits (69), Expect = 0.90, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 302 QCYLC----NDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPV 345
+C +C D E L CGH F +EC + TCP+CR+ V
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFH-AECVDMWLGSHSTCPLCRLTV 53
>pdb|2CTE|A Chain A, Solution Structure Of The 1st Kh Type I Domain From
Human Vigilin
Length = 94
Score = 31.2 bits (69), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 30/49 (61%), Gaps = 3/49 (6%)
Query: 4 ISRSGCKIKALRAKTNTYIKTPVRGEEP--VFVVTGRKEDVARAKREIL 50
I ++G K++ L KT T I+ P R ++P +TG KE + +A+ E+L
Sbjct: 32 IGKNGEKLQDLELKTATKIQIP-RPDDPSNQIKITGTKEGIEKARHEVL 79
>pdb|2ANN|A Chain A, Crystal Structure (I) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25 NT RNA Hairpin
Length = 178
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 52/112 (46%), Gaps = 17/112 (15%)
Query: 48 EILSAADHFSALRASR------KSGALSPLSPPTGV-PGHVT-IEVRVPYKVVGLVVGPK 99
E L+A F A + K+ +S L P T V P +++ VP GL++G
Sbjct: 63 EALNAVHGFIAEKIREMPQNVAKTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKG 122
Query: 100 GATIKRIQHQTNTYIVTPSRD-----KEPVFEVTGAPD----SVEIARQEIE 142
GAT+K I Q+ ++ + + V V+G P+ +VE+ Q+I+
Sbjct: 123 GATVKAIMEQSGAWVQLSQKPDGINLQNRVVTVSGEPEQNRKAVELIIQKIQ 174
>pdb|1NHY|A Chain A, Crystal Structure Of The Gst-Like Domain Of Elongation
Factor 1-Gamma From Saccharomyces Cerevisiae
Length = 219
Score = 31.2 bits (69), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 1/73 (1%)
Query: 88 PYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDKEPVFEVTGAPDSVEIARQEIESHIIR 147
P K V VGPKG + N Y+V S+D + ++ GA D + Q I +
Sbjct: 45 PLKKVPAFVGPKGYKLTE-AXAINYYLVKLSQDDKXKTQLLGADDDLNAQAQIIRWQSLA 103
Query: 148 RTGSCVTPAEAVL 160
+ C+ A ++
Sbjct: 104 NSDLCIQIANTIV 116
>pdb|2FYZ|A Chain A, Structural Of Mumps Virus Fusion Protein Core
pdb|2FYZ|C Chain C, Structural Of Mumps Virus Fusion Protein Core
pdb|2FYZ|E Chain E, Structural Of Mumps Virus Fusion Protein Core
Length = 63
Score = 31.2 bits (69), Expect = 1.0, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 97 GPKGATIKRIQHQTNTYIVTPSRD-----KEPVFEVTGAPDSVEIARQEIESHI 145
GP G+ + +Q QTN + ++ VFEV + IA Q I+ HI
Sbjct: 1 GPLGSAVSLVQAQTNARAIAAMKNSIQATNRAVFEVKEGTQRLAIAVQAIQDHI 54
>pdb|1TMO|A Chain A, Trimethylamine N-Oxide Reductase From Shewanella Massilia
Length = 829
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 17/76 (22%)
Query: 48 EILSAADHFSALRASRKSGALSPLSP------PT----GVPGHVTIEVRVPYKVVGLVVG 97
E L+ HF A + RK+G ++ + P PT G+ G V RV Y +V L
Sbjct: 39 EWLTTGSHFGAFKMKRKNGVIAEVKPFDLDKYPTDMINGIRGMVYNPSRVRYPMVRLDFL 98
Query: 98 PKGATIKRIQHQTNTY 113
KG H++NT+
Sbjct: 99 LKG-------HKSNTH 107
>pdb|1KHM|A Chain A, C-Terminal Kh Domain Of Hnrnp K (Kh3)
Length = 89
Score = 30.8 bits (68), Expect = 1.1, Method: Composition-based stats.
