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= 005857
(673 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 98 RCNVCQGTTYESLLLLCDLCDTASHTYCVGMG-NAVPEGDWFCHDC 142
RC VC+ + L+LCD C+ A H +C+ VP+G+W C C
Sbjct: 2 RCKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 39.3 bits (90), Expect = 0.008, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 99 CNVCQG--TTYESLLLLCDLCDTASHTYCVGMGNAVPEGDWFCHDC 142
C++C + +++L CD+C+ A H C G+ +PEG W C C
Sbjct: 19 CSICMDGESQNSNVILFCDMCNLAVHQECYGV-PYIPEGQWLCRHC 63
>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 = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVG--MGNAVPEGDWFCHDC 142
C++C G L+CD CD A H YC+ + + E +W+C +C
Sbjct: 193 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>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 = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVG--MGNAVPEGDWFCHDC 142
C++C G L+CD CD A H YC+ + + E +W+C +C
Sbjct: 177 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 222
>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 = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 9 CGICLMDEGKSIRGQIDSCDHYFCFVCIMEWAKIESKCPMCKRRFTSI 56
C ICL E S C H FC+VCI W + CP+CK S+
Sbjct: 8 CPICL--EDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESV 53
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 37.7 bits (86), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 3/46 (6%)
Query: 99 CNVCQ-GTTYES-LLLLCDLCDTASHTYCVGMGNAVPEGDWFCHDC 142
C++C G + S ++L CD+C+ A H C G+ +PEG W C C
Sbjct: 28 CSICMDGESQNSNVILFCDMCNLAVHQECYGVP-YIPEGQWLCRHC 72
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 37.7 bits (86), Expect = 0.023, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVG--MGNAVPEGDWFCHDC 142
C++C G L+CD CD A H YC+ + + E +W+C +C
Sbjct: 8 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>pdb|2KWJ|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3 Bound To A Histone Peptide
Containing Acetylation At Lysine 14
pdb|2KWK|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3b Bound To A H3 Peptide Wild
Type
pdb|2KWN|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing Acetylation At Lysine 16
pdb|2KWO|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing N-Terminal Acetylation
At Serine 1
Length = 114
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVGMGNA-VPEGDWFCHDCTVLRDE 148
C +C + + LL CD CD H YC+ A PEG W CH C L E
Sbjct: 61 CILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLCWELLKE 111
>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 = 37.0 bits (84), Expect = 0.037, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 26 SCDHYFCFVCIMEWAKIESKCPMCKRRFTS 55
+C H FC CI EW K + +CP+C++ S
Sbjct: 81 NCAHSFCSYCINEWMKRKIECPICRKDIKS 110
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 36.6 bits (83), Expect = 0.045, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 26 SCDHYFCFVCIMEWAKIESKCPMCKRRFTS 55
+C H FC CI EW K + +CP+C++ S
Sbjct: 70 NCAHSFCSYCINEWMKRKIECPICRKDIKS 99
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 36.6 bits (83), Expect = 0.048, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 26 SCDHYFCFVCIMEWAKIESKCPMCKRRFTS 55
+C H FC CI EW K + +CP+C++ S
Sbjct: 70 NCAHSFCSYCINEWMKRKIECPICRKDIKS 99
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger
Protein 107
Length = 77
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 2/46 (4%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVGMG-NAVPEGD-WFCHDC 142
