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= 027651
(220 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DKT|A Chain A, Solution Structure Of The Chy Zinc Finger Domain Of The
Ring Finger And Chy Zinc Finger Domain-Containing
Protein 1 From Mus Musculus
Length = 143
Score = 90.1 bits (222), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 44/93 (47%), Positives = 59/93 (63%), Gaps = 2/93 (2%)
Query: 9 HELVRQDVKQVICSVCDTEQPVAQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGI 68
H+L R VK+V C C+ Q Q C +C GEY+C IC +D D K Q+HC+ CGI
Sbjct: 49 HQLDRFKVKEVQCINCEKLQHAQQTCEDCSTLFGEYYCSICHLFDKD--KRQYHCESCGI 106
Query: 69 CRIGGRENYFHCKRCGSCYSTSLRNNHLCIENS 101
CRIG +E++FHC +C C +T+LR H CIE+
Sbjct: 107 CRIGPKEDFFHCLKCNLCLTTNLRGKHKCIESG 139
>pdb|2K2C|A Chain A, Solution Nmr Structure Of N-Terminal Domain Of Human
Pirh2. Northeast Structural Genomics Consortium (Nesg)
Target Ht2a
Length = 137
Score = 86.3 bits (212), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 42/90 (46%), Positives = 57/90 (63%), Gaps = 2/90 (2%)
Query: 9 HELVRQDVKQVICSVCDTEQPVAQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCDDCGI 68
H+L R VK+V C C+ Q Q C C GEY+CDIC +D D K Q+HC++CGI
Sbjct: 50 HQLDRFKVKEVQCINCEKIQHAQQTCEECSTLFGEYYCDICHLFDKD--KKQYHCENCGI 107
Query: 69 CRIGGRENYFHCKRCGSCYSTSLRNNHLCI 98
CRIG +E++FHC +C C + +L+ H CI
Sbjct: 108 CRIGPKEDFFHCLKCNLCLAMNLQGRHKCI 137
>pdb|2K2D|A Chain A, Solution Nmr Structure Of C-Terminal Domain Of Human
Pirh2. Northeast Structural Genomics Consortium (Nesg)
Target Ht2c
Length = 79
Score = 73.9 bits (180), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 31/60 (51%), Positives = 44/60 (73%)
Query: 151 SVIDMSRTWKRIDEEIEATVMPEDYRHKKVWILCNDCNDTTEVYFHIIGQKCSHCKSYNT 210
S +DM+R W+++D+E+ T MP +Y++ V ILCNDCN + V FHI+G KC C+SYNT
Sbjct: 7 SALDMTRYWRQLDDEVAQTPMPSEYQNMTVDILCNDCNGRSTVQFHILGMKCKICESYNT 66
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 99 ENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKS 151
EN +CPIC E + S V+ CGH +H CY EM+K + Y CP+C S
Sbjct: 1 ENVSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCPLCMHS 52
>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 = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICS 149
CPIC E + S V+ CGH +H CY EM+K + Y CP+CS
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK-EGYRCPLCS 50
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSR 157
C IC E L + + + C HT+ C+ +++ CCP C + V +R
Sbjct: 17 QCGICMEILVEPV----TLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTR 65
>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 = 0.64, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKR--DKYCCPICSK 150
CPIC E + ++ CGHT+ +C +++ + CP CSK
Sbjct: 17 ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64
>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 = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 7/55 (12%)
Query: 98 IENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSV 152
+EN + C IC EY +++ + C H+ C +E +KR K CPIC K +
Sbjct: 61 LENELQ--CIICSEYFIEAV----TLNCAHSFCSYCINEWMKR-KIECPICRKDI 108
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 7/55 (12%)
Query: 98 IENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSV 152
+EN + C IC EY +++ + C H+ C +E +KR K CPIC K +
Sbjct: 50 LENELQ--CIICSEYFIEAV----TLNCAHSFCSYCINEWMKR-KIECPICRKDI 97
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 7/55 (12%)
Query: 98 IENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSV 152
+EN + C IC EY +++ + C H+ C +E +KR K CPIC K +
Sbjct: 50 LENELQ--CIICSEYFIEAV----TLNCAHSFCSYCINEWMKR-KIECPICRKDI 97
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 27.7 bits (60), Expect = 5.0, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 106 CPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVI 153
C +C L D + +CGH H EC +M CP+C +V+
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECV-DMWLGSHSTCPLCRLTVV 54
