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= 004418
(754 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PB7|A Chain A, Crystal Structure Of The Sra Domain Of The Human Uhrf1
Protein
Length = 239
Score = 176 bits (445), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 99/202 (49%), Positives = 122/202 (60%), Gaps = 27/202 (13%)
Query: 257 VTIPPDHFGPIPAENDPERNQGVLVGECWEDRLECRQWGAHFPHVAGIAGQSNYGSQSVA 316
+P +H+GPIP G+ VG W R++ + G H PHVAGI G+SN G+ S+
Sbjct: 7 TIVPSNHYGPIP---------GIPVGTMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLV 57
Query: 317 LSGGYEDDEDHGEWFLYTGSGGRDLSGNKRTNKEQSFDQKFEKMNEALRVSC-------- 368
L+GGYEDD DHG +F YTGSGGRDLSGNKRT EQS DQK N AL ++C
Sbjct: 58 LAGGYEDDVDHGNFFTYTGSGGRDLSGNKRT-AEQSCDQKLTNTNRALALNCFAPINDQE 116
Query: 369 -------KKGYPVRVVRSHK-EKRSSYAPEKGVRYDGVYRIEKCWRKIGIQGFKVCRYLF 420
+ G PVRVVR+ K K S YAP +G RYDG+Y++ K W + G GF V RYL
Sbjct: 117 GAEAKDWRSGKPVRVVRNVKGGKNSKYAPAEGNRYDGIYKVVKYWPEKGKSGFLVWRYLL 176
Query: 421 VRCDNEPAPWTSDEFGDRPRSL 442
R D+EP PWT E DR + L
Sbjct: 177 RRDDDEPGPWTK-EGKDRIKKL 197
>pdb|3F8J|B Chain B, Mouse Uhrf1 Sra Domain Bound With Hemi-methylated Cpg,
Crystal Structure In Space Group C222(1)
Length = 212
Score = 175 bits (444), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 100/199 (50%), Positives = 121/199 (60%), Gaps = 26/199 (13%)
Query: 259 IPPDHFGPIPAENDPERNQGVLVGECWEDRLECRQWGAHFPHVAGIAGQSNYGSQSVALS 318
+P +HFGPIP GV VG W R++ + G H PHVAGI G+SN G+ S+ L+
Sbjct: 2 VPANHFGPIP---------GVPVGTMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLA 52
Query: 319 GGYEDDEDHGEWFLYTGSGGRDLSGNKRTNKEQSFDQKFEKMNEALRVSC---------- 368
GGYEDD D+G +F YTGSGGRDLSGNKRT QS DQK N AL ++C
Sbjct: 53 GGYEDDVDNGNYFTYTGSGGRDLSGNKRT-AGQSSDQKLTNNNRALALNCHSPINEKGAE 111
Query: 369 ----KKGYPVRVVRSHK-EKRSSYAPEKGVRYDGVYRIEKCWRKIGIQGFKVCRYLFVRC 423
++G PVRVVR+ K K S YAP +G RYDG+Y++ K W + G GF V RYL R
Sbjct: 112 AEDWRQGKPVRVVRNMKGGKHSKYAPAEGNRYDGIYKVVKYWPERGKSGFLVWRYLLRRD 171
Query: 424 DNEPAPWTSDEFGDRPRSL 442
D EP PWT E DR R L
Sbjct: 172 DTEPEPWTR-EGKDRTRQL 189
>pdb|2ZO0|B Chain B, Mouse Np95 Sra Domain Dna Specific Complex 1
pdb|2ZO1|B Chain B, Mouse Np95 Sra Domain Dna Specific Complex 2
pdb|2ZO2|B Chain B, Mouse Np95 Sra Domain Non-Specific Dna Complex
pdb|3F8I|A Chain A, Mouse Uhrf1 Sra Domain Bound With Hemi-Methylated Cpg,
Crystal Structure In Space Group P21
pdb|3F8I|B Chain B, Mouse Uhrf1 Sra Domain Bound With Hemi-Methylated Cpg,
Crystal Structure In Space Group P21
pdb|3FDE|A Chain A, Mouse Uhrf1 Sra Domain Bound With Hemi-Methylated Cpg Dna,
Crystal Structure In Space Group C222(1) At 1.4 A
Resolution
pdb|3FDE|B Chain B, Mouse Uhrf1 Sra Domain Bound With Hemi-Methylated Cpg Dna,
Crystal Structure In Space Group C222(1) At 1.4 A
Resolution
Length = 212
Score = 175 bits (443), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 100/199 (50%), Positives = 121/199 (60%), Gaps = 26/199 (13%)
Query: 259 IPPDHFGPIPAENDPERNQGVLVGECWEDRLECRQWGAHFPHVAGIAGQSNYGSQSVALS 318
+P +HFGPIP GV VG W R++ + G H PHVAGI G+SN G+ S+ L+
Sbjct: 2 MPANHFGPIP---------GVPVGTMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLA 52
Query: 319 GGYEDDEDHGEWFLYTGSGGRDLSGNKRTNKEQSFDQKFEKMNEALRVSC---------- 368
GGYEDD D+G +F YTGSGGRDLSGNKRT QS DQK N AL ++C
Sbjct: 53 GGYEDDVDNGNYFTYTGSGGRDLSGNKRT-AGQSSDQKLTNNNRALALNCHSPINEKGAE 111
Query: 369 ----KKGYPVRVVRSHK-EKRSSYAPEKGVRYDGVYRIEKCWRKIGIQGFKVCRYLFVRC 423
++G PVRVVR+ K K S YAP +G RYDG+Y++ K W + G GF V RYL R
Sbjct: 112 AEDWRQGKPVRVVRNMKGGKHSKYAPAEGNRYDGIYKVVKYWPERGKSGFLVWRYLLRRD 171
Query: 424 DNEPAPWTSDEFGDRPRSL 442
D EP PWT E DR R L
Sbjct: 172 DTEPEPWTR-EGKDRTRQL 189
>pdb|2ZKD|A Chain A, Crystal Structure Of The Sra Domain Of Mouse Np95 In
Complex With Hemi-Methylated Cpg Dna
