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= 044489
(207 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 64.3 bits (155), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 30/65 (46%), Positives = 43/65 (66%), Gaps = 10/65 (15%)
Query: 112 GDSGRLP----KPND-----STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINAT 162
G SG+LP PN+ + C +C+C++ ++ LR +P CNH FHA C+D+WLK N T
Sbjct: 4 GSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRT 62
Query: 163 CPLCR 167
CP+CR
Sbjct: 63 CPICR 67
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 57.8 bits (138), Expect = 4e-09, Method: Composition-based stats.
Identities = 22/43 (51%), Positives = 28/43 (65%)
Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
C +CL E E R +P+C H FHA C+D WL ++TCPLCR
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT 177
CP+C +Y E++R +P CNH FH CI WL+ + +CP+CR S + T
Sbjct: 18 CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTAT 69
>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 = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 41/69 (59%), Gaps = 4/69 (5%)
Query: 100 KPTIESYPKTILG-DSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK 158
K +I++ P+ ++ D G + + + CPIC EY + +P C+HYFH C+ WL+
Sbjct: 19 KESIDALPEILVTEDHGAVGQ--EMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQ 75
Query: 159 INATCPLCR 167
+ TCP+CR
Sbjct: 76 KSGTCPVCR 84
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE 171
C ICL E +R +P C H FH +C+D+WL N CP+CR E
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIE 62
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 2/56 (3%)
Query: 112 GDSGRLPKPN-DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLC 166
G SG++ + N C +CL ++ P++ L P C H FH C+ +WL++ CPLC
Sbjct: 4 GSSGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 42.0 bits (97), Expect = 2e-04, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 24/49 (48%)
Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169
+ CPICL + H + + C H H C +E LK CPLC +S
Sbjct: 4 SQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 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 = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 22/48 (45%)
Query: 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN 168
S CPICL + H + + C H H C +E LK CPLC
Sbjct: 4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 40/100 (40%), Gaps = 19/100 (19%)
Query: 68 FRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPI 127
F A Q +N + E ++Q K + S+ +L N+ C I
Sbjct: 14 FEAIIQAKNKELEQTKEEKEKMQA-------QKEEVLSHMNDVL--------ENELQCII 58
Query: 128 CLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
C + TL C H F + CI+EW+K CP+CR
Sbjct: 59 CSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICR 94
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 40/100 (40%), Gaps = 19/100 (19%)
Query: 68 FRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPI 127
F A Q +N + E ++Q K + S+ +L N+ C I
Sbjct: 14 FEAIIQAKNKELEQTKEEKEKMQA-------QKEEVLSHMNDVL--------ENELQCII 58
Query: 128 CLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
C + TL C H F + CI+EW+K CP+CR
Sbjct: 59 CSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICR 94
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 40/100 (40%), Gaps = 19/100 (19%)
Query: 68 FRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPI 127
F A Q +N + E ++Q K + S+ +L N+ C I
Sbjct: 25 FEAIIQAKNKELEQTKEEKEKMQA-------QKEEVLSHMNDVL--------ENELQCII 69
Query: 128 CLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
C + TL C H F + CI+EW+K CP+CR
Sbjct: 70 CSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICR 105
>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 = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN 172
CPICL P ++P C H F +CI W++ N TCPLC+ E+
Sbjct: 8 CPICL--EDPSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES 52
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 34.7 bits (78), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%)
Query: 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
C C E ++ + +CNH FH C+ W+K N CPLC+
Sbjct: 27 DACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>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 = 0.14, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 16/32 (50%)
Query: 134 PKETLRSIPKCNHYFHAICIDEWLKINATCPL 165
+E + CNH FH CI WLK CPL
Sbjct: 74 SEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 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 = 0.15, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 13/22 (59%)
Query: 144 CNHYFHAICIDEWLKINATCPL 165
CNH FH CI WLK CPL
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 32.7 bits (73), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 13/22 (59%)
Query: 144 CNHYFHAICIDEWLKINATCPL 165
CNH FH CI WLK CPL
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>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 = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 13/22 (59%)
Query: 144 CNHYFHAICIDEWLKINATCPL 165
CNH FH CI WLK CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 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 = 0.17, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 13/22 (59%)
Query: 144 CNHYFHAICIDEWLKINATCPL 165
CNH FH CI WLK CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 32.3 bits (72), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 13/22 (59%)
Query: 144 CNHYFHAICIDEWLKINATCPL 165
CNH FH CI WLK CPL