>pdb|3IZR|MM Chain m, Localization Of The Large Subunit Ribosomal Proteins
Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
Translating 80s Ribosome
Length = 92
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 43 EYFCDIC-KFYDDDIEKGQFHCDDCGICRIGG 73
+YFC+ C KF G + C DCG + GG
Sbjct: 36 KYFCEFCGKFAVKRKAVGIWGCKDCGKVKAGG 67
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 27.3 bits (59), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 101 SMHHH--CPICYEYLFDSLRNT-TVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSR 157
S+H CPIC D L+NT T +C H +C ++ CP C K ++ S+
Sbjct: 49 SLHSELMCPIC----LDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLV--SK 102
Query: 158 TWKRIDEEIEATV 170
R D +A +
Sbjct: 103 RSLRPDPNFDALI 115
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
Query: 106 CPICYEYLFDSLRNT-TVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSRTWKRIDE 164
CPIC D L+NT T +C H +C ++ CP C K ++ S+ R D
Sbjct: 57 CPIC----LDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLV--SKRSLRPDP 110
Query: 165 EIEATV 170
+A +
Sbjct: 111 NFDALI 116
>pdb|4A0F|A Chain A, Structure Of Selenomethionine Substituted Bifunctional
Dapa Aminotransferase-Dethiobiotin Synthetase From
Arabidopsis Thaliana In Its Apo Form.
pdb|4A0F|B Chain B, Structure Of Selenomethionine Substituted Bifunctional
Dapa Aminotransferase-Dethiobiotin Synthetase From
Arabidopsis Thaliana In Its Apo Form
Length = 831
Score = 26.9 bits (58), Expect = 8.1, Method: Composition-based stats.
Identities = 29/113 (25%), Positives = 41/113 (36%), Gaps = 20/113 (17%)
Query: 5 PYDRHELVRQDVKQVICSVCDTEQPVAQVCTNCGVNMGEYFCDICKFYDDDIEKGQFHCD 64
PY +H+LV Q+ VI S C GE F I K D+ QF D
Sbjct: 345 PYTQHKLVHQETVTVIDSRC-----------------GENF-SIYKASDNSSLSQQF--D 384
Query: 65 DCGICRIGGRENYFHCKRCGSCYSTSLRNNHLCIENSMHHHCPICYEYLFDSL 117
C G + F + T+ R H+ +++ C E L D +
Sbjct: 385 ACASWWTQGPDPTFQAELAREXGYTAARFGHVXFPENVYEPALKCAELLLDGV 437
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 26.9 bits (58), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 99 ENSMHHHCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSV 152
E + H C +C Y D+ TT+++C H+ C ++ KY CPIC V
Sbjct: 7 ELNPHLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLETSKY-CPICDVQV 56
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 26.9 bits (58), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 101 SMHHH--CPICYEYLFDSLRNT-TVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSR 157
S+H CPIC D L+NT T +C H +C ++ CP C K ++ S+
Sbjct: 30 SLHSELMCPIC----LDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLV--SK 83
Query: 158 TWKRIDEEIEATV 170
R D +A +
Sbjct: 84 RSLRPDPNFDALI 96
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 114 FDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPIC 148
F+S + V+ C H H +C + +K ++ CPIC
Sbjct: 33 FESRQLLRVLPCNHEFHAKCVDKWLKANRT-CPIC 66
>pdb|1E4U|A Chain A, N-Terminal Ring Finger Domain Of Human Not-4
Length = 78
Score = 26.9 bits (58), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 26/61 (42%)
Query: 105 HCPICYEYLFDSLRNTTVMKCGHTMHCECYHEMIKRDKYCCPICSKSVIDMSRTWKRIDE 164
CP+C E L N CG+ + C+H + + CP C K + +K + +
Sbjct: 13 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAVYKPLSQ 72
Query: 165 E 165
E
Sbjct: 73 E 73
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
0.327 0.140 0.491
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,162,834
Number of Sequences: 62578
Number of extensions: 282867
Number of successful extensions: 868
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 854
Number of HSP's gapped (non-prelim): 37
length of query: 220
length of database: 14,973,337
effective HSP length: 95
effective length of query: 125
effective length of database: 9,028,427
effective search space: 1128553375
effective search space used: 1128553375
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 49 (23.5 bits)