pdb|2ZKD|B Chain B, Crystal Structure Of The Sra Domain Of Mouse Np95 In
Complex With Hemi-Methylated Cpg Dna
pdb|2ZKE|A Chain A, Crystal Structure Of The Sra Domain Of Mouse Np95 In
Complex With Hemi-Methylated Cpg Dna
pdb|2ZKF|A Chain A, Crystal Structure Of The Sra Domain Of Mouse Np95 In
Complex With Hemi-Methylated Cpg Dna
pdb|2ZKG|A Chain A, Crystal Structure Of Unliganded Sra Domain Of Mouse Np95
pdb|2ZKG|B Chain B, Crystal Structure Of Unliganded Sra Domain Of Mouse Np95
pdb|2ZKG|C Chain C, Crystal Structure Of Unliganded Sra Domain Of Mouse Np95
pdb|2ZKG|D Chain D, Crystal Structure Of Unliganded Sra Domain Of Mouse Np95
Length = 210
Score = 175 bits (443), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 100/199 (50%), Positives = 121/199 (60%), Gaps = 26/199 (13%)
Query: 259 IPPDHFGPIPAENDPERNQGVLVGECWEDRLECRQWGAHFPHVAGIAGQSNYGSQSVALS 318
+P +HFGPIP GV VG W R++ + G H PHVAGI G+SN G+ S+ L+
Sbjct: 15 VPANHFGPIP---------GVPVGTMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLA 65
Query: 319 GGYEDDEDHGEWFLYTGSGGRDLSGNKRTNKEQSFDQKFEKMNEALRVSC---------- 368
GGYEDD D+G +F YTGSGGRDLSGNKRT QS DQK N AL ++C
Sbjct: 66 GGYEDDVDNGNYFTYTGSGGRDLSGNKRT-AGQSSDQKLTNNNRALALNCHSPINEKGAE 124
Query: 369 ----KKGYPVRVVRSHK-EKRSSYAPEKGVRYDGVYRIEKCWRKIGIQGFKVCRYLFVRC 423
++G PVRVVR+ K K S YAP +G RYDG+Y++ K W + G GF V RYL R
Sbjct: 125 AEDWRQGKPVRVVRNMKGGKHSKYAPAEGNRYDGIYKVVKYWPERGKSGFLVWRYLLRRD 184
Query: 424 DNEPAPWTSDEFGDRPRSL 442
D EP PWT E DR R L
Sbjct: 185 DTEPEPWTR-EGKDRTRQL 202
>pdb|3CLZ|A Chain A, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
pdb|3CLZ|B Chain B, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
pdb|3CLZ|C Chain C, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
pdb|3CLZ|D Chain D, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
Length = 212
Score = 175 bits (443), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 99/200 (49%), Positives = 122/200 (61%), Gaps = 27/200 (13%)
Query: 259 IPPDHFGPIPAENDPERNQGVLVGECWEDRLECRQWGAHFPHVAGIAGQSNYGSQSVALS 318
+P +H+GPIP G+ VG W R++ + G H PHVAGI G+SN G+ S+ L+
Sbjct: 1 MPSNHYGPIP---------GIPVGTMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLA 51
Query: 319 GGYEDDEDHGEWFLYTGSGGRDLSGNKRTNKEQSFDQKFEKMNEALRVSC---------- 368
GGYEDD DHG +F YTGSGGRDLSGNKRT EQS DQK N AL ++C
Sbjct: 52 GGYEDDVDHGNFFTYTGSGGRDLSGNKRT-AEQSCDQKLTNTNRALALNCFAPINDQEGA 110
Query: 369 -----KKGYPVRVVRSHK-EKRSSYAPEKGVRYDGVYRIEKCWRKIGIQGFKVCRYLFVR 422
+ G PVRVVR+ K K S YAP +G RYDG+Y++ K W + G GF V RYL R
Sbjct: 111 EAKDWRSGKPVRVVRNVKGGKNSKYAPAEGNRYDGIYKVVKYWPEKGKSGFLVWRYLLRR 170
Query: 423 CDNEPAPWTSDEFGDRPRSL 442
D+EP PWT E DR + L
Sbjct: 171 DDDEPGPWTK-EGKDRIKKL 189
>pdb|3DWH|A Chain A, Structural And Functional Analysis Of Sra Domain
Length = 208
Score = 174 bits (442), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 99/200 (49%), Positives = 122/200 (61%), Gaps = 27/200 (13%)
Query: 259 IPPDHFGPIPAENDPERNQGVLVGECWEDRLECRQWGAHFPHVAGIAGQSNYGSQSVALS 318
+P +H+GPIP G+ VG W R++ + G H PHVAGI G+SN G+ S+ L+
Sbjct: 4 MPSNHYGPIP---------GIPVGTMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLA 54
Query: 319 GGYEDDEDHGEWFLYTGSGGRDLSGNKRTNKEQSFDQKFEKMNEALRVSC---------- 368
GGYEDD DHG +F YTGSGGRDLSGNKRT EQS DQK N AL ++C
Sbjct: 55 GGYEDDVDHGNFFTYTGSGGRDLSGNKRT-AEQSCDQKLTNTNRALALNCFAPINDQEGA 113
Query: 369 -----KKGYPVRVVRSHK-EKRSSYAPEKGVRYDGVYRIEKCWRKIGIQGFKVCRYLFVR 422
+ G PVRVVR+ K K S YAP +G RYDG+Y++ K W + G GF V RYL R
Sbjct: 114 EAKDWRSGKPVRVVRNVKGGKNSKYAPAEGNRYDGIYKVVKYWPEKGKSGFLVWRYLLRR 173
Query: 423 CDNEPAPWTSDEFGDRPRSL 442
D+EP PWT E DR + L
Sbjct: 174 DDDEPGPWTK-EGKDRIKKL 192
>pdb|3BI7|A Chain A, Crystal Structure Of The Sra Domain Of E3
Ubiquitin-Protein Ligase Uhrf1
Length = 212
Score = 174 bits (441), Expect = 2e-43, Method: Composition-based stats.