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>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 = 0.23, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 13/22 (59%)
Query: 144 CNHYFHAICIDEWLKINATCPL 165
CNH FH CI WLK CPL
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 112 GDSGRLPKPNDST-CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
G SGR+ + D C IC+ + L I C H F CID+W + CP+CR
Sbjct: 4 GSSGRVKQLTDEEECCICM---DGRADL--ILPCAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 10/79 (12%)
Query: 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSSIKR 184
C IC EY + IP+C+H + ++CI ++L CP C V +K
Sbjct: 25 CGICF-EYFNIAMI--IPQCSHNYCSLCIRKFLSYKTQCPTC-------CVTVTEPDLKN 74
Query: 185 GRKRPSLINGAVLAKSPAL 203
R L+ A++ L
Sbjct: 75 NRILDELVKSLNFARNHLL 93
>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 = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 27/59 (45%), Gaps = 4/59 (6%)
Query: 112 GDSGRLPKPNDSTCPICLCEYHP---KETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
G +G P S CPIC+ Y L +C H F + C+ + LK TCP CR
Sbjct: 1 GTTGLRPSGTVS-CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58
>pdb|2QNL|A Chain A, Crystal Structure Of A Putative Dna Damage-Inducible
Protein (Chu_0679) From Cytophaga Hutchinsonii Atcc
33406 At 1.50 A Resolution
Length = 162
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 4/28 (14%)
Query: 80 ELGTSITPQLQPAFV----PTGLDKPTI 103
ELG ++ PQL P F+ +GL+KP I
Sbjct: 66 ELGDTLYPQLAPVFIQNPDKSGLEKPEI 93
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 124 TCPICLCEYHP---KETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
+CPIC+ Y L +C H F + C+ + LK TCP CR
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>pdb|2VSK|A Chain A, Hendra Virus Attachment Glycoprotein In Complex With Human
Cell Surface Receptor Ephrinb2
pdb|2VSK|C Chain C, Hendra Virus Attachment Glycoprotein In Complex With Human
Cell Surface Receptor Ephrinb2
Length = 416
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 29/72 (40%), Gaps = 9/72 (12%)
Query: 93 FVPTGLDKPTIESYPKTILGDSGRLPKP----NDSTCPICLCEYHPKETLRSIPKCNHYF 148
+ P+G+ + +P G LP+ NDS CPI C+Y E R N
Sbjct: 164 YGPSGIKQGDTLYFPAV-----GFLPRTEFQYNDSNCPIIHCKYSKAENCRLSMGVNSKS 218
Query: 149 HAICIDEWLKIN 160
H I LK N
Sbjct: 219 HYILRSGLLKYN 230
>pdb|2X9M|A Chain A, Hendra Virus Attachment Glycoprotein
pdb|2X9M|B Chain B, Hendra Virus Attachment Glycoprotein
pdb|2X9M|C Chain C, Hendra Virus Attachment Glycoprotein
pdb|2X9M|D Chain D, Hendra Virus Attachment Glycoprotein
Length = 420
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 29/72 (40%), Gaps = 9/72 (12%)
Query: 93 FVPTGLDKPTIESYPKTILGDSGRLPKP----NDSTCPICLCEYHPKETLRSIPKCNHYF 148
+ P+G+ + +P G LP+ NDS CPI C+Y E R N
Sbjct: 167 YGPSGIKQGDTLYFPAV-----GFLPRTEFQYNDSNCPIIHCKYSKAENCRLSMGVNSKS 221
Query: 149 HAICIDEWLKIN 160
H I LK N
Sbjct: 222 HYILRSGLLKYN 233
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 124 TCPICLCEYHP---KETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
+CPIC+ Y L +C H F + C+ + LK TCP CR
Sbjct: 9 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 124 TCPICLCEYHP---KETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
+CPIC+ Y L +C H F + C+ + LK TCP CR
Sbjct: 74 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 27.7 bits (60), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 124 TCPICLCEYHP---KETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167
+CPIC+ Y L +C H F + C+ + LK TCP CR
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51
>pdb|2D8S|A Chain A, Solution Structure Of The Ring Domain Of The Human
Cellular Modulator Of Immune Recognition Protein
Length = 80
Score = 27.3 bits (59), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 125 CPICLCEYHPKETLRSIPKCN---HYFHAICIDEWLKINAT--CPLCR 167
C IC CE + L + C H+ H C+ +W+K + T C LC+
Sbjct: 18 CRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCK 65
>pdb|2F6J|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6N|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2F6N|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2FSA|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
Length = 174
Score = 26.9 bits (58), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 30/68 (44%), Gaps = 6/68 (8%)
Query: 127 ICLCEYHPKETLRSIPKCNHYFHAICI-----DEWLKINATCPLCRNSRENSSVVTP-SS 180
IC Y + +C +++H C+ + L CP C+++ + +V+TP +
Sbjct: 12 ICKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTEDAXTVLTPLTE 71
Query: 181 SIKRGRKR 188
G KR
Sbjct: 72 KDYEGLKR 79
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 26.6 bits (57), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 30/68 (44%), Gaps = 6/68 (8%)
Query: 127 ICLCEYHPKETLRSIPKCNHYFHAICI-----DEWLKINATCPLCRNSRENSSVVTP-SS 180
IC Y + +C +++H C+ + L CP C+++ + +V+TP +
Sbjct: 12 ICKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTEDAMTVLTPLTE 71
Query: 181 SIKRGRKR 188
G KR
Sbjct: 72 KDYEGLKR 79
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
0.323 0.137 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,451,997
Number of Sequences: 62578
Number of extensions: 193613
Number of successful extensions: 393
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 356
Number of HSP's gapped (non-prelim): 41
length of query: 207
length of database: 14,973,337
effective HSP length: 94
effective length of query: 113
effective length of database: 9,091,005
effective search space: 1027283565
effective search space used: 1027283565
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)