Identities = 17/75 (22%), Positives = 40/75 (53%), Gaps = 7/75 (9%)
Query: 81 VTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-----VTPSRDKEPVFEVTGAPDSVE 135
+T +V +P + ++G G IK+I+H++ I + S D+ + +TG D ++
Sbjct: 14 ITTQVTIPKDLARSIIGKGGQRIKQIRHESGASIKIDEPLEGSEDR--IITITGTQDQIQ 71
Query: 136 IARQEIESHIIRRTG 150
A+ +++ + + +G
Sbjct: 72 NAQYLLQNSVKQYSG 86
>pdb|3VKE|A Chain A, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|B Chain B, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|C Chain C, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|D Chain D, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
Length = 76
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 81 VTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-VTPSRDKEPVFEVTGAPDSV 134
+TI + + K VG ++G KG ++KRI+ ++ I ++ E + +TG +++
Sbjct: 3 LTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISEGNSPERIITLTGPTNAI 57
>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 = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 302 QCYLCNDREVTHALIP-CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 347
+C +C + +IP C HN+ CS C + + CP C V V +
Sbjct: 24 RCGICFEYFNIAMIIPQCSHNY-CSLCIRKFLSYKTQCPTCCVTVTE 69
>pdb|2ANR|A Chain A, Crystal Structure (Ii) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25NT RNA Hairpin
Length = 178
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 52/112 (46%), Gaps = 17/112 (15%)
Query: 48 EILSAADHFSALRASR------KSGALSPLSPPTGV-PGHVT-IEVRVPYKVVGLVVGPK 99
E L+A F A + K+ +S L P T V P +++ VP GL++G
Sbjct: 63 EALNAVHGFIAEKIREXPQNVAKTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKG 122
Query: 100 GATIKRIQHQTNTYIVTPSRD-----KEPVFEVTGAPD----SVEIARQEIE 142
GAT+K I Q+ ++ + + V V+G P+ +VE+ Q+I+
Sbjct: 123 GATVKAIXEQSGAWVQLSQKPDGINLQNRVVTVSGEPEQNRKAVELIIQKIQ 174
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 30.4 bits (67), Expect = 1.4, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 6/43 (13%)
Query: 303 CYLCNDREVTHALIPCGHNFFCSEC----AERTCDFDRTCPMC 341
C +C D I CGHN FC +C E +C F + CP+C
Sbjct: 23 CPICLDILQKPVTIDCGHN-FCLKCITQIGETSCGFFK-CPLC 63
>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 = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 316 IPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRII 352
+PC H F C C R + TCP+C+VPV + I
Sbjct: 22 LPCLHAF-CYVCITRWIRQNPTCPLCKVPVESVVHTI 57
>pdb|2HDP|A Chain A, Solution Structure Of Hdm2 Ring Finger Domain
pdb|2HDP|B Chain B, Solution Structure Of Hdm2 Ring Finger Domain
Length = 63
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 303 CYLCNDREVTHALI--PCGHNFFCSECAERTCDFDRTCPMCRVPV 345
C +C R ++ GH C CA++ ++ CP+CR P+
Sbjct: 10 CVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPI 54
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 303 CYLCNDREV-THALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRIIS 353
C LC + +I C H+F C C R + + CP+C V V++ +++
Sbjct: 14 CVLCGGYFIDATTIIECLHSF-CKTCIVRYLETSKYCPICDVQVHKTRPLLN 64
>pdb|2VJE|A Chain A, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJE|C Chain C, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|A Chain A, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|C Chain C, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
Length = 64
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 303 CYLCNDREVTHALI--PCGHNFFCSECAERTCDFDRTCPMCRVPV 345
C +C R ++ GH C CA++ ++ CP+CR P+
Sbjct: 11 CVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPI 55
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 303 CYLCNDREV-THALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRIIS 353
C LC + +I C H+F C C R + + CP+C V V++ +++
Sbjct: 18 CVLCGGYFIDATTIIECLHSF-CKTCIVRYLETSKYCPICDVQVHKTRPLLN 68
>pdb|1ZTG|A Chain A, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|B Chain B, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|C Chain C, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|D Chain D, Human Alpha Polyc Binding Protein Kh1
Length = 74
Score = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 79 GHVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-VTPSRDKEPVFEVTGAPDSV 134
G +TI + + K VG ++G KG ++KRI+ ++ I ++ E + +TG +++
Sbjct: 1 GILTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISEGNCPERIITLTGPTNAI 57
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 303 CYLCNDREV-THALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRIIS 353
C LC + +I C H+F C C R + + CP+C V V++ +++
Sbjct: 18 CVLCGGYFIDATTIIECLHSF-CKTCIVRYLETSKYCPICDVQVHKTRPLLN 68
>pdb|3KRM|A Chain A, Imp1 Kh34
pdb|3KRM|B Chain B, Imp1 Kh34
pdb|3KRM|C Chain C, Imp1 Kh34
Length = 163
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 85 VRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDKEP 123
+RVP G V+G G T+ +Q+ T +V P RD+ P
Sbjct: 89 IRVPASAAGRVIGKGGKTVNELQNLTAAEVVVP-RDQTP 126
>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 = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 302 QCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPV 345
QC +C++ + + C H+ FCS C CP+CR +
Sbjct: 66 QCIICSEYFIEAVTLNCAHS-FCSYCINEWMKRKIECPICRKDI 108
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
Rna By Splicing Factor 1
Length = 131
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 92 VGLVVGPKGATIKRIQHQTNTYIV 115
VGL++GP+G T+K I+ + N I+
Sbjct: 24 VGLLIGPRGNTLKNIEKECNAKIM 47
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 83 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI 114
I V++P +G V+GPK I +IQ T I