C VC G ++ LLCD C+ A H YC+ + VPE + W+C C
Sbjct: 29 CRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSC 74
>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 = 35.0 bits (79), Expect = 0.14, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 9 CGICLMDEGKSIRGQIDSCDHYFCFVCIMEWAKIESKCPMC 49
CGIC E +I I C H +C +CI ++ +++CP C
Sbjct: 25 CGICF--EYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|3ZVY|A Chain A, Phd Finger Of Human Uhrf1 In Complex With Unmodified
Histone H3 N-Terminal Tail
pdb|3ZVY|B Chain B, Phd Finger Of Human Uhrf1 In Complex With Unmodified
Histone H3 N-Terminal Tail
Length = 72
Score = 34.7 bits (78), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVG--MGNAVPEGDWFCHDC 142
C++C G L+CD CD A H YC+ + + E +W+C +C
Sbjct: 23 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVGMG-NAVP-EGDWFCHDC 142
C++C G L+CD CD A H YC+ ++VP E +W+C +C
Sbjct: 29 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
>pdb|3T6R|A Chain A, Structure Of Uhrf1 In Complex With Unmodified H3
N-Terminal Tail
pdb|3T6R|B Chain B, Structure Of Uhrf1 In Complex With Unmodified H3
N-Terminal Tail
Length = 72
Score = 34.3 bits (77), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVG--MGNAVPEGDWFCHDC 142
C++C G L+CD CD A H YC+ + + E +W+C +C
Sbjct: 26 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
>pdb|2YSM|A Chain A, Solution Structure Of The First And Second Phd Domain From
MyeloidLYMPHOID OR MIXED-Lineage Leukemia Protein 3
Homolog
Length = 111
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCV-GMGNAVPEGDWFCHDCTV 144
C C+ + +S +L+CD CD HT+C+ + +VP W C +C +
Sbjct: 57 CQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNCRI 103
>pdb|2LGG|A Chain A, Structure Of Phd Domain Of Uhrf1 In Complex With H3
Peptide
pdb|2LGK|A Chain A, Nmr Structure Of Uhrf1 Phd Domains In A Complex With
Histone H3 Peptide
pdb|2LGL|A Chain A, Nmr Structure Of The Uhrf1 Phd Domain
Length = 69
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVG--MGNAVPEGDWFCHDC 142
C++C G L+CD CD A H YC+ + + E +W+C +C
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|3SOU|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
1-9 Peptide
pdb|3SOU|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
1-9 Peptide
pdb|3SOW|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOW|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOX|A Chain A, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3SOX|B Chain B, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3ASL|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
Length = 70
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVG--MGNAVPEGDWFCHDC 142
C++C G L+CD CD A H YC+ + + E +W+C +C
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 33.1 bits (74), Expect = 0.46, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYC-VGMGNAVPEGDWFCHDCTV 144
C VC + LL CD CD H +C + +P G W C C +
Sbjct: 19 CQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCIL 65
>pdb|2K16|A Chain A, Solution Structure Of The Free Taf3 Phd Domain
pdb|2K17|A Chain A, Solution Structure Of The Taf3 Phd Domain In Complex With
A H3k4me3 Peptide
Length = 75
Score = 33.1 bits (74), Expect = 0.47, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVGMGNAVPEG-DWFCHDC 142
C C S ++ CD CD H CVG+ A PE WFC C
Sbjct: 21 CPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKC 65