Identities = 99/199 (49%), Positives = 121/199 (60%), Gaps = 27/199 (13%)
Query: 260 PPDHFGPIPAENDPERNQGVLVGECWEDRLECRQWGAHFPHVAGIAGQSNYGSQSVALSG 319
P +H+GPIP G+ VG W R++ + G H PHVAGI G+SN G+ S+ L+G
Sbjct: 2 PSNHYGPIP---------GIPVGTXWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLAG 52
Query: 320 GYEDDEDHGEWFLYTGSGGRDLSGNKRTNKEQSFDQKFEKMNEALRVSC----------- 368
GYEDD DHG +F YTGSGGRDLSGNKRT EQS DQK N AL ++C
Sbjct: 53 GYEDDVDHGNFFTYTGSGGRDLSGNKRT-AEQSCDQKLTNTNRALALNCFAPINDQEGAE 111
Query: 369 ----KKGYPVRVVRSHK-EKRSSYAPEKGVRYDGVYRIEKCWRKIGIQGFKVCRYLFVRC 423
+ G PVRVVR+ K K S YAP +G RYDG+Y++ K W + G GF V RYL R
Sbjct: 112 AKDWRSGKPVRVVRNVKGGKNSKYAPAEGNRYDGIYKVVKYWPEKGKSGFLVWRYLLRRD 171
Query: 424 DNEPAPWTSDEFGDRPRSL 442
D+EP PWT E DR + L
Sbjct: 172 DDEPGPWTK-EGKDRIKKL 189
>pdb|3OLN|A Chain A, Crystal Structure Of The Sra Domain Of E3
Ubiquitin-Protein Ligase Uhrf2
pdb|3OLN|B Chain B, Crystal Structure Of The Sra Domain Of E3
Ubiquitin-Protein Ligase Uhrf2
Length = 231
Score = 157 bits (398), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 94/224 (41%), Positives = 128/224 (57%), Gaps = 30/224 (13%)
Query: 238 TTERAQKTGKANAASGKIF--VTIPPDHFGPIPAENDPERNQGVLVGECWEDRLECRQWG 295
+TE + G+ A G+ +P +H+GPIP G+ VG W R++ + G
Sbjct: 2 STESRRDWGRGMACVGRTRECTIVPSNHYGPIP---------GIPVGSTWRFRVQVSEAG 52
Query: 296 AHFPHVAGIAGQSNYGSQSVALSGGYEDDEDHGEWFLYTGSGGRDLSGNKRTNKEQSFDQ 355
H PHV GI G+SN G+ S+ L+GG+ D+ D G+ F YTGSGG++L+GNKR S DQ
Sbjct: 53 VHRPHVGGIHGRSNDGAYSLVLAGGFADEVDRGDEFTYTGSGGKNLAGNKRIG-APSADQ 111
Query: 356 KFEKMNEALRVSC---------------KKGYPVRVVRSHKEKR-SSYAPEKGVRYDGVY 399
MN AL ++C + G PVRV+RS K ++ S YAPE+G RYDG+Y
Sbjct: 112 TLTNMNRALALNCDAPLDDKIGAESRNWRAGKPVRVIRSFKGRKISKYAPEEGNRYDGIY 171
Query: 400 RIEKCWRKI-GIQGFKVCRYLFVRCDNEPAPWTSDEFGDRPRSL 442
++ K W +I GF V RYL R D EPAPWTS+ +R R L
Sbjct: 172 KVVKYWPEISSSHGFLVWRYLLRRDDVEPAPWTSEGI-ERSRRL 214
>pdb|3Q0C|X Chain X, Crystal Structure Of Suvh5 Sra-Fully Methylated Cg Dna
Complex In Space Group P6122
pdb|3Q0C|A Chain A, Crystal Structure Of Suvh5 Sra-Fully Methylated Cg Dna
Complex In Space Group P6122
pdb|3Q0F|X Chain X, Crystal Structure Of Suvh5 Sra- Methylated Chh Dna Complex
pdb|3Q0F|A Chain A, Crystal Structure Of Suvh5 Sra- Methylated Chh Dna Complex
pdb|3Q0D|X Chain X, Crystal Structure Of Suvh5 Sra- Hemi Methylated Cg Dna
Complex
pdb|3Q0D|A Chain A, Crystal Structure Of Suvh5 Sra- Hemi Methylated Cg Dna
Complex
Length = 167
Score = 79.7 bits (195), Expect = 5e-15, Method: Composition-based stats.
