RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16435
(277 letters)
>3nxb_A CAT eye syndrome critical region protein 2; structural genomics
consortium, SGC, CECR2, CAT eye syndrome chromosome
region candidate 2, bromodomain; 1.83A {Homo sapiens}
Length = 116
Score = 130 bits (330), Expect = 9e-39
Identities = 47/102 (46%), Positives = 71/102 (69%)
Query: 107 EDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTF 166
+D M+KV++ +K+H+D+WPF +PVDE+ APNYY+ IK PMD++ ME+KL+ G Y T
Sbjct: 15 DDDFTAMYKVLDVVKAHKDSWPFLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTK 74
Query: 167 GQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRY 208
+F D + + NCRKYNG +EYT M L++ F A+ ++
Sbjct: 75 EEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCFHRAMMKH 116
>2d9e_A Peregrin; four-helix bundle, transcription activator, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 121
Score = 129 bits (326), Expect = 4e-38
Identities = 36/115 (31%), Positives = 54/115 (46%)
Query: 104 STEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRY 163
S I + K + +L+ + F +PV + P+Y + IK+PMD M++ L+A RY
Sbjct: 3 SGSSGFLILLRKTLEQLQEKDTGNIFSEPVPLSEVPDYLDHIKKPMDFFTMKQNLEAYRY 62
Query: 164 KTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSE 218
F F DF LIV NC KYN D + RL++ + + GS
Sbjct: 63 LNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQARRQAEKMGSG 117
>3d7c_A General control of amino acid synthesis protein 5; GCN5,
bromodomain, structural genomics consortium, SGC,
HOST-virus interaction, nucleus; 2.06A {Homo sapiens}
SCOP: a.29.2.1 PDB: 1f68_A 1jm4_B* 1n72_A 1wug_A*
1wum_A* 1zs5_A* 2rnw_A* 2rnx_A* 3gg3_A
Length = 112
Score = 128 bits (325), Expect = 5e-38
Identities = 38/100 (38%), Positives = 58/100 (58%)
Query: 104 STEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRY 163
+ L + ++ ++KSH AWPF +PV ++ AP+YYE I+ P+DL M E+L + Y
Sbjct: 3 EDPDQLYTTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYY 62
Query: 164 KTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRD 203
T F AD Q ++ NCR+YN D+EY L++ F
Sbjct: 63 VTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYF 102
>1e6i_A Transcriptional activator GCN5; gene regulation, bromodomain,
histone binding, N-acetyl lysine; HET: ALY; 1.87A
{Saccharomyces cerevisiae} SCOP: a.29.2.1
Length = 121
Score = 128 bits (325), Expect = 7e-38
Identities = 37/110 (33%), Positives = 59/110 (53%)
Query: 103 RSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGR 162
R + ++ L++H AWPF PV++ P+YY+ IK PMDL+ ME KL++ +
Sbjct: 8 RPKRGPHDAAIQNILTELQNHAAAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNK 67
Query: 163 YKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGE 212
Y+ F D +L+ +NCR YNG + Y RL++ F + V +
Sbjct: 68 YQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPEYS 117
>3g0l_A Hwalp4, bromodomain adjacent to zinc finger domain protei; BAZB2,
KIAA1 WALP4, structural genomics consortium, SGC,
transcription; 2.03A {Homo sapiens} PDB: 3q2f_A* 2e7o_A
Length = 117
Score = 128 bits (323), Expect = 1e-37
Identities = 33/101 (32%), Positives = 55/101 (54%), Gaps = 1/101 (0%)
Query: 103 RSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGR 162
R +DL + ++ +++HEDAWPF PV+ P Y + IK+PMD + + EKL +G+
Sbjct: 9 RDDSKDLAL-CSMILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQ 67
Query: 163 YKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRD 203
Y F D +L+ DNC +N D++ +++ F
Sbjct: 68 YPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEK 108
>3hme_A Bromodomain-containing protein 9; BRD9, bromodomain containing 9
isoform 1, LAVS3040, rhabdomyosarcoma antigen
MU-RMS-40.8; 2.23A {Homo sapiens}
Length = 123
Score = 127 bits (320), Expect = 4e-37
Identities = 30/99 (30%), Positives = 52/99 (52%)
Query: 109 LRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFGQ 168
++ + + +L+ + F PV +A AP Y IK PMD M++K+ A YK+ +