Sbjct: 600 ITVKIPVDKIGEVIGPKRQMINQIQEDTGAEI 631
>pdb|3I4R|B Chain B, Nup107(Aa658-925)NUP133(AA517-1156) Complex, H.Sapiens
Length = 644
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 319 GHNFFCSECAERTCDFDRTCPMCRVPVNQA 348
G + + AE+ CDFD MC NQ+
Sbjct: 342 GQYLWAASLAEKYCDFDILVQMCEQTDNQS 371
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 302 QCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPV 345
QC +C++ + + C H+ FCS C CP+CR +
Sbjct: 55 QCIICSEYFIEAVTLNCAHS-FCSYCINEWMKRKIECPICRKDI 97
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 315 LIPCGHNFFCSECAERTCDFDRTCPMCRV 343
++PC H F ++C ++ +RTCP+CR
Sbjct: 41 VLPCNHEFH-AKCVDKWLKANRTCPICRA 68
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 83 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI 114
I V++P +G V+GPK I +IQ T I
Sbjct: 600 ITVKIPVDKIGEVIGPKRQXINQIQEDTGAEI 631
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 28.9 bits (63), Expect = 4.0, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 303 CYLCNDREVTHALIPCGHNFFCSECAERTCDFD-RTCPMCRVPVNQAMRII 352
C +C + + + PCGH C+ C + D + CP CR + II
Sbjct: 29 CKICAENDKDVKIEPCGH-LMCTSCLTAWQESDGQGCPFCRCEIKGTEPII 78
>pdb|1WVN|A Chain A, Crsytal Structure Of Domain 3 Of Human Alpha Polyc Binding
Protein
Length = 82
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 35/71 (49%), Gaps = 7/71 (9%)
Query: 80 HVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-----VTPSRDKEPVFEVTGAPDSV 134
T E+ +P ++G ++G +GA I I+ + I V S ++ +TG+ S+
Sbjct: 5 QTTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPVEGSSGRQ--VTITGSAASI 62
Query: 135 EIARQEIESHI 145
+A+ I + +
Sbjct: 63 SLAQYLINARL 73
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 302 QCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPV 345
QC +C++ + + C H+ FCS C CP+CR +
Sbjct: 55 QCIICSEYFIEAVTLNCAHS-FCSYCINEWMKRKIECPICRKDI 97
>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 = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 318 CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 347
CGH FCS+C + TCP CR +N
Sbjct: 35 CGH-VFCSQCLRDSLKNANTCPTCRKKINH 63
>pdb|2DF4|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Mn2+
pdb|2DQN|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Asn
pdb|2F2A|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Gln
pdb|2G5H|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab
pdb|2G5I|B Chain B, Structure Of Trna-dependent Amidotransferase Gatcab
Complexed With Adp-alf4
pdb|3IP4|B Chain B, The High Resolution Structure Of Gatcab
Length = 483
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 29/69 (42%)
Query: 64 KSGALSPLSPPTGVPGHVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDKEP 123
K+ +S P G G++ IEV K +G+ + H+ +V +R P
Sbjct: 88 KAYQISQFDQPIGENGYIDIEVDGETKRIGITRLHMEEDAGKSTHKGEYSLVDLNRQGTP 147
Query: 124 VFEVTGAPD 132
+ E+ PD
Sbjct: 148 LIEIVSEPD 156
>pdb|2OPV|A Chain A, Solution Nmr Structure Of The Second Domain Of Ksrp
Length = 85
Score = 28.5 bits (62), Expect = 6.2, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 84 EVRVPYKVVGLVVGPKGATIKRIQHQTNTYIV 115
E+ +P GLV+G G TIK++Q + ++
Sbjct: 17 EIMIPAGKAGLVIGKGGETIKQLQERAGVKMI 48
>pdb|2VJE|B Chain B, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJE|D Chain D, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|B Chain B, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|D Chain D, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
Length = 63
Score = 28.1 bits (61), Expect = 7.0, Method: Composition-based stats.
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 301 RQCYLCNDREVTHALI--PCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRI 351
+ C LC R +I GH C CA R +CP+C+ + +++
Sbjct: 8 KPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLVIKV 60
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 318 CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 347
CGH FCS+C + TCP CR +N
Sbjct: 28 CGH-VFCSQCLRDSLKNANTCPTCRKKINH 56
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 318 CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 347
CGH FCS+C + TCP CR +N
Sbjct: 32 CGH-VFCSQCLRDSLKNANTCPTCRKKINH 60
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 318 CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 347
CGH FCS+C + TCP CR +N
Sbjct: 97 CGH-VFCSQCLRDSLKNANTCPTCRKKINH 125
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 318 CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 347
CGH FCS+C + TCP CR +N
Sbjct: 40 CGH-VFCSQCLRDSLKNANTCPTCRKKINH 68
>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human
Retinoblastoma-Binding Protein 6
Length = 74
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 303 CYLCNDREVTHALIPCGHNFFCSECAERTCDF---DRTCPMCR 342
C +C D +IPC N +C EC RT + TCP C
Sbjct: 18 CLICKDIMTDAVVIPCCGNSYCDECI-RTALLESDEHTCPTCH 59
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 0.133 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,703,499
Number of Sequences: 62578
Number of extensions: 355418
Number of successful extensions: 794
Number of sequences better than 100.0: 77
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 37
Number of HSP's that attempted gapping in prelim test: 740
Number of HSP's gapped (non-prelim): 84
length of query: 353
length of database: 14,973,337
effective HSP length: 100
effective length of query: 253
effective length of database: 8,715,537
effective search space: 2205030861
effective search space used: 2205030861
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: 52 (24.6 bits)