Identities = 56/159 (35%), Positives = 78/159 (49%), Gaps = 9/159 (5%)
Query: 278 GVLVGECWEDRLECRQWGAHFPHVAGIAGQSNYGSQSVALS----GGYEDDEDHGEWFLY 333
GV VG+ ++ R+E G H P +GI + G + VA S GGY D D+ + +Y
Sbjct: 8 GVEVGDEFQYRMELNLLGIHRPSQSGIDYMKDDGGELVATSIVSSGGYNDVLDNSDVLIY 67
Query: 334 TGSGGRDLSGNKRTNKEQSFDQKFEKMNEALRVSCKKGYPVRVVRSHKEKR-SSYAPEKG 392
TG GG + K+ N E DQ+ N AL+ S K PVRV+R K S K
Sbjct: 68 TGQGG---NVGKKKNNEPPKDQQLVTGNLALKNSINKKNPVRVIRGIKNTTLQSSVVAKN 124
Query: 393 VRYDGVYRIEKCWRKIGIQGFKVCRYLFVRCDNEPA-PW 430
YDG+Y +E+ W + G G V ++ R +P PW
Sbjct: 125 YVYDGLYLVEEYWEETGSHGKLVFKFKLRRIPGQPELPW 163
>pdb|3Q0B|X Chain X, Crystal Structure Of Suvh5 Sra- Fully Methylated Cg Dna
Complex In Space Group P42212
Length = 167
Score = 78.2 bits (191), Expect = 2e-14, Method: Composition-based stats.
Identities = 56/159 (35%), Positives = 77/159 (48%), Gaps = 9/159 (5%)
Query: 278 GVLVGECWEDRLECRQWGAHFPHVAGIAGQSNYGSQSVALS----GGYEDDEDHGEWFLY 333
GV VG+ ++ R E G H P +GI + G + VA S GGY D D+ + +Y
Sbjct: 8 GVEVGDEFQYRXELNLLGIHRPSQSGIDYXKDDGGELVATSIVSSGGYNDVLDNSDVLIY 67
Query: 334 TGSGGRDLSGNKRTNKEQSFDQKFEKMNEALRVSCKKGYPVRVVRSHKEKR-SSYAPEKG 392
TG GG + K+ N E DQ+ N AL+ S K PVRV+R K S K
Sbjct: 68 TGQGG---NVGKKKNNEPPKDQQLVTGNLALKNSINKKNPVRVIRGIKNTTLQSSVVAKN 124
Query: 393 VRYDGVYRIEKCWRKIGIQGFKVCRYLFVRCDNEPA-PW 430
YDG+Y +E+ W + G G V ++ R +P PW
Sbjct: 125 YVYDGLYLVEEYWEETGSHGKLVFKFKLRRIPGQPELPW 163
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 43/88 (48%), Gaps = 19/88 (21%)
Query: 511 KLLKEFSCLICRQVMNLPITTPCAHNFCKSCLEGAFAGKTFVRERSRGGRTLRSQKNVMQ 570
K+ + F C+ C++++ PITT C HN CK CL+ R+ R+Q V
Sbjct: 48 KVEETFQCICCQELVFRPITTVCQHNVCKDCLD----------------RSFRAQ--VFS 89
Query: 571 CPSCPTDISEFLQNPQVNRELMDVIESL 598
CP+C D+ QVN+ L V+ L
Sbjct: 90 CPACRYDLGRSYAM-QVNQPLQTVLNQL 116
Score = 37.0 bits (84), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 2/61 (3%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMASQPRINSALVTA 205
C C +L RP+TT C HN C C + +C CR+ + A Q +N L T
Sbjct: 55 CICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQ--VNQPLQTV 112
Query: 206 I 206
+
Sbjct: 113 L 113
>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 = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 20/88 (22%)
Query: 510 EKLLKEFSCLICRQVMNLPITTPCAHNFCKSCLEGAFAGKTFVRERSRGGRTLRSQKNVM 569
+KL + F C+ C++++ P+TT C HN CK CL+ +F + F
Sbjct: 73 KKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVF------------------ 114
Query: 570 QCPSCPTDISE-FLQNP-QVNRELMDVI 595
CP+C D+ + ++ P ++ + L+D+
Sbjct: 115 SCPACRHDLGQNYIMIPNEILQTLLDLF 142
Score = 38.9 bits (89), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 21/41 (51%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCRH 186
C C +L +PVTT C HN C C Q+ +C CRH
Sbjct: 81 CVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRH 121
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 42.7 bits (99), Expect = 8e-04, Method: Composition-based stats.
Identities = 29/109 (26%), Positives = 48/109 (44%), Gaps = 21/109 (19%)
Query: 499 AIRQAQNTSVREKLLKEFSCLICRQVMNLPITTPCAHNFCKSCLEGAFAGKTFVRERSRG 558
A+R + +V + K C IC +++ P++T C H FCK C+
Sbjct: 5 ALRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCML--------------- 49
Query: 559 GRTLRSQKNVMQCPSCPTDIS-----EFLQNPQVNRELMDVIESLKHKT 602
+ L +K QCP C DI+ E + Q+ EL+ +I + + T
Sbjct: 50 -KLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEELLKIICAFQLDT 97
Score = 38.1 bits (87), Expect = 0.020, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQ--GKRTCAKCRHIIPPKMASQPRINSALV 203
C C++L + PV+T C H FC C K + Q G C C++ I + + S LV
Sbjct: 24 CPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLV 83
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 18/39 (46%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKC 184
C C+ + ++PVT CGHNFCLKC + IG+ KC
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQ-IGETSCGFFKC 60
Score = 37.4 bits (85), Expect = 0.033, Method: Composition-based stats.