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 33.1 bits (74), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 9 CGICL--MDEGKSIRGQIDSCDHYFCFVCIMEWAKIESKCPMCK 50
C ICL ++EG+ +R C H F VC+ +W KCP+C+
Sbjct: 17 CTICLSILEEGEDVRRL--PCMHLFHQVCVDQWLITNKKCPICR 58
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 32.7 bits (73), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 4/48 (8%)
Query: 9 CGICLMDE--GKSIRGQIDSCDHYFCFVCIMEWAKIESKCPMCKRRFT 54
C +C D G+S+R Q+ C+H F CI+ W + CP+C++ T
Sbjct: 18 CPVCKEDYALGESVR-QL-PCNHLFHDSCIVPWLEQHDSCPVCRKSLT 63
>pdb|1MM2|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b
pdb|2L75|A Chain A, Solution Structure Of Chd4-Phd2 In Complex With H3k9me3
Length = 61
Score = 32.3 bits (72), Expect = 0.85, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVGMG-NAVPEGDWFCHDCT 143
C VC+ LL CD C ++ H +C+ +P G+W C CT
Sbjct: 12 CRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCT 54
>pdb|1MM3|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b With C-
Terminal Loop Replaced By Corresponding Loop From Wstf
Length = 61
Score = 32.3 bits (72), Expect = 0.98, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVGMG-NAVPEGDWFCHDCT 143
C VC+ LL CD C ++ H +C+ VP+G+W C CT
Sbjct: 12 CRVCKDG---GELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRCT 54
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 32.0 bits (71), Expect = 1.1, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 8/50 (16%)
Query: 9 CGICLMDEGKSIRGQIDS-CDHYFCFVCIMEW---AKIESKCPMCKRRFT 54
C ICL + I+ + + CDH FC C+++ K S+CP+CK T
Sbjct: 24 CPICL----ELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT 69
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 35/77 (45%), Gaps = 4/77 (5%)
Query: 4 LHSR-SCGICLMDEGKSIRGQIDSCDHYFCFVCIMEWAKIESK-CPMCKRRFTSIRRPPK 61
LHS C ICL D K+ C H FC CI+ + +K CP C+++ S R
Sbjct: 51 LHSELMCPICL-DMLKNTMT-TKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRP 108
Query: 62 DGVFPRERFVVVPKRDQ 78
D F + P RD+
Sbjct: 109 DPNFDALISKIYPSRDE 125
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 31.2 bits (69), Expect = 1.8, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVGMG-NAVPEGDWFCHDC 142
C VCQ ++LCD C A H C+ PEG W C C
Sbjct: 14 CEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHC 55
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 20/41 (48%)
Query: 9 CGICLMDEGKSIRGQIDSCDHYFCFVCIMEWAKIESKCPMC 49
C +CL D I C H F C+++W ++ CP+C
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 24 IDSCDHYFCFVCIMEWAKIESKCPMCKRRFT 54
I C H FC CI +W+ CP+C+ + T
Sbjct: 29 ILPCAHSFCQKCIDKWSDRHRNCPICRLQMT 59
>pdb|2PUY|A Chain A, Crystal Structure Of The Bhc80 Phd Finger
pdb|2PUY|B Chain B, Crystal Structure Of The Bhc80 Phd Finger
Length = 60
Score = 30.4 bits (67), Expect = 3.3, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYCVGMG-NAVPEGDWFCHDC 142
C+VC+ + LL+CD C H C+ +P+G W C C
Sbjct: 8 CSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 49
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 30.4 bits (67), Expect = 3.4, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 19/39 (48%)
Query: 24 IDSCDHYFCFVCIMEWAKIESKCPMCKRRFTSIRRPPKD 62
+ C HYFC C +E + +C +C + I P K+
Sbjct: 30 VTKCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAKE 68
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 30.4 bits (67), Expect = 3.7, Method: Composition-based stats.
Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 9/53 (16%)
Query: 9 CGICLMDEGKSIRGQIDSCDHYFCFVCIMEWAKIES---KCPMCKRRFTSIRR 58
C ICL K + ID C H FC CI + + KCP+CK TS+R+
Sbjct: 23 CPICLDILQKPV--TID-CGHNFCLKCITQIGETSCGFFKCPLCK---TSVRK 69
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 9 CGICLMDEGKSIRGQIDSCDHYFCFVCIMEWAKIESKCPMCK 50
C +C+ D ++ C+H F C+ +W K CP+C+
Sbjct: 26 CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 30.0 bits (66), Expect = 4.1, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 27 CDHYFCFVCIMEWAKIESKCPMCKRRF 53
C+H F F CI W K CP+ R +
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPLDNREW 110
>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 = 30.0 bits (66), Expect = 4.2, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 27 CDHYFCFVCIMEWAKIESKCPMCKRRF 53
C+H F F CI W K CP+ R +
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPLDNREW 83
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 30.0 bits (66), Expect = 4.3, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 9 CGICL--MDEGKSIRGQIDSCDHYFCFVCIMEWAKIESKCPMCK 50
C +CL +++G+ R + C H F C+ W S CP+C+
Sbjct: 8 CAVCLAELEDGEEARF-LPRCGHGFHAECVDMWLGSHSTCPLCR 50
>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 = 30.0 bits (66), Expect = 4.6, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 27 CDHYFCFVCIMEWAKIESKCPMCKRRF 53
C+H F F CI W K CP+ R +
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPLDNREW 91
>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 = 30.0 bits (66), Expect = 4.8, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 27 CDHYFCFVCIMEWAKIESKCPMCKRRF 53
C+H F F CI W K CP+ R +
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPLDNREW 101
>pdb|4B2U|A Chain A, S67, A Spider Venom Toxin Peptide From Sicarius
Dolichocephalus
Length = 36
Score = 29.6 bits (65), Expect = 5.5, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 14/23 (60%), Gaps = 3/23 (13%)
Query: 123 TYCVGMGNAVP---EGDWFCHDC 142
TYC+ +G P EGDW CH C
Sbjct: 2 TYCIELGERCPNPREGDWCCHKC 24
>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 = 29.6 bits (65), Expect = 5.7, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 19/45 (42%)
Query: 9 CGICLMDEGKSIRGQIDSCDHYFCFVCIMEWAKIESKCPMCKRRF 53
C IC + K C HYF C+ W + CP+C+ F
Sbjct: 43 CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMF 87
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 29.3 bits (64), Expect = 7.0, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 24 IDSCDHYFCFVCIMEWAKIESKCPMC 49
I C H FC CI+ + + CP+C
Sbjct: 27 IIECLHSFCKTCIVRYLETSKYCPIC 52
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 29.3 bits (64), Expect = 7.9, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 24 IDSCDHYFCFVCIMEWAKIESKCPMC 49
I C H FC CI+ + + CP+C
Sbjct: 31 IIECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 29.3 bits (64), Expect = 8.3, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 24 IDSCDHYFCFVCIMEWAKIESKCPMC 49
I C H FC CI+ + + CP+C
Sbjct: 31 IIECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|3U5M|A Chain A, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|B Chain B, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|C Chain C, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|D Chain D, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|E Chain E, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|F Chain F, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|G Chain G, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|H Chain H, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|I Chain I, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|J Chain J, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|K Chain K, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|L Chain L, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5N|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5N|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5O|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5P|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
Length = 207
Score = 28.9 bits (63), Expect = 8.9, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 99 CNVCQGTTYESLLLLCDLCDTASHTYC-VGMGNAVPEGDWFCHDC 142
C VCQ LL C+ C H C V + P GDW C C
Sbjct: 10 CAVCQNG---GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC 51
>pdb|2G2R|H Chain H, Green-Fluorescent Antibody 11g10 In Complex With Its
Hapten (Nitro-Stilbene Derivative)
pdb|2G2R|B Chain B, Green-Fluorescent Antibody 11g10 In Complex With Its
Hapten (Nitro-Stilbene Derivative)
Length = 219
Score = 28.9 bits (63), Expect = 9.9, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 4/42 (9%)
Query: 77 DQIYGGFG----IASSRTADPYAYVRCNVCQGTTYESLLLLC 114
D++Y G G +++++T P Y VC GTT S+ L C
Sbjct: 104 DRVYWGHGTLVTVSTAKTTAPSVYPLAPVCGGTTGSSVTLGC 145
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
0.316 0.130 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,945,680
Number of Sequences: 62578
Number of extensions: 803924
Number of successful extensions: 2140
Number of sequences better than 100.0: 77
Number of HSP's better than 100.0 without gapping: 43
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 2084
Number of HSP's gapped (non-prelim): 82
length of query: 673
length of database: 14,973,337
effective HSP length: 105
effective length of query: 568
effective length of database: 8,402,647
effective search space: 4772703496
effective search space used: 4772703496
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)