Sbjct: 14 IQQLLEHFLRQLQRKDPHGFFAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANEYKSVTE 73
Query: 169 FRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSR 207
F+ADF+L+ DN YN D Y + +++ +S+
Sbjct: 74 FKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMMSK 112
>3rcw_A Bromodomain-containing protein 1; transcription, structural
genomics, structural consortium, SGC; 2.21A {Homo
sapiens}
Length = 135
Score = 126 bits (319), Expect = 6e-37
Identities = 40/127 (31%), Positives = 60/127 (47%), Gaps = 6/127 (4%)
Query: 109 LRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFGQ 168
L + + V+++L+ + A F PV P+Y + IK PMD M ++L+A YK +
Sbjct: 14 LTVLLRSVLDQLQDKDPARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHE 73
Query: 169 FRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSEDEEEMAVEFQ 228
F DF LI+DNC KYN D + RL+ + + S G E+ M
Sbjct: 74 FEEDFDLIIDNCMKYNARDTVFYRAAVRLRDQGGVVLRQARREVDSIGLEEASGM----- 128
Query: 229 EELPPKP 235
LP +P
Sbjct: 129 -HLPERP 134
>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 = 127 bits (320), Expect = 1e-36
Identities = 39/107 (36%), Positives = 56/107 (52%)
Query: 102 YRSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAG 161
E G+ +V+ L++H+ AWPF +PVD AP+YY IK PMDL MEE++
Sbjct: 66 LTPLTEKDYEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRR 125
Query: 162 RYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRY 208
Y+ +F AD I DNCR YN D+ + L+ F + +
Sbjct: 126 YYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGF 172
>2i7k_A Bromodomain-containing protein 7; helix, LEFT-handed four-helix
bundle, transcription; NMR {Homo sapiens}
Length = 117
Score = 125 bits (315), Expect = 1e-36
Identities = 26/100 (26%), Positives = 51/100 (51%)
Query: 109 LRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFGQ 168
L+ ++++M +L+ + + F PV + AP Y IK PMD + M+EK+ Y++ +
Sbjct: 9 LQEALNQLMRQLQRKDPSAFFSFPVTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEE 68
Query: 169 FRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRY 208
+ +F+L+ N YN + Y ++L +S+
Sbjct: 69 LKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMKILSQE 108
>3dai_A ATPase family AAA domain-containing protein 2; ancca, AAA+ nuclear
coregulator cancer-associated Pro2000 protein, two AAA
DOMA containing protein; 1.95A {Homo sapiens} PDB:
3lxj_A
Length = 130
Score = 124 bits (313), Expect = 5e-36
Identities = 38/123 (30%), Positives = 56/123 (45%), Gaps = 3/123 (2%)
Query: 107 EDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTF 166
+LRI + V +RL + F PVD P+Y IK+PMDL+ + K+D +Y T
Sbjct: 9 RELRIFLRNVTHRLAIDKRFRVFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTV 68
Query: 167 GQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSEDEEEMAVE 226
+ D LI N +YN + ++R RD + E ED E++ E
Sbjct: 69 KDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIKEEL---DEDFEQLCEE 125
Query: 227 FQE 229
QE
Sbjct: 126 IQE 128
>4alg_A Bromodomain-containing protein 2; signaling protein, inhibitor,
histone, epigenetic reader; HET: 1GH; 1.60A {Homo
sapiens} PDB: 4a9e_A 4a9h_A* 4a9i_A* 4a9j_A* 4a9m_A*
4a9n_A* 4a9o_A* 4a9p_A* 4a9f_A* 4alh_A* 4akn_A* 2yek_A*
2ydw_A* 2yw5_A
Length = 154
Score = 121 bits (306), Expect = 1e-34
Identities = 38/137 (27%), Positives = 59/137 (43%), Gaps = 17/137 (12%)
Query: 107 EDLRIGMHKVMNRLKSHEDAWPFCDPVD--EATAPNYYEQIKRPMDLTRMEEKLDAGRYK 164
L+ VM L H+ AWPF PVD + P+Y++ IK+PMD+ ++ +L+ Y
Sbjct: 31 NQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYW 90
Query: 165 TFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSEDEEEMA 224
+ DF + NC YN ++ M + L++IF V M
Sbjct: 91 AASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKV---------------ASMP 135
Query: 225 VEFQEELPPKPKGKRGR 241
E QE + PK +
Sbjct: 136 QEEQELVVTIPKNSHKK 152
>3uv4_A Second bromodomain of human transcription initiat TFIID subunit 1
(TAF1); structural genomics consortium, SGC; 1.89A {Homo
sapiens} PDB: 3hmh_A
Length = 158
Score = 119 bits (300), Expect = 8e-34
Identities = 33/128 (25%), Positives = 63/128 (49%), Gaps = 6/128 (4%)
Query: 88 DTSSLCSYQTSTGGYRSTEEDLRIGMHK-----VMNRLKSHEDAWPFCDPVDEATAPNYY 142
SS T ++S ++D ++ V ++ + D+WPF PV++ P+YY
Sbjct: 6 HHSSGVDLGTENLYFQSMDDD-QVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVPDYY 64
Query: 143 EQIKRPMDLTRMEEKLDAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFR 202
+ I PMDL + + + +Y++ F D LI+ N KYNG +++YT + + +
Sbjct: 65 KVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCY 124
Query: 203 DAVSRYLD 210
++ Y +
Sbjct: 125 QTLTEYDE 132
>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural
genomics, NPPSFA; 2.50A {Homo sapiens}
Length = 135
Score = 118 bits (297), Expect = 2e-33
Identities = 39/132 (29%), Positives = 64/132 (48%), Gaps = 4/132 (3%)
Query: 89 TSSLCSYQTSTGGYRSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRP 148
+S + + G + T D R +++ L HE + F DPV P+YY+ IK P
Sbjct: 2 SSGSSGKKKTEGLVKLTPIDKRK-CERLLLFLYCHEMSLAFQDPVPLT-VPDYYKIIKNP 59
Query: 149 MDLTRMEEKL--DAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVS 206
MDL+ ++++L D Y F ADF+LI NC ++N D+E + +L+ F + +
Sbjct: 60 MDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLK 119
Query: 207 RYLDGERSSGSE 218
+R S
Sbjct: 120 NLYPEKRFPKSG 131
>2oss_A HUNK1 protein, bromodomain-containing protein 4; BRD4, structural
genomics consortium, SGC, signaling protein; 1.35A {Homo
sapiens} PDB: 2yel_A* 3mxf_A* 3p5o_A* 3svf_A* 3svg_A*
3u5j_A* 3u5k_A* 3u5l_A* 3uvw_A* 3uvx_A* 3uvy_A* 3uw9_A*
3zyu_A* 4a9l_A* 4e96_A* 3jvj_A 3jvk_A* 3muk_A* 3mul_A*
2nxb_A ...
Length = 127
Score = 117 bits (295), Expect = 2e-33
Identities = 30/103 (29%), Positives = 51/103 (49%), Gaps = 2/103 (1%)
Query: 103 RSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVD--EATAPNYYEQIKRPMDLTRMEEKLDA 160
+ L+ + V+ L H+ AWPF PVD + P+YY+ IK PMD+ ++++L+
Sbjct: 16 KRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLEN 75
Query: 161 GRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRD 203
Y + DF + NC YN ++ M L+++F
Sbjct: 76 NYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQ 118
>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 131
Score = 116 bits (291), Expect = 8e-33
Identities = 35/129 (27%), Positives = 52/129 (40%), Gaps = 5/129 (3%)
Query: 98 STGGYRSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEK 157
S+G +T +LR+ + V RL + + F PV +Y E IK PMDL+ + K
Sbjct: 2 SSGSSGNTLRELRLFLRDVTKRLATDKRFNIFSKPVS-----DYLEVIKEPMDLSTVITK 56
Query: 158 LDAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGS 217
+D Y T F D LI N +YN + ++R +D + E
Sbjct: 57 IDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAAELDPEF 116
Query: 218 EDEEEMAVE 226
E E
Sbjct: 117 NKLCEEIKE 125
>3p1f_A CREB-binding protein; structural genomics consortium, SGC, CBP,
crebbp, CREB bindi protein isoform A, KAT3A, RSTS, RST,
bromodomain, transcrip; HET: 3PF; 1.63A {Homo sapiens}
PDB: 3dwy_A 3p1d_A 3p1c_A 3p1e_A* 3svh_A* 4a9k_A*
1jsp_B* 2d82_A* 2l84_A* 2l85_A* 2rny_A* 3i3j_A
Length = 119
Score = 114 bits (288), Expect = 2e-32
Identities = 29/111 (26%), Positives = 53/111 (47%), Gaps = 3/111 (2%)
Query: 103 RSTEEDLRIGMHKVMNRL-KSHEDAWPFCDPVDEAT--APNYYEQIKRPMDLTRMEEKLD 159
E+LR + + L + ++ PF PVD P+Y++ +K PMDL+ ++ KLD
Sbjct: 6 IFKPEELRQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLD 65
Query: 160 AGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLD 210
G+Y+ Q+ D L+ +N YN + +L ++F + +
Sbjct: 66 TGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQ 116
>3fkm_X Signaling protein; bromodomain, malaria, structural genomics,
structural genomi consortium, SGC; 2.50A {Plasmodium
falciparum 3D7}
Length = 166
Score = 114 bits (286), Expect = 1e-31
Identities = 34/146 (23%), Positives = 62/146 (42%), Gaps = 2/146 (1%)
Query: 102 YRSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVD--EATAPNYYEQIKRPMDLTRMEEKLD 159
Y + + ++++ L +E F VD + P+YY+ IK PM + ++ KL
Sbjct: 15 YFQGNKQWYLLANQLILSLSKYEGGHIFEKLVDAKKQNCPDYYDVIKNPMSFSCIKTKLK 74
Query: 160 AGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSED 219
G+Y +F D QLI DNC YN ++ + ++ F + + +
Sbjct: 75 KGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFNNQLIVMGYNNFILKEKK 134
Query: 220 EEEMAVEFQEELPPKPKGKRGRKKKI 245
+M +EE K K + ++I
Sbjct: 135 INDMLKLVEEENIKWSKEKEDQIEEI 160
>3aad_A Transcription initiation factor TFIID subunit 1; protein-protein
complex, bromodomain, transcription, transcr regulation,
chromatin regulator, transcription-C complex; 3.30A
{Homo sapiens}
Length = 292
Score = 117 bits (293), Expect = 2e-31
Identities = 33/196 (16%), Positives = 74/196 (37%), Gaps = 17/196 (8%)
Query: 28 KEIERKLQKQKEEETRRHQEEEERLEEEWRK--------HKAARERQRRIENRERGSRSN 79
+ + ++K+ +E E + + + ++ + + +
Sbjct: 91 QTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDK 150
Query: 80 SEDRWTTEDTSSLCSYQTSTGGYRSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAP 139
+ Q + I + V ++ + D+WPF PV++ P
Sbjct: 151 LARLEKAINPLLDDDDQVAFS---------FILDNIVTQKMMAVPDSWPFHHPVNKKFVP 201
Query: 140 NYYEQIKRPMDLTRMEEKLDAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQ 199
+YY+ I PMDL + + + +Y++ F D LI+ N KYNG +++YT + +
Sbjct: 202 DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN 261
Query: 200 IFRDAVSRYLDGERSS 215
+ ++ Y +
Sbjct: 262 VCYQTLTEYDEHLTQL 277
Score = 106 bits (266), Expect = 2e-27
Identities = 27/145 (18%), Positives = 56/145 (38%)
Query: 64 ERQRRIENRERGSRSNSEDRWTTEDTSSLCSYQTSTGGYRSTEEDLRIGMHKVMNRLKSH 123
+ ++ + T +++ L + ++N ++
Sbjct: 3 HMVLKFPKQQLPPKKKRRVGTTVHCDYLNRPHKSIHRRRTDPMVTLSSILESIINDMRDL 62
Query: 124 EDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFGQFRADFQLIVDNCRKY 183
+ +PF PV+ +YY+ I RPMDL + E + Y + +FR +LIV N Y
Sbjct: 63 PNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY 122
Query: 184 NGLDNEYTDMVRRLQQIFRDAVSRY 208
NG + T + + + + + +
Sbjct: 123 NGPKHSLTQISQSMLDLCDEKLKEK 147
>3uv5_A Transcription initiation factor TFIID subunit 1; tandem
bromodomain, TAF1, cell cycle gene 1 protein, TBP-ASS
factor 250 kDa; 2.03A {Homo sapiens} PDB: 1eqf_A
Length = 265
Score = 115 bits (290), Expect = 3e-31
Identities = 32/191 (16%), Positives = 73/191 (38%), Gaps = 17/191 (8%)
Query: 28 KEIERKLQKQKEEETRRHQEEEERLEEEWRK--------HKAARERQRRIENRERGSRSN 79
+ + ++K+ +E E + + + ++ + + +
Sbjct: 58 QTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDK 117
Query: 80 SEDRWTTEDTSSLCSYQTSTGGYRSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAP 139
+ Q + + V ++ + D+WPF PV++ P
Sbjct: 118 LARLEKAINPLLDDDDQVAFSFIL---------DNIVTQKMMAVPDSWPFHHPVNKKFVP 168
Query: 140 NYYEQIKRPMDLTRMEEKLDAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQ 199
+YY+ I PMDL + + + +Y++ F D LI+ N KYNG +++YT + +
Sbjct: 169 DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN 228
Query: 200 IFRDAVSRYLD 210
+ ++ Y +
Sbjct: 229 VCYQTLTEYDE 239
Score = 108 bits (270), Expect = 3e-28
Identities = 26/103 (25%), Positives = 48/103 (46%)
Query: 106 EEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKT 165
L + ++N ++ + +PF PV+ +YY+ I RPMDL + E + Y +
Sbjct: 12 MVTLSSILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPS 71
Query: 166 FGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRY 208
+FR +LIV N YNG + T + + + + + +
Sbjct: 72 REEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEK 114
>3q2e_A Bromodomain and WD repeat-containing protein 1; structural genomics
consortium, SGC, cell cycle progression, signal
transduction, apoptosis; 1.74A {Homo sapiens}
Length = 123
Score = 111 bits (279), Expect = 5e-31
Identities = 31/103 (30%), Positives = 49/103 (47%), Gaps = 1/103 (0%)
Query: 102 YRSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAG 161
E + + +++N + ED+ PF PVD P+Y + I PMD + E LDAG
Sbjct: 4 TNYVESNWKKