RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5645
(525 letters)
>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from
bromodomain-containing protein...; PHD finger, histone
CODE, transcription; NMR {Homo sapiens}
Length = 88
Score = 91.6 bits (227), Expect = 8e-23
Identities = 27/66 (40%), Positives = 39/66 (59%), Gaps = 1/66 (1%)
Query: 334 EFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTIPSGSWLCRTCVLGK-RPE 392
DE+ +C +C +S+ N ++FCD CN+ VHQ CYG+ IP G WLCR C+ + RP
Sbjct: 21 LIDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSRARPA 80
Query: 393 CILCPN 398
+
Sbjct: 81 LEHHHH 86
>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator,
metal-binding, finger, signaling protein; NMR {Homo
sapiens}
Length = 71
Score = 86.5 bits (214), Expect = 4e-21
Identities = 25/54 (46%), Positives = 36/54 (66%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTIPSGSWLCRTCVLGK 389
DE+ +C +C +S+ N ++FCD CN+ VHQ CYG+ IP G WLCR C+ +
Sbjct: 14 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSR 67
>2yt5_A Metal-response element-binding transcription factor 2;
zinc-regulated factor 1, ZIRF1, metal-response element
DNA-binding protein M96; NMR {Mus musculus}
Length = 66
Score = 76.8 bits (189), Expect = 7e-18
Identities = 20/61 (32%), Positives = 25/61 (40%), Gaps = 5/61 (8%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG-----ITTIPSGSWLCRTCVLGKR 390
+ +C +C+ SE NEMV CD C HQ C+ WLCR CV
Sbjct: 4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATT 63
Query: 391 P 391
Sbjct: 64 T 64
>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, gene
regulation; NMR {Mus musculus} SCOP: g.50.1.2
Length = 88
Score = 75.1 bits (184), Expect = 5e-17
Identities = 17/80 (21%), Positives = 24/80 (30%), Gaps = 6/80 (7%)
Query: 327 EEEGLGLEFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACY------GITTIPSGSW 380
+ + C VCR GN++V C C+ HQ C+ P W
Sbjct: 5 SSGADDFAMEMGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVW 64
Query: 381 LCRTCVLGKRPECILCPNKG 400
C C + G
Sbjct: 65 YCARCTRQMKRMAQKNQKSG 84
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination-DNA binding COM; 3.00A {Danio rerio}
SCOP: c.37.1.19 c.37.1.19
Length = 644
Score = 76.6 bits (189), Expect = 6e-15
Identities = 38/55 (69%), Positives = 44/55 (80%)
Query: 37 LGVRREGARKALHDPTAPNALVLYTPPQLSAHDLLKIDKDKIQVHVVVDPVLSNI 91
LG+RR G RKALHDP ALVLY PP +SAHDL+K DK+K+ VHVVVDPVLS +
Sbjct: 1 LGLRRAGVRKALHDPFEDGALVLYEPPAISAHDLIKADKEKLPVHVVVDPVLSKV 55
>1x4i_A Inhibitor of growth protein 3; structural genomics, PHD domain,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 70
Score = 53.3 bits (128), Expect = 1e-09
Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 7/53 (13%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICV---HQACYGITTIPSGSWLCRTC 385
+ C +C EMV CD + + H C G+T P G W C C
Sbjct: 4 GSSGYC-ICNQVS---YGEMVGCDNQDCPIEWFHYGCVGLTEAPKGKWYCPQC 52
>2k16_A Transcription initiation factor TFIID subunit 3; protein,
alternative splicing, metal-binding, nucleus,
phosphoprotein, transcription regulation; NMR {Mus
musculus} PDB: 2k17_A*
Length = 75
Score = 52.5 bits (126), Expect = 3e-09
Identities = 19/74 (25%), Positives = 29/74 (39%), Gaps = 9/74 (12%)
Query: 321 VQTIIKEEEGLGLEFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGIT--TIPSG 378
+ +I++E G ++ IC C PD M+ CD C+ H C GI
Sbjct: 6 MAYVIRDEWG-----NQIWICPGCNKPDDGS--PMIGCDDCDDWYHWPCVGIMAAPPEEM 58
Query: 379 SWLCRTCVLGKRPE 392
W C C + +
Sbjct: 59 QWFCPKCANKIKKD 72
>2vnf_A ING 4, P29ING4, inhibitor of growth protein 4; acetylation,
alternative splicing, anti-oncogene, cell cycle, coiled
C nucleus, zinc, zinc-finger, ING4; HET: M3L; 1.76A
{Homo sapiens} SCOP: g.50.1.2 PDB: 2k1j_A 2jmq_A 2qic_A*
Length = 60
Score = 50.2 bits (120), Expect = 1e-08
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 7/53 (13%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICV---HQACYGITTIPSGSWLCRTC 385
+E C +C EM+ CD + + H AC G+TT P G W C C
Sbjct: 8 NEPTYC-LCHQVS---YGEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 56
>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 92
Score = 49.9 bits (119), Expect = 5e-08
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 334 EFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPSGSWLCRTCVLGKRP 391
+F ++ IC VC D ++ +++FCD C+ H C + IP G W C C+L +
Sbjct: 12 QFIDSYICQVCSRGDEDD--KLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILAECK 69
Query: 392 E 392
+
Sbjct: 70 Q 70
>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation,
nucleus, metal BIND protein; HET: ALY; NMR {Homo
sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*
Length = 114
Score = 50.1 bits (119), Expect = 7e-08
Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 4/72 (5%)
Query: 317 CWDKVQTIIKEEEGLGLEFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITT 374
C + + + + E C +C + ++++ +++FCD C+ H C +
Sbjct: 37 CLQFTLNMTEAVKTYKWQCIECKSCILCGTSENDD--QLLFCDDCDRGYHMYCLNPPVAE 94
Query: 375 IPSGSWLCRTCV 386
P GSW C C
Sbjct: 95 PPEGSWSCHLCW 106
Score = 34.3 bits (78), Expect = 0.022
Identities = 15/72 (20%), Positives = 21/72 (29%), Gaps = 16/72 (22%)
Query: 341 CDVCRSPD-----SEEGNEMVFCDCCNICVHQACYGIT-----TIPSGSW------LCRT 384
CD C S E+V C C H C T + + W C
Sbjct: 4 CDFCLGGSNMNKKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECKSCIL 63
Query: 385 CVLGKRPECILC 396
C + + +L
Sbjct: 64 CGTSENDDQLLF 75
>3c6w_A P28ING5, inhibitor of growth protein 5; chromatin, PHD, ING,
epigenetics, alternative splicing, metal-binding,
phosphoprotein, zinc; HET: M3L; 1.75A {Homo sapiens}
PDB: 2pnx_A*
Length = 59
Score = 46.4 bits (110), Expect = 3e-07
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 7/53 (13%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICV---HQACYGITTIPSGSWLCRTC 385
+E C +C E M+ CD + + H AC +TT P G W C C
Sbjct: 7 NEPTYC-LCHQVSYGE---MIGCDNPDCPIEWFHFACVDLTTKPKGKWFCPRC 55
>2g6q_A Inhibitor of growth protein 2; protein-peptide complex, gene
regulation, apoptosis; HET: M3L; 2.00A {Mus musculus}
Length = 62
Score = 46.4 bits (110), Expect = 4e-07
Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 7/53 (13%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICV---HQACYGITTIPSGSWLCRTC 385
+E C +C EM+ CD + H +C +T P G W C C
Sbjct: 9 NEPTYC-LCNQVS---YGEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKC 57
>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD
domain, histone-lysine N-methyltransferase, H3 lysine-4
specific MLL3; NMR {Homo sapiens}
Length = 111
Score = 47.3 bits (112), Expect = 5e-07
Identities = 17/69 (24%), Positives = 30/69 (43%), Gaps = 9/69 (13%)
Query: 334 EFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPSGSWLCRTCVLGKRP 391
+ E +C C+ + +M+ CD C+ H C + ++P+ W C+ C
Sbjct: 50 QCPECKVCQNCKQSGEDS--KMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKNCR----- 102
Query: 392 ECILCPNKG 400
CI P+ G
Sbjct: 103 ICISGPSSG 111
Score = 43.0 bits (101), Expect = 2e-05
Identities = 16/69 (23%), Positives = 21/69 (30%), Gaps = 10/69 (14%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGI--TTIPSGSW------LCRTCVL 387
C VC SP + FC C H C I T + W +C+ C
Sbjct: 5 SSGANCAVCDSPGDLL--DQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECKVCQNCKQ 62
Query: 388 GKRPECILC 396
+L
Sbjct: 63 SGEDSKMLV 71
>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural
genomics, PHD domain, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: g.50.1.2 PDB: 1wes_A
Length = 71
Score = 46.1 bits (109), Expect = 6e-07
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 7/53 (13%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICV---HQACYGITTIPSGSWLCRTC 385
+E C +C EM+ CD + + H AC G+TT P G W C C
Sbjct: 14 NEPTYC-LCHQV---SYGEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 62
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 51.4 bits (122), Expect = 7e-07
Identities = 51/268 (19%), Positives = 79/268 (29%), Gaps = 74/268 (27%)
Query: 88 LSNIYLTWKTNHQYEIRLPLFRPKHKYIRITKKDSFKPEEHVLSNVL-EKAEKACLYDLD 146
L + N R H + S + E L +L K + CL L
Sbjct: 202 LQKLLYQIDPNWTS-------RSDHSSNIKLRIHSIQAE---LRRLLKSKPYENCLLVLL 251
Query: 147 D-CDIAWLNILNGERACMGIMYNTQDDEEATSSPMDSVHSSRGGSSYSDLKSMNSIYNRN 205
+ + N N C I+ T+ D + ++ + + +
Sbjct: 252 NVQNAKAWNAFNLS--CK-ILLTTRF-----KQVTDFL----SAATTTHISLDHHSMTLT 299
Query: 206 TNEAPAELFRKDL-ISAMKLP----DSEPL--------KSDEF--WVISDQWKQEWERGV 250
+E L K L LP + P D W D WK
Sbjct: 300 PDEV-KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW---DNWKH------ 349
Query: 251 QVPVNPDSLPGPQVTVVSTLNSTRYPNNYNEPFK-LGNNKHLFP----IPPGLPAI---- 301
VN D L + S+LN P Y + F L +FP IP L ++
Sbjct: 350 ---VNCDKL---TTIIESSLNVL-EPAEYRKMFDRLS----VFPPSAHIPTILLSLIWFD 398
Query: 302 -QEDRLEKMIAELE----VRCWDKVQTI 324
+ + ++ +L V K TI
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTI 426
Score = 31.4 bits (70), Expect = 0.90
Identities = 33/270 (12%), Positives = 80/270 (29%), Gaps = 60/270 (22%)
Query: 204 RNTNEAPAELFRK---DLISAMKLPDSEPLKSDEFWVISDQWKQEWERGVQVPVNPDS-- 258
++ + P + K D I + D+ FW + + ++ ++ V+ + +
Sbjct: 36 KDVQDMPKSILSKEEIDHI--IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF 93
Query: 259 LPGP--QVTVVSTLNSTRYPNNYNEPFKLGNNKHLFPIPPGLPAIQE-DRLEKMIAELEV 315
L P ++ + Y + +L N+ +F + +Q +L + + EL
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRD---RLYNDNQVFA-KYNVSRLQPYLKLRQALLEL-- 147
Query: 316 RCWDKVQTIIKEEEGLGLE----FDENV-ICDVCRSPDSEEGNEM-VF------CDCCNI 363
+ + + ++ + DVC S + + +F C+
Sbjct: 148 ----------RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET 197
Query: 364 CVHQA---CYGITTIPSGSWLCRTCVLGKRPECILCPNKGGAMKCARSGNKWAHVSCAL- 419
+ Y I I + R + +C L
Sbjct: 198 VLEMLQKLLYQID--------PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV 249
Query: 420 ----WIPEV----SIGCVEKMEPITKISSI 441
+ ++ C K+ T+ +
Sbjct: 250 LLNVQNAKAWNAFNLSC--KILLTTRFKQV 277
>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP:
g.50.1.2
Length = 51
Score = 45.0 bits (107), Expect = 8e-07
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 341 CDVCRSPDSEEGNEMVFCDCCNICVHQAC--YGITTIPSGSWLCRTCVLG 388
C VCR ++ +++ CD CN H C + +P G W C C
Sbjct: 3 CKVCRKKGEDD--KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQPA 50
>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD
domain, ING1-like protein, DNA binding protein, NPPSFA;
NMR {Mus musculus} SCOP: g.50.1.2
Length = 91
Score = 46.3 bits (109), Expect = 8e-07
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 7/53 (13%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICV---HQACYGITTIPSGSWLCRTC 385
+E C +C EM+ CD + + H AC G+TT P G W C C
Sbjct: 34 NEPTYC-LCHQVS---YGEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 82
>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger,
transferase-structural protein; 1.47A {Homo sapiens}
PDB: 2ln0_A
Length = 112
Score = 46.6 bits (110), Expect = 9e-07
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 3/71 (4%)
Query: 317 CWDKVQTIIKEEEGLGLEFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITT 374
C + + L + E C CR + + M+FCD C+ H C +T
Sbjct: 40 CLKFSPELTVRVKALRWQCIECKTCSSCRDQ-GKNADNMLFCDSCDRGFHMECCDPPLTR 98
Query: 375 IPSGSWLCRTC 385
+P G W+C+ C
Sbjct: 99 MPKGMWICQIC 109
Score = 39.3 bits (91), Expect = 4e-04
Identities = 26/133 (19%), Positives = 45/133 (33%), Gaps = 35/133 (26%)
Query: 336 DENVICDVCRSPDSEEGN----EMVFCDCCNICVHQACYGIT-----TIPSGSWLCRTCV 386
+ IC C + E++ C C H +C + + + W C C
Sbjct: 3 EPIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIEC- 61
Query: 387 LGKRPECILCPNKG---GAMKCARSGNKWAHVSCALWIPEVSIGCVEKMEPITKISSIPQ 443
C C ++G M S ++ H+ C +P ++ +P+
Sbjct: 62 ----KTCSSCRDQGKNADNMLFCDSCDRGFHMEC--------------CDP--PLTRMPK 101
Query: 444 SRWALICILCRER 456
W IC +CR R
Sbjct: 102 GMW--ICQICRPR 112
>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain,
-structure, transcription; NMR {Homo sapiens} SCOP:
g.50.1.2
Length = 88
Score = 44.9 bits (106), Expect = 2e-06
Identities = 17/68 (25%), Positives = 27/68 (39%), Gaps = 7/68 (10%)
Query: 327 EEEGLGLEFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACY--GITTIPSGSWLCRT 384
+ G D IC VC+ P ++V C+ C C H C+ + +P W C
Sbjct: 14 IIDEFGTLDDSATICRVCQKPG-----DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSL 68
Query: 385 CVLGKRPE 392
C + +
Sbjct: 69 CHVLPDLK 76
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 48.9 bits (116), Expect = 3e-06
Identities = 72/481 (14%), Positives = 130/481 (27%), Gaps = 190/481 (39%)
Query: 13 RQILAKPFKVPILNYTGSGYSTKALGVRREGAR------KALHDPTAPNALV-------- 58
L K ++ I NY + + + R + +A+ + A +
Sbjct: 113 DTTLVKTKEL-IKNY----ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD 167
Query: 59 --------LYTPPQLSAHDLLKIDKDKIQVHVVVDPVLSNIY------LTWKTN------ 98
LY + DL+K + + + ++ L W N
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 99 HQY----EIRLP---LFRPKHKYIRITKKDSFKPEEH--------------VLSNVLEKA 137
Y I P + + H Y+ K F P E V + + +
Sbjct: 228 KDYLLSIPISCPLIGVIQLAH-YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAET 286
Query: 138 -EKACLYDLDDCDIAWLNILNGERA---------CMGIMYNTQDDEEATSSPMDSVHSSR 187
+ I L + G R I+ ++ ++ E SPM S+
Sbjct: 287 DSWESFFVSVRKAITVLFFI-GVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI---S 342
Query: 188 GGSS---YSDLKSMN-----------SIYN--RN------------------TNEAPAEL 213
+ + N S+ N +N +AP+ L
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL 402
Query: 214 ------F--RKDLISAMKLPDSEP-----LKSDEFWVISDQWKQEWERGVQVPVNPDSLP 260
F RK S LP + P L + D K V N +
Sbjct: 403 DQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNN------VSFNAKDI- 455
Query: 261 GPQVTVVSTLNSTRYPNNYNEPFKLGNNKHLFPIPPGLPAIQE------DRLEKMIAELE 314
Q+ V T + G++ ++ +R+ I L
Sbjct: 456 --QIPVYDTFD--------------GSD------------LRVLSGSISERIVDCIIRLP 487
Query: 315 VRCWDKVQT-----II---------------KEEEGLGLEFDENVIC--DVCRSPDSEEG 352
V+ W+ I+ + ++G G+ VI + +PD + G
Sbjct: 488 VK-WETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVR----VIVAGTLDINPDDDYG 542
Query: 353 N 353
Sbjct: 543 F 543
Score = 41.6 bits (97), Expect = 8e-04
Identities = 34/214 (15%), Positives = 62/214 (28%), Gaps = 81/214 (37%)
Query: 3 TSYDHWENLIRQILAKPFKV--------PILNYT----------GSGYSTKALGVR---R 41
S++ + +R+ + F + P + G + L + +
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQ 346
Query: 42 EGARKAL-----HDPT----------APNALVLYTPPQ-LSAHDL----LKIDKDKIQVH 81
E + + H P LV+ PPQ L +L K Q
Sbjct: 347 EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSR 406
Query: 82 VVVD---PVLSNIYLTWKTNHQYEIRLPLFRPKHKYIRITKKDSFKPEEHVLSNVLEKAE 138
+ SN +L P+ P H S++L A
Sbjct: 407 IPFSERKLKFSNRFL------------PVASPFH------------------SHLLVPAS 436
Query: 139 KACLYDLDDCDIAWLNILNGERACMGI-MYNTQD 171
DL ++++ N + + I +Y+T D
Sbjct: 437 DLINKDLVKNNVSF----NAKD--IQIPVYDTFD 464
Score = 33.1 bits (75), Expect = 0.31
Identities = 42/271 (15%), Positives = 80/271 (29%), Gaps = 100/271 (36%)
Query: 272 STRYPNNYNEPFKL--GNNKHLFPIPPGL--PAIQ-EDRLEKMI---------------- 310
STR P L G+ +H+ +P A Q +++ K++
Sbjct: 5 STR-------PLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTP 57
Query: 311 AELEVR----CWDKVQ--TIIKEEEGLGL---EFDENVICDVCRSPDSEEGNEMVFCDCC 361
AEL + V+ + + ++ L L EF+ + GN+
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLE----------GND------- 100
Query: 362 NICVHQACYGI-----TTIPSGSWLCRT----CVLGKRPECILCPNKGGA-MKCARSGNK 411
+H + TT+ L + ++ KRP A + GN
Sbjct: 101 ---IHALAAKLLQENDTTLVKTKELIKNYITARIMAKRP---FDKKSNSALFRAVGEGN- 153
Query: 412 WAHVSCAL---------WIPEVSIGCVEKMEPITKISSIPQSRWALICILCRERLGACIQ 462
A + A+ + E + + + E L I+
Sbjct: 154 -AQL-VAIFGGQGNTDDYFEE-----------LRDLYQTYHVLVGDLIKFSAETLSELIR 200
Query: 463 CSVKTCKTAYHVTCAFKHGLEMRAIIEDENA 493
++ K F GL + +E+ +
Sbjct: 201 TTLDAEK-------VFTQGLNILEWLENPSN 224
>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced,
nucleosome, E3 ligase, transcription; NMR {Homo sapiens}
PDB: 2ke1_A 2kft_A
Length = 66
Score = 43.6 bits (103), Expect = 4e-06
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 8/60 (13%)
Query: 336 DENV-ICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPSGSWLCRTCVLGKRPE 392
+N C VCR +G E++ CD C H AC + IPSG+W C +C+ E
Sbjct: 5 QKNEDECAVCR-----DGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATVQE 59
>1wee_A PHD finger family protein; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, DNA
binding protein; NMR {Arabidopsis thaliana} SCOP:
g.50.1.2
Length = 72
Score = 43.7 bits (103), Expect = 4e-06
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTIPS--GSWLCRTCVLGKRPE 392
+ V C C + D ++G M+ CD C + H C GI + +LC C+ P
Sbjct: 14 NWKVDC-KCGTKD-DDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIELSGPS 70
>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC
complex, transcription; 1.43A {Homo sapiens}
Length = 60
Score = 42.0 bits (99), Expect = 1e-05
Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 9/59 (15%)
Query: 340 ICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPSGSWLCRTCV--LGKRPECI 394
C VCR +++ CD C+ H C + TIP G W+C C + K+ E I
Sbjct: 7 FCSVCRKSG-----QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKKEEAI 60
>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein;
NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A
Length = 61
Score = 41.2 bits (97), Expect = 2e-05
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 8/54 (14%)
Query: 336 DENV-ICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPSGSWLCRTCV 386
D ++ C VC+ +G E++ CD C H C + IP+G WLC C
Sbjct: 6 DHHMEFCRVCK-----DGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCT 54
>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 56
Score = 41.2 bits (97), Expect = 2e-05
Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 7/52 (13%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPSGSWLCRTC 385
C VCR +++ CD C+ H C + TIP G W+C C
Sbjct: 7 GHEDFCSVCRKSG-----QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53
>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta,
PHD, protein binding, peptide binding metal binding
protein; NMR {Homo sapiens}
Length = 61
Score = 40.1 bits (94), Expect = 6e-05
Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 334 EFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPSGSWLCRTCV 386
E D C+VC+ +G E++ CD C H C + P G W C C
Sbjct: 7 ETDHQDYCEVCQ-----QGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCE 56
>1we9_A PHD finger family protein; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, DNA
binding protein; NMR {Arabidopsis thaliana} SCOP:
g.50.1.2
Length = 64
Score = 39.4 bits (92), Expect = 9e-05
Identities = 12/59 (20%), Positives = 20/59 (33%), Gaps = 4/59 (6%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTIPSG---SWLCRTCVLGKRP 391
+ C C + + + CD C + H C IT + + C +C P
Sbjct: 4 GSSGQCGACGESYAADEF-WICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSGP 61
>2jmi_A Protein YNG1, ING1 homolog 1; PHD, histone, recognition, yeast,
protein binding; NMR {Saccharomyces cerevisiae} PDB:
2jmj_A*
Length = 90
Score = 40.1 bits (93), Expect = 1e-04
Identities = 19/76 (25%), Positives = 25/76 (32%), Gaps = 7/76 (9%)
Query: 320 KVQTIIKEEEGLGLEFDENVICDVCRSPDSEEGNEMVFCD---CCNICVHQACYGITTIP 376
+ I + + G E V C CR+ MV CD C H C G+ P
Sbjct: 8 ASEFINQGDVTEGNNNQEEVYC-FCRNVSYGP---MVACDNPACPFEWFHYGCVGLKQAP 63
Query: 377 SGSWLCRTCVLGKRPE 392
G W C +
Sbjct: 64 KGKWYCSKDCKEIANQ 79
>3ask_A E3 ubiquitin-protein ligase UHRF1; histone reader modules,
epigenetic regulation, trimethylaion of lysine residue,
ligase-DNA binding protein; HET: M3L; 2.90A {Homo
sapiens}
Length = 226
Score = 42.4 bits (99), Expect = 2e-04
Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 5/56 (8%)
Query: 334 EFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPS-GSWLCRTCV 386
C +C + + + CD C++ H C ++++PS W C C
Sbjct: 170 RLCRVCACHLCGGRQDPD--KQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECR 223
>1wem_A Death associated transcription factor 1; structural genomics, PHD
domain, death inducer- obliterator 1(DIO-1); NMR {Mus
musculus} SCOP: g.50.1.2
Length = 76
Score = 39.1 bits (91), Expect = 2e-04
Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 9/59 (15%)
Query: 334 EFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGIT-------TIPSGSWLCRTC 385
+D N + +CR P + M+ CD C H C GI+ ++C C
Sbjct: 11 VYDPNALYCICRQPHN--NRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNC 67
>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module,
epigenetic regulation, LI binding protein complex; 1.41A
{Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A
2lgk_A* 2lgl_A 3t6r_A 3zvz_B
Length = 70
Score = 38.6 bits (90), Expect = 3e-04
Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 5/56 (8%)
Query: 334 EFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPS-GSWLCRTCV 386
C +C + + + CD C++ H C ++++PS W C C
Sbjct: 14 RLCRVCACHLCGGRQDPD--KQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECR 67
>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger,
bromodomain, SUMO, acetylation, alternative splicing,
metal-binding, nucleus; NMR {Homo sapiens}
Length = 189
Score = 41.0 bits (95), Expect = 3e-04
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 7/48 (14%)
Query: 340 ICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPSGSWLCRTC 385
IC VC+ P ++V C+ C C H C+ + +P W C C
Sbjct: 4 ICRVCQKPG-----DLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 46
>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 77
Score = 38.6 bits (90), Expect = 3e-04
Identities = 13/53 (24%), Positives = 19/53 (35%), Gaps = 5/53 (9%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPSGS-WLCRTC 385
+ C VC + CD CN+ H C + +P W C +C
Sbjct: 24 CHSCSCRVCGGKHEPN--MQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSC 74
>3shb_A E3 ubiquitin-protein ligase UHRF1; unmodified histone, methylation,
UHRF1, PHD, ligase-NUCL protein complex; 1.80A {Homo
sapiens}
Length = 77
Score = 38.7 bits (90), Expect = 3e-04
Identities = 12/55 (21%), Positives = 22/55 (40%), Gaps = 5/55 (9%)
Query: 334 EFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPS-GSWLCRTC 385
C +C + + + CD C++ H C ++++PS W C C
Sbjct: 22 RLCRVCACHLCGGRQDPD--KQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain,
leukemia, apoptosis, chromati regulator, DNA-binding,
isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A*
3lqj_A* 2kyu_A
Length = 183
Score = 39.2 bits (90), Expect = 0.001
Identities = 14/116 (12%), Positives = 31/116 (26%), Gaps = 16/116 (13%)
Query: 340 ICDVCRSP--DSEEGNEMVFCDCCNICVHQACYGITTIPSGSWLCRTCVLGKRPECILCP 397
C +C D + ++M+ C C+ VH C ++ + E +
Sbjct: 4 FCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSD--------------EMYEILSNL 49
Query: 398 NKGGAMKCARSGNKWAHVSCALWIPEVSIGCVEKMEPITKISSIPQSRWALICILC 453
+ A C + E+ I + + + +
Sbjct: 50 PESVAYTCVNCTERHPAEWRLALEKELQISLKQVLTALLNSRTTSHLLRYRQQQPL 105
>3o70_A PHD finger protein 13; PHF13, structural genomics consortium, SGC,
structural genom type zinc finger, protein binding, zinc
ION binding; 1.85A {Homo sapiens}
Length = 68
Score = 36.0 bits (83), Expect = 0.002
Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 5/62 (8%)
Query: 326 KEEEGLGLEFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGIT--TIPSGSWLCR 383
G + + ++ C P G M+ C+ C+ +H +C I +P ++C+
Sbjct: 6 HHSSGRENLYFQGLVTCFCMKPF--AGRPMIECNECHTWIHLSCAKIRKSNVPE-VFVCQ 62
Query: 384 TC 385
C
Sbjct: 63 KC 64
>1wep_A PHF8; structural genomics, PHD domain, riken structural
genomics/proteomics initiative, RSGI, DNA binding
protein; NMR {Mus musculus} SCOP: g.50.1.2
Length = 79
Score = 35.7 bits (82), Expect = 0.003
Identities = 15/59 (25%), Positives = 21/59 (35%), Gaps = 5/59 (8%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTIPSG---SWLCRTCVLGKRP 391
V C +CR P + M+ C C H +C GI + + C C P
Sbjct: 10 LVPVYC-LCRQPYNVNH-FMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGP 66
>3o7a_A PHD finger protein 13 variant; PHF13, zinc finger, PHD domain,
nuclear protein, structural structural genomics
consortium, SGC, protein binding; HET: M3L; 1.67A {Homo
sapiens}
Length = 52
Score = 33.5 bits (77), Expect = 0.009
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 343 VCRSPDSEEGNEMVFCDCCNICVHQACYGIT--TIPSGSWLCRTC 385
C P G M+ C+ C+ +H +C I +P ++C+ C
Sbjct: 8 FCMKPF--AGRPMIECNECHTWIHLSCAKIRKSNVPE-VFVCQKC 49
>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein,
signal transduction, transcription, metal BI WNT
proteins; 1.90A {Homo sapiens}
Length = 105
Score = 34.5 bits (78), Expect = 0.016
Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 8/67 (11%)
Query: 341 CDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTI--------PSGSWLCRTCVLGKRPE 392
C CRS +++ + ++ C H+ C G+T S W C C+ K
Sbjct: 6 CGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTKEGS 65
Query: 393 CILCPNK 399
++
Sbjct: 66 GSGSGSQ 72
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 35.3 bits (80), Expect = 0.017
Identities = 7/16 (43%), Positives = 10/16 (62%), Gaps = 2/16 (12%)
Query: 216 KDLISAMKL--PDSEP 229
K L +++KL DS P
Sbjct: 23 KKLQASLKLYADDSAP 38
Score = 27.2 bits (59), Expect = 9.1
Identities = 7/24 (29%), Positives = 9/24 (37%), Gaps = 8/24 (33%)
Query: 46 KALHDPTAPNALVLYTP---PQLS 66
K L +L LY P L+
Sbjct: 23 KKLQ-----ASLKLYADDSAPALA 41
>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine
trimethylation, protein, histone-binding protein,
transcription-structural complex; HET: M3L; 0.93A {Homo
sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A
Length = 129
Score = 34.4 bits (78), Expect = 0.025
Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 11/62 (17%)
Query: 333 LEFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITT---------IPSGSWLCR 383
+ D + + + CR EG ++ CD C+ + C + W C
Sbjct: 49 ISRDSDGMDEQCRWCA--EGGNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCY 106
Query: 384 TC 385
C
Sbjct: 107 IC 108
>1wew_A DNA-binding family protein; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, DNA
binding protein; NMR {Arabidopsis thaliana} SCOP:
g.50.1.2
Length = 78
Score = 33.1 bits (75), Expect = 0.026
Identities = 14/65 (21%), Positives = 23/65 (35%), Gaps = 12/65 (18%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDC--CNICVHQACYGITTIPSGS-------WLCRTCV 386
+ V C VC + + M+ C+ C++ H C + P + C C
Sbjct: 14 EIKVRC-VCGNSLETD--SMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICR 70
Query: 387 LGKRP 391
L P
Sbjct: 71 LTSGP 75
>3kqi_A GRC5, PHD finger protein 2; metal-binding, zinc-finger,
histone-binding, NUC protein; HET: M3L; 1.78A {Homo
sapiens}
Length = 75
Score = 33.0 bits (75), Expect = 0.032
Identities = 15/59 (25%), Positives = 20/59 (33%), Gaps = 5/59 (8%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTIPS---GSWLCRTCVLGKRP 391
V C VCR P M+ CD C H +C G+ + + C C
Sbjct: 8 TVPVYC-VCRLPYDVTR-FMIECDACKDWFHGSCVGVEEEEAPDIDIYHCPNCEKTHGK 64
>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural
protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A
Length = 142
Score = 34.0 bits (77), Expect = 0.041
Identities = 12/62 (19%), Positives = 21/62 (33%), Gaps = 11/62 (17%)
Query: 333 LEFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQAC---------YGITTIPSGSWLCR 383
+ D + + + CR EG ++ CD C+ + C + W C
Sbjct: 55 ISRDSDGMDEQCRWCA--EGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCY 112
Query: 384 TC 385
C
Sbjct: 113 IC 114
>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification,
leukemia, alternative splicing, chromatin regulator,
developmental protein; NMR {Homo sapiens} PDB: 2kgi_A*
3gl6_A*
Length = 52
Score = 31.8 bits (72), Expect = 0.043
Identities = 12/48 (25%), Positives = 22/48 (45%), Gaps = 4/48 (8%)
Query: 341 CDVCRSPDSEEGNEMVFCD-CCNICVHQACYGITTIP--SGSWLCRTC 385
C+ P ++ + V CD C+ HQ C G++ + ++C C
Sbjct: 5 AQNCQRPC-KDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINC 51
>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger,
alpha-helical bundle, dimethyl-lysine, bromodom
chromatin regulator, metal-binding, nucleus; HET: MLY;
1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A*
3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*
Length = 174
Score = 34.1 bits (78), Expect = 0.047
Identities = 15/76 (19%), Positives = 28/76 (36%), Gaps = 4/76 (5%)
Query: 332 GLEFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTI---PSGSWLCRTCVLG 388
G + + +C++P+ +E + CD C H C GI ++C C
Sbjct: 1 GPLGSDTKLYCICKTPE-DESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQST 59
Query: 389 KRPECILCPNKGGAMK 404
+ +L P +
Sbjct: 60 EDAMTVLTPLTEKDYE 75
>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway,
WNT signaling complex, chromosomal rearrangement,
signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A
2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*
Length = 65
Score = 31.6 bits (71), Expect = 0.063
Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 10/55 (18%)
Query: 341 CDVCRSPDSEEGNEMVFCDC-CNICVHQACYGITTI--------PSGSWLCRTCV 386
C +C + + + + + C+ C H+ C G+T S W C TC+
Sbjct: 11 CGICTN-EVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTCM 64
>2zet_C Melanophilin; complex, GTP-binding protein, GTPase, G-protein, RAB,
RAB27B, effector, SLP homology domain, acetylation,
lipoprotein, membrane; HET: GTP; 3.00A {Mus musculus}
Length = 153
Score = 32.6 bits (73), Expect = 0.12
Identities = 15/84 (17%), Positives = 27/84 (32%), Gaps = 8/84 (9%)
Query: 302 QEDRLEKMIAELEVRCWDKVQTIIKEEEGLGLEFDENVICDVCRSPDSEEGNEMVFCDCC 361
+E+RL+ + +++ + C C P N C C
Sbjct: 39 EEERLQGLKGKIQKESSKRELLSDTAHLNET-------HCARCLQPYRLLLNSRRQCLEC 91
Query: 362 NICVHQACYGITTIPSGSWLCRTC 385
++ V ++C WLC C
Sbjct: 92 SLFVCKSC-SHAHPEEQGWLCDPC 114
>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB
protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus}
SCOP: g.50.1.1
Length = 134
Score = 32.2 bits (72), Expect = 0.13
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 341 CDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTI--PSGSWLCRTCV 386
C +C G+ V C+ C V C T+ P WLC+ C+
Sbjct: 58 CILCGEQLGMLGSASVVCEDCKKNVCTKCGVETSNNRPHPVWLCKICL 105
>2rsd_A E3 SUMO-protein ligase SIZ1; E3 SUMO ligase, plant homeodomain
(PHD), histone binding; NMR {Oryza sativa japonica
group}
Length = 68
Score = 30.7 bits (69), Expect = 0.16
Identities = 14/58 (24%), Positives = 21/58 (36%), Gaps = 11/58 (18%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDC--CNICVHQACYGITTIPSGS------WLCRTC 385
+ V C +C S + M+ C+ C + H C I P S + C C
Sbjct: 8 EAKVRC-ICSSTMVND--SMIQCEDQRCQVWQHLNCVLIPDKPGESAEVPPVFYCELC 62
>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger,
bromodomain, H4K16 acetylation, breast C
transcription-protein binding complex; HET: ALY; 1.70A
{Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A
Length = 184
Score = 32.6 bits (74), Expect = 0.18
Identities = 18/87 (20%), Positives = 32/87 (36%), Gaps = 7/87 (8%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYG--ITTIPSGSWLCRTCVLGKRPEC 393
C VC++ G E++ C+ C H +C+ +T PSG W+C C +PE
Sbjct: 2 PNEDWCAVCQN-----GGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSKPEV 56
Query: 394 ILCPNKGGAMKCARSGNKWAHVSCALW 420
+ + ++
Sbjct: 57 EYDCDAPSHNSEKKKTEGLVKLTPIDK 83
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 32.7 bits (74), Expect = 0.19
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 8/46 (17%)
Query: 322 QTIIKEEEGLGLEFDENVICDVCRSP------DSEEGNEMVFCDCC 361
++I K G + + C C+ EG ++V C C
Sbjct: 5 ESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEG-DVV-CALC 48
>3kv5_D JMJC domain-containing histone demethylation protein 1D;
epigenetics, histone CODE, jumonji lysine demethylase,
metal-binding, zinc, zinc-finger; HET: OGA; 2.39A {Homo
sapiens} PDB: 3kv6_A*
Length = 488
Score = 33.5 bits (75), Expect = 0.20
Identities = 16/114 (14%), Positives = 28/114 (24%), Gaps = 4/114 (3%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTIPSG---SWLCRTCVLGKRPE 392
+ VCR P M+ CD C H +C G+ + + C C +
Sbjct: 34 PPPPVYCVCRQPYDVNRF-MIECDICKDWFHGSCVGVEEHHAVDIDLYHCPNCAVLHGSS 92
Query: 393 CILCPNKGGAMKCARSGNKWAHVSCALWIPEVSIGCVEKMEPITKISSIPQSRW 446
+ + V + I + S+
Sbjct: 93 LMKKRRNWHRHDYTEIDDGSKPVQAGTRTFIKELRSRVFPSADEIIIKMHGSQL 146
>1r79_A Diacylglycerol kinase, delta; C1 domain, cystein-rich zinc binding
domain, structural genomics, riken structural
genomics/proteomics initiative; NMR {Homo sapiens} SCOP:
g.49.1.1
Length = 84
Score = 30.7 bits (69), Expect = 0.24
Identities = 9/37 (24%), Positives = 12/37 (32%), Gaps = 1/37 (2%)
Query: 335 FDENVICDVCRSP-DSEEGNEMVFCDCCNICVHQACY 370
+ C VC S + C C VH +C
Sbjct: 35 LPVSAKCTVCDKTCGSVLRLQDWRCLWCKAMVHTSCK 71
>3kv4_A PHD finger protein 8; epigenetics, histone CODE, covalent histone
modifications, jumonji demethylase, mental retardation,
metal-binding, zinc; HET: M3L MLY OGA; 2.19A {Homo
sapiens}
Length = 447
Score = 32.6 bits (73), Expect = 0.30
Identities = 14/122 (11%), Positives = 36/122 (29%), Gaps = 11/122 (9%)
Query: 343 VCRSPDSEEGNEMVFCDCCNICVHQACYGIT----------TIPSGSWLCRTCVLGKRPE 392
+CR P M+ CD C H +C G+ P+ L ++ KR
Sbjct: 9 LCRLPYDVTR-FMIECDMCQDWFHGSCVGVEEEKAADIDLYHCPNCEVLHGPSIMKKRRG 67
Query: 393 CILCPNKGGAMKCARSGNKWAHVSCALWIPEVSIGCVEKMEPITKISSIPQSRWALICIL 452
+ + + ++ + + ++ +++ ++
Sbjct: 68 SSKGHDTHKGKPVKTGSPTFVRELRSRTFDSSDEVILKPTGNQLTVEFLEENSFSVPILV 127
Query: 453 CR 454
+
Sbjct: 128 LK 129
>3pur_A Lysine-specific demethylase 7 homolog;
oxidoreductase-oxidoreductase inhibitor complex; HET:
2HG; 2.10A {Caenorhabditis elegans} PDB: 3n9l_A 3n9m_A*
3n9o_A* 3n9p_A* 3n9q_A* 3n9n_A* 3puq_A*
Length = 528
Score = 32.4 bits (72), Expect = 0.39
Identities = 10/55 (18%), Positives = 17/55 (30%), Gaps = 6/55 (10%)
Query: 336 DENVICDVCRSPDSEEGNE--MVFCDCCNICVHQACYGIT---TIPSGSWLCRTC 385
E + + + N+ + CD C H C G+ + C C
Sbjct: 38 KEKPLM-SKKKSHHHKKNDFQWIGCDSCQTWYHFLCSGLEQFEYYLYEKFFCPKC 91
>1v5n_A PDI-like hypothetical protein AT1G60420; DC1 domain, zinc binding
domain, PDI-like protein, structural genomics; NMR
{Arabidopsis thaliana} SCOP: g.49.1.3
Length = 89
Score = 29.1 bits (65), Expect = 0.81
Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 5/40 (12%)
Query: 331 LGLEFDENVICDVCRSPDSEEGNEMVF-CDCCNICVHQAC 369
L L + CD C EEG + CD C+ +H C
Sbjct: 40 LELTRVQVYTCDKCE----EEGTIWSYHCDECDFDLHAKC 75
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3
ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Length = 238
Score = 30.5 bits (68), Expect = 1.1
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 2/35 (5%)
Query: 446 WALICILCRERLGACIQCSVKTCKTAYHVTCAFKH 480
IC +C L C +TC H+ C K+
Sbjct: 179 AVKICNICHSLLIQGQSC--ETCGIRMHLPCVAKY 211
>1k7c_A Rhamnogalacturonan acetylesterase; N-linked glycosylation,
SGNH-hydrolase, hydrolase; HET: NAG MAN; 1.12A
{Aspergillus aculeatus} SCOP: c.23.10.4 PDB: 1dex_A*
1deo_A* 1pp4_A* 3c1u_A*
Length = 233
Score = 30.4 bits (68), Expect = 1.2
Identities = 16/115 (13%), Positives = 33/115 (28%), Gaps = 14/115 (12%)
Query: 14 QILAKPFKVPILNYTGSGYSTKALGVRREGARKALHDPTAPNALVLYTPPQLSAHDLLKI 73
+ LA ++N +G S + REG + + D V+ + +D +
Sbjct: 25 EYLASYLSATVVNDAVAGRSAR--SYTREGRFENIADVVTAGDYVIV---EFGHNDGGSL 79
Query: 74 DKDKIQVHVVV---DPVLSNIYLTWKTNHQYEIRLPLFRPKHKYIRITKKDSFKP 125
D + + S +T + L ++ K
Sbjct: 80 STDNGRTDCSGTGAEVCYSVYDGVNETILTFPAYL------ENAAKLFTAKGAKV 128
>3gjx_B Snurportin-1; transport, cytoplasm, nucleus, RNA-binding,
acetylation, GTP-binding, HOST-virus interaction,
nucleotide-binding, phosphoprotein; HET: GTP; 2.50A
{Homo sapiens} PDB: 3nby_B* 3nbz_B* 3nc0_B* 3gb8_B
2qna_B
Length = 365
Score = 30.2 bits (67), Expect = 1.7
Identities = 27/158 (17%), Positives = 56/158 (35%), Gaps = 15/158 (9%)
Query: 264 VTVVSTLNSTRYPNNYNEPFKLGNNKHLFPIPPGLPAIQEDRLEKMIAELEVRCWDKVQT 323
+V LNST P+ +K Q +R +++ + + D V
Sbjct: 17 FSVSQDLNSTAAPHPRLSQYKS----------KYSSLEQSERRRRLLELQKSKRLDYVNH 66
Query: 324 I--IKEEEGLGLEFDENVICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTIPSGSWL 381
+ E++ G+E +E D D + ++ + + + + + W+
Sbjct: 67 ARRLAEDDWTGMESEEENKKDD-EEMDIDTVKKLPKHYANQLMLSEWLIDVPSDLGQEWI 125
Query: 382 CRTCVLGKRPECILCPNKGGAMKCARSGNKWAHVSCAL 419
C +GKR ++ ++G +SG S L
Sbjct: 126 VVVCPVGKR--ALIVASRGSTSAYTKSGYCVNRFSSLL 161
>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 74
Score = 27.6 bits (61), Expect = 2.1
Identities = 9/30 (30%), Positives = 12/30 (40%), Gaps = 2/30 (6%)
Query: 450 CILCRERLGACIQCSVKTCKTAYHVTCAFK 479
C +C L C +TC H+ C K
Sbjct: 18 CNICHSLLIQGQSC--ETCGIRMHLPCVAK 45
>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 27.2 bits (60), Expect = 3.1
Identities = 14/52 (26%), Positives = 18/52 (34%), Gaps = 2/52 (3%)
Query: 336 DENVICDVCRSPDSEEGNEMVFCDCC--NICVHQACYGITTIPSGSWLCRTC 385
IC +C +E + C C VHQAC S + C C
Sbjct: 13 SSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELC 64
>2csz_A Synaptotagmin-like protein 4; exophilin 2, granuphilin, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 76
Score = 27.2 bits (60), Expect = 3.3
Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 2/46 (4%)
Query: 340 ICDVCRSPDSEEGNEMVFCDCCNICVHQACYGITTIPSGSWLCRTC 385
C C+ + C CN V + C +G+W C+ C
Sbjct: 27 TCARCQESLGRLSPKTNTCRGCNHLVCRDCR--IQESNGTWRCKVC 70
>2xde_A GAG polyprotein, HIV-1 capsid; AIDS, viral protein; HET: 1B0; 1.40A
{Human immunodeficiency virus 1} PDB: 1m9y_C 2x2d_D*
1m9x_C 1m9e_C 1m9f_C 1afv_A 1gwp_A 2pxr_C 2gol_B 1m9c_C
2x83_A 4e91_A* 4e92_A* 2pwo_A 2pwm_A 2gon_A 1ak4_C
2jpr_A* 1m9d_C 4dga_C ...
Length = 145
Score = 28.3 bits (63), Expect = 4.1
Identities = 20/80 (25%), Positives = 38/80 (47%), Gaps = 6/80 (7%)
Query: 109 RPKHKYIRITKKDSFKPEEHVLSNVLEKAEKACLYDLDDCDIAWLNILNGERACMGIMYN 168
R + ++++ ++ +F PE V+ +E A DL+ LN + G +A M ++
Sbjct: 19 RTLNAWVKVVEEKAFSPE--VIPMFSALSEGATPQDLN----TMLNTVGGHQAAMQMLKE 72
Query: 169 TQDDEEATSSPMDSVHSSRG 188
T ++E A + V RG
Sbjct: 73 TINEEAAEWDRLHPVGEPRG 92
>1aor_A Aldehyde ferredoxin oxidoreductase; HET: PTE; 2.30A {Pyrococcus
furiosus} SCOP: a.110.1.1 d.152.1.1
Length = 605
Score = 29.2 bits (65), Expect = 4.1
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 293 PIPPGLPAIQEDRLEKMIAEL-EVRCWDKVQTIIKEE--EGLGLE 334
P+P G RL++M+ ++R W + I +E E LG+
Sbjct: 559 PMPEGPNKGHTVRLKEMLPRYYKLRGWTE-DGKIPKEKLEELGIA 602
>1nee_A EIF-2-beta, probable translation initiation factor 2 beta subunit;
two domain protein, mixed alpha-beta structure; NMR
{Methanothermobacterthermautotrophicus} SCOP: d.241.1.1
g.59.1.1
Length = 138
Score = 27.6 bits (61), Expect = 5.0
Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 8/44 (18%)
Query: 328 EEGLGLEFDENVICDVCRSPDSE--EGNEMVFCDCCNICVHQAC 369
E + ++ VIC C PD+ + C +AC
Sbjct: 92 NERIEDYVNKFVICHECNRPDTRIIREGRISLLKC------EAC 129
>1k81_A EIF-2-beta, probable translation initiation factor 2 beta subunit;
zinc ribbon; NMR {Methanocaldococcus jannaschii} SCOP:
g.59.1.1
Length = 36
Score = 25.5 bits (56), Expect = 5.7
Identities = 9/27 (33%), Positives = 12/27 (44%), Gaps = 4/27 (14%)
Query: 339 VICDVCRSPDS----EEGNEMVFCDCC 361
VIC C PD+ E ++ C C
Sbjct: 1 VICRECGKPDTKIIKEGRVHLLKCMAC 27
>3gj3_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc
finger, acetylation, cytoplasm, GTP-binding, HOST-virus
interaction; HET: GDP; 1.79A {Rattus norvegicus} PDB:
2gqe_A
Length = 33
Score = 24.9 bits (54), Expect = 7.0
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 9/33 (27%)
Query: 374 TIPSGSWLCRTCVLGKRPECILCPNKGGAMKCA 406
+ SG+W C TC L NK A+KC
Sbjct: 2 PLGSGTWDCDTC---------LVQNKPEAVKCV 25
>2e9h_A EIF-5, eukaryotic translation initiation factor 5; zinc binding, C4
type zinc finger, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 157
Score = 27.3 bits (60), Expect = 8.4
Identities = 10/60 (16%), Positives = 22/60 (36%), Gaps = 10/60 (16%)
Query: 328 EEGLGLEFDENVICDVCRSPDS----EEGNEMVFCDCCNICVHQACYGITTIPSGSWLCR 383
++ L + V+C C +P++ + + C +AC + + LC
Sbjct: 93 QDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGNSC------KACGYRGMLDTHHKLCT 146
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.134 0.424
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,083,929
Number of extensions: 489595
Number of successful extensions: 1279
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1222
Number of HSP's successfully gapped: 119
Length of query: 525
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 427
Effective length of database: 3,965,535
Effective search space: 1693283445
Effective search space used: 1693283445
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (27.5 bits)