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 511 KLLKEFSCLICRQVMNLPITTPCAHNFCKSCL 542
KL +E C IC ++ P+T C HNFC C+
Sbjct: 16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCI 47
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 18/39 (46%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKC 184
C C+ + ++PVT CGHNFCLKC + IG+ KC
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQ-IGETSCGFFKC 60
Score = 38.1 bits (87), Expect = 0.019, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 30/68 (44%), Gaps = 16/68 (23%)
Query: 511 KLLKEFSCLICRQVMNLPITTPCAHNFCKSCLEGAFAGKTFVRERSRGGRTLRSQKNVMQ 570
KL +E C IC ++ P+T C HNFC C+ T + E S G +
Sbjct: 16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCI-------TQIGETSCG---------FFK 59
Query: 571 CPSCPTDI 578
CP C T +
Sbjct: 60 CPLCKTSV 67
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 25/58 (43%)
Query: 145 NCSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMASQPRINSAL 202
C CM++ PVT PC H C CFQ + + C CR + R NS +
Sbjct: 17 QCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLV 74
Score = 37.7 bits (86), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 39/97 (40%), Gaps = 25/97 (25%)
Query: 513 LKEFSCLICRQVMNLPITTPCAHNFCKSCLEGAFAGKTFVRERSRGGRTLRSQKNVMQCP 572
L E C IC +++ P+T PC H CK C + +K + CP
Sbjct: 13 LSECQCGICMEILVEPVTLPCNHTLCKPCFQSTV------------------EKASLCCP 54
Query: 573 SCPTDISEFL-----QNPQVNRELMDVIESLKHKTEE 604
C +S + +N VN EL +I+ KH E
Sbjct: 55 FCRRRVSSWTRYHTRRNSLVNVELWTIIQ--KHYPRE 89
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 39.3 bits (90), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIP 189
C+ C+Q PV+ PC H FC C + GKR CA CR IP
Sbjct: 18 CAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKR-CALCRQEIP 60
Score = 33.1 bits (74), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 518 CLICRQVMNLPITTPCAHNFCKSCLEGA 545
C IC Q P++ PC H FC C++GA
Sbjct: 18 CAICLQTCVHPVSLPCKHVFCYLCVKGA 45
>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 = 38.1 bits (87), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 15 CMRCKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C C + P++ + C C +H+ CL P ++ S W CP+C
Sbjct: 177 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 222
>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 = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 15 CMRCKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C C + P++ + C C +H+ CL P ++ S W CP+C
Sbjct: 193 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 37.7 bits (86), Expect = 0.021, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 43/83 (51%), Gaps = 14/83 (16%)
Query: 514 KEFSCLICRQVMNLPITTPCAHNFCKSCLEGAFAGKTFVRERSRGGRTLRSQKNVMQCPS 573
+E +C IC +++ P++ C H+ C++C+ + K V S GG++ CP
Sbjct: 11 EEVTCPICLELLTEPLSLDCGHSLCRACI--TVSNKEAV--TSMGGKS--------SCPV 58
Query: 574 CPTDISEFLQNPQVNRELMDVIE 596
C IS ++ Q N+ L +++E
Sbjct: 59 C--GISYSFEHLQANQHLANIVE 79
Score = 29.6 bits (65), Expect = 7.1, Method: Composition-based stats.
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKC 169
C C++L P++ CGH+ C C
Sbjct: 15 CPICLELLTEPLSLDCGHSLCRAC 38
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 37.7 bits (86), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 145 NCSFCMQLPERPVTTPCGHNFCLKCFQKW 173
+CS C++ + PV CGHNFC C +W
Sbjct: 17 SCSVCLEYLKEPVIIECGHNFCKACITRW 45
Score = 36.2 bits (82), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%)
Query: 505 NTSVREKLLKEFSCLICRQVMNLPITTPCAHNFCKSCL 542
++ E L E SC +C + + P+ C HNFCK+C+
Sbjct: 5 SSGALENLQVEASCSVCLEYLKEPVIIECGHNFCKACI 42
>pdb|3KNV|A Chain A, Crystal Structure Of The Ring And First Zinc Finger
Domains Of Traf2
Length = 141
Score = 37.7 bits (86), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 19/41 (46%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCRH 186
CS C + RP CGH +C C + G + CA C H
Sbjct: 34 CSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQNCAACVH 74
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 506 TSVREKLLKEFSCLICRQVMNLPITTPCAHNFCKSCL 542
T + KL ++ C CR V+ P C H +C CL
Sbjct: 22 TLLGTKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCL 58
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 37.4 bits (85), Expect = 0.031, Method: Composition-based stats.
Identities = 35/114 (30%), Positives = 51/114 (44%), Gaps = 34/114 (29%)
Query: 512 LLKEFSCLICRQVMNLPITTPCAHNFCKSCLEGAFAGKTFVRERSRGGRTLRSQKNVM-- 569
+K SC IC ++ P+ T C H FC+ C+ LR K VM
Sbjct: 20 FVKSISCQICEHILADPVETSCKHLFCRICI-------------------LRCLK-VMGS 59
Query: 570 QCPSC-----PTDISEFLQNPQVNRELMDVIESLKHKTEENEDPPEELSDEEIN 618
CPSC PTD L++P + ++++ SL K +D EE+S E+ N
Sbjct: 60 YCPSCRYPCFPTD----LESPV--KSFLNILNSLMVKCPA-QDCNEEVSLEKYN 106
Score = 32.0 bits (71), Expect = 1.3, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 20/52 (38%)
Query: 145 NCSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMASQP 196
+C C + PV T C H FC C + + C CR+ P P
Sbjct: 25 SCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP 76
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 37.0 bits (84), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 516 FSCLICRQVMNLPITTPCAHNFCKSCLEGAFAG--KTFVRERSRGG 559
F C ICRQ P+ T C H FC+SC F + ++ ++ GG
Sbjct: 16 FRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQPTGG 61
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 36.2 bits (82), Expect = 0.073, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 24/35 (68%)
Query: 508 VREKLLKEFSCLICRQVMNLPITTPCAHNFCKSCL 542
V E + +E +C IC +++ P++ C H+FC++C+
Sbjct: 12 VLEMIKEEVTCPICLELLKEPVSADCNHSFCRACI 46
Score = 32.7 bits (73), Expect = 0.72, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 5/49 (10%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCF-----QKWIGQGKRTCAKCRHIIP 189
C C++L + PV+ C H+FC C GK C CR P
Sbjct: 22 CPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYP 70
>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 = 35.4 bits (80), Expect = 0.11, Method: Composition-based stats.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 22/82 (26%)
Query: 518 CLICRQVMNLPITTP-CAHNFCKSCLEGAFAGKTFVRERSRGGRTLRSQKNVMQCPSCPT 576
C IC + N+ + P C+HN+C C+ + KT QCP+C
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKT-------------------QCPTCCV 65
Query: 577 DISEFLQNPQVNRELMDVIESL 598
++E + + NR L ++++SL
Sbjct: 66 TVTE--PDLKNNRILDELVKSL 85
Score = 30.0 bits (66), Expect = 5.5, Method: Composition-based stats.
Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 146 CSFCMQLPERPVTTP-CGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMASQPRINSALVT 204
C C + + P C HN+C C +K++ + C + P + + RI LV
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNN-RILDELVK 83
Query: 205 AIRMAK 210
++ A+
Sbjct: 84 SLNFAR 89
>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The P1
Space Group
pdb|3HCU|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
pdb|3HCU|C Chain C, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
Length = 118
Score = 35.4 bits (80), Expect = 0.13, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 20/41 (48%)
Query: 502 QAQNTSVREKLLKEFSCLICRQVMNLPITTPCAHNFCKSCL 542
Q + L ++ C IC + + TPC H FCK+C+
Sbjct: 5 QGYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACI 45
Score = 34.3 bits (77), Expect = 0.29, Method: Composition-based stats.
Identities = 14/36 (38%), Positives = 15/36 (41%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTC 181
C C+ V TPCGH FC C K I C
Sbjct: 21 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKC 56
>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Tripartite Motif-Containing Protein 5
Length = 85
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 25/45 (55%), Gaps = 5/45 (11%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCF-----QKWIGQGKRTCAKCR 185
C C++L +P++ CGH+FC C + + +G+ +C CR
Sbjct: 22 CPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCR 66
Score = 33.1 bits (74), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 38/83 (45%), Gaps = 15/83 (18%)
Query: 514 KEFSCLICRQVMNLPITTPCAHNFCKSCLEGAFAGKTFVRERSRGGRTLRSQKNVMQCPS 573
+E +C IC +++ P++ C H+FC++CL + S CP
Sbjct: 18 EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGES-------------SCPV 64
Query: 574 CPTDISEFLQNPQVNRELMDVIE 596
C IS +N + NR + +++E
Sbjct: 65 C--RISYQPENIRPNRHVANIVE 85
>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 = 35.0 bits (79), Expect = 0.17, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 18 CKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C V + + + C TC +H+ CL P +T+ + W+CP C
Sbjct: 8 CSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGM-WICPRC 49
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 34.3 bits (77), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 15 CMRCKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C C + P++ + C C +H+ CL P ++ S W CP+C
Sbjct: 8 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 34.3 bits (77), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 20/41 (48%)
Query: 502 QAQNTSVREKLLKEFSCLICRQVMNLPITTPCAHNFCKSCL 542
Q + L ++ C IC + + TPC H FCK+C+
Sbjct: 12 QGYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACI 52
Score = 33.1 bits (74), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 15/36 (41%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTC 181
C C+ V TPCGH FC C K I C
Sbjct: 28 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKC 63
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 33.9 bits (76), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 15 CMRCKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C C + P++ + C C +H+ CL P ++ S W CP+C
Sbjct: 29 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
>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 = 33.9 bits (76), Expect = 0.38, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 146 CSFCMQLPER-PVTTPCGHNFCLKCFQKWIGQGKRTCAKCR 185
C C++ P + PC H FC C +WI Q TC C+
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNP-TCPLCK 47
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 33.5 bits (75), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 146 CSFCMQLPERPVTTP-CGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMASQPRIN-SALV 203
C C+ + + +TT C H FC C + G + C CR + K + +P N AL+
Sbjct: 57 CPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALI 116
Query: 204 TAI 206
+ I
Sbjct: 117 SKI 119
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 33.5 bits (75), Expect = 0.43, Method: Composition-based stats.
Identities = 22/116 (18%), Positives = 48/116 (41%), Gaps = 19/116 (16%)
Query: 489 KPEDGKKVRRAIRQAQNTSVREKLLKEFSCLICRQVMNLPITTPCAHNFCKSCLEGAFAG 548
+ ++ K+ +A ++ + + + L E C+IC + +T CAH+FC C+
Sbjct: 27 QTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCIN----- 81
Query: 549 KTFVRERSRGGRTLRSQKNVMQCPSCPTDISEFLQNPQVNRELMDVIESLKHKTEE 604
K ++CP C DI + ++ + ++ +L + +E
Sbjct: 82 --------------EWMKRKIECPICRKDIKSKTYSLVLDNXINKMVNNLSSEVKE 123
Score = 32.7 bits (73), Expect = 0.87, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMAS 194
C C + VT C H+FC C +W+ + K C CR I K S
Sbjct: 56 CIICSEYFIEAVTLNCAHSFCSYCINEWMKR-KIECPICRKDIKSKTYS 103
>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 = 33.5 bits (75), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 15 CMRCKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C C + P++ + C C +H+ CL P ++ S W CP+C
Sbjct: 23 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>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 = 33.5 bits (75), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMAS 194
C C + VT C H+FC C +W+ + K C CR I K S
Sbjct: 67 CIICSEYFIEAVTLNCAHSFCSYCINEWMKR-KIECPICRKDIKSKTYS 114
Score = 33.1 bits (74), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 24/116 (20%), Positives = 42/116 (36%), Gaps = 19/116 (16%)
Query: 463 WDFDEEDSRXXXXXXXXXXXXXIGTGKPEDGKKVRRAIRQAQNTSVREKLLKEFSCLICR 522
W EE +R + ++ K+ +A ++ + + + L E C+IC
Sbjct: 12 WALMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICS 71
Query: 523 QVMNLPITTPCAHNFCKSCLEGAFAGKTFVRERSRGGRTLRSQKNVMQCPSCPTDI 578
+ +T CAH+FC C+ K ++CP C DI
Sbjct: 72 EYFIEAVTLNCAHSFCSYCINEWMKRK-------------------IECPICRKDI 108
>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 = 33.5 bits (75), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 15 CMRCKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C C + P++ + C C +H+ CL P ++ S W CP+C
Sbjct: 26 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
>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 = 33.1 bits (74), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 15 CMRCKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C C + P++ + C C +H+ CL P ++ S W CP+C
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>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 = 33.1 bits (74), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 15 CMRCKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C C + P++ + C C +H+ CL P ++ S W CP+C
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 32.7 bits (73), Expect = 0.83, Method: Composition-based stats.
Identities = 20/90 (22%), Positives = 37/90 (41%), Gaps = 19/90 (21%)
Query: 489 KPEDGKKVRRAIRQAQNTSVREKLLKEFSCLICRQVMNLPITTPCAHNFCKSCLEGAFAG 548
+ ++ K+ +A ++ + + + L E C+IC + +T CAH+FC C+
Sbjct: 27 QTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCIN----- 81
Query: 549 KTFVRERSRGGRTLRSQKNVMQCPSCPTDI 578
K ++CP C DI
Sbjct: 82 --------------EWMKRKIECPICRKDI 97
Score = 32.3 bits (72), Expect = 0.92, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMAS 194
C C + VT C H+FC C +W+ + K C CR I K S
Sbjct: 56 CIICSEYFIEAVTLNCAHSFCSYCINEWMKR-KIECPICRKDIKSKTYS 103
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 146 CSFCMQLPERPVTTP-CGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMASQPRIN-SALV 203
C C+ + + +TT C H FC C + G + C CR + K + +P N AL+
Sbjct: 56 CPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALI 115
Query: 204 TAI 206
+ I
Sbjct: 116 SKI 118
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger
Protein 107
Length = 77
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 19/46 (41%)
Query: 15 CMRCKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C C K P + C C +H+ CL P + + W CP C
Sbjct: 29 CRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSC 74
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 515 EFSCLICRQVMNLPITTPCAHNFCKSCL 542
++ C IC + + TPC H FCK+C+
Sbjct: 6 KYECPICLMALREAVQTPCGHRFCKACI 33
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 15/36 (41%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTC 181
C C+ V TPCGH FC C K I C
Sbjct: 9 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKC 44
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 146 CSFCMQLPERPVTTP-CGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMASQPRIN-SALV 203
C C+ + + +TT C H FC C + G + C CR + K + +P N AL+
Sbjct: 37 CPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALI 96
Query: 204 TAI 206
+ I
Sbjct: 97 SKI 99
>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 = 1.4, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCR 185
C CM + PC H+FC KC KW + R C CR
Sbjct: 18 CCICMD-GRADLILPCAHSFCQKCIDKWSDR-HRNCPICR 55
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 15/36 (41%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTC 181
C C+ V TPCGH FC C K I C
Sbjct: 21 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKC 56
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 20/41 (48%)
Query: 502 QAQNTSVREKLLKEFSCLICRQVMNLPITTPCAHNFCKSCL 542
Q + L ++ C IC + + TPC H FCK+C+
Sbjct: 5 QGYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACI 45
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger
Protein 21a
Length = 56
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 18 CKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDC 60
C V + + + C TC +H+ CL P +T+ + W+CP C
Sbjct: 12 CSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGM-WICPRC 53
>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human
Retinoblastoma-Binding Protein 6
Length = 74
Score = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 515 EFSCLICRQVMNLPITTPCAHN-FCKSCLEGAF 546
E CLIC+ +M + PC N +C C+ A
Sbjct: 15 ELLCLICKDIMTDAVVIPCCGNSYCDECIRTAL 47
>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 = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 515 EFSCLICRQVMNLPITTPCAHN-FCKSCLEGAF 546
E CLIC+ +M + PC N +C C+ A
Sbjct: 13 ELLCLICKDIMTDAVVIPCCGNSYCDECIRTAL 45
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 30.4 bits (67), Expect = 4.2, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 157 VTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMASQPRINSALVT 204
V+T CGH FC +C + + + TC CR I K I S V+
Sbjct: 28 VSTECGHVFCSQCLRDSL-KNANTCPTCRKKINHKRYHPIYIGSGTVS 74
Score = 29.6 bits (65), Expect = 6.9, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 157 VTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIPPK 191
V+T CGH FC +C + + + TC CR I K
Sbjct: 93 VSTECGHVFCSQCLRDSL-KNANTCPTCRKKINHK 126
>pdb|4GH7|A Chain A, Crystal Structure Of Anticalin N7a In Complex With
Oncofetal Fibronectin Fragment Fn7b8
pdb|4GH7|C Chain C, Crystal Structure Of Anticalin N7a In Complex With
Oncofetal Fibronectin Fragment Fn7b8
Length = 188
Score = 30.0 bits (66), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 22/38 (57%)
Query: 315 VALSGGYEDDEDHGEWFLYTGSGGRDLSGNKRTNKEQS 352
V L ++D++ HG+W++ +G DL +K K Q+
Sbjct: 16 VPLQQNFQDNQFHGKWYVVGKAGNHDLREDKDPRKMQA 53
>pdb|4G89|A Chain A, Crystal Structure Of K. Pneumoniae MtaADOHCY NUCLEOSIDASE
IN COMPLEX With Fragmented S-Adenosyl-L-Homocysteine
pdb|4G89|B Chain B, Crystal Structure Of K. Pneumoniae MtaADOHCY NUCLEOSIDASE
IN COMPLEX With Fragmented S-Adenosyl-L-Homocysteine
Length = 237
Score = 30.0 bits (66), Expect = 5.0, Method: Composition-based stats.
Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 11/65 (16%)
Query: 688 PGCSNG-----------DSKVKKVESGVPKGLTNDGDGSVKQNVGLQSRSRKFPAATADE 736
PGC G +S +K ++ +GL GD + +VGL FP A A E
Sbjct: 118 PGCPAGFKADEKLVAAAESCIKALDLNAVRGLIVSGDAFINGSVGLAKIRHNFPQAIAVE 177
Query: 737 GDSPA 741
++ A
Sbjct: 178 MEATA 182
>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 = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 18 CKVKPRPEETITCSTCVTPWHVACLTKPPETLASSLSWLCPDCS 61
C+V E + C TC + +H+ CL P + + WLCP C+
Sbjct: 12 CRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPNG-EWLCPRCT 54
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 160 PCGHNFCLKCFQKWIGQGKRTCAKCR 185
PC H F KC KW+ + RTC CR
Sbjct: 43 PCNHEFHAKCVDKWL-KANRTCPICR 67
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 29.6 bits (65), Expect = 6.2, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 157 VTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIPPK 191
V+T CGH FC +C + + + TC CR I K
Sbjct: 24 VSTECGHVFCSQCLRDSL-KNANTCPTCRKKINHK 57
>pdb|1T1H|A Chain A, Nmr Solution Structure Of The U Box Domain From Atpub14,
An Armadillo Repeat Containing Protein From Arabidopsis
Thaliana
Length = 78
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 20/43 (46%)
Query: 146 CSFCMQLPERPVTTPCGHNFCLKCFQKWIGQGKRTCAKCRHII 188
C ++L + PV G + QKW+ G +TC K + +
Sbjct: 11 CPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETL 53
>pdb|1JM7|B Chain B, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 117
Score = 29.3 bits (64), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 37/103 (35%), Gaps = 11/103 (10%)
Query: 146 CSFCMQLPERPVTTP-CGHNFCLKCFQKWIGQGKRTCAKCRHIIPPKMASQPRINSALVT 204
CS C + PV C H FC C IG G C P +IN L +
Sbjct: 25 CSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVC------YTPAWIQDLKINRQLDS 78
Query: 205 AIRMAKLSKSNLAAVPTKVYHFMRNQDRPDKAFTTERAQKTGK 247
I++ S L + +D+P K+ + K GK
Sbjct: 79 MIQLC----SKLRNLLHDNELSDLKEDKPRKSLFNDAGNKKGK 117
>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 = 29.3 bits (64), Expect = 8.1, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 157 VTTPCGHNFCLKCFQKWIGQGKRTCAKCRHIIPPK 191
V+T CGH FC +C + + + TC CR I K
Sbjct: 31 VSTECGHVFCSQCLRDSL-KNANTCPTCRKKINHK 64
>pdb|1WEP|A Chain A, Solution Structure Of Phd Domain In Phf8
Length = 79
Score = 29.3 bits (64), Expect = 9.5, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 19/41 (46%)
Query: 28 ITCSTCVTPWHVACLTKPPETLASSLSWLCPDCSGVDGPAL 68
I C C +H +C+ E + CPDC V GP++
Sbjct: 28 IECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGPSI 68
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
0.315 0.132 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,724,683
Number of Sequences: 62578
Number of extensions: 914853
Number of successful extensions: 1576
Number of sequences better than 100.0: 82
Number of HSP's better than 100.0 without gapping: 57
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1432
Number of HSP's gapped (non-prelim): 136
length of query: 754
length of database: 14,973,337
effective HSP length: 106
effective length of query: 648
effective length of database: 8,340,069
effective search space: 5404364712
effective search space used: 5404364712
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.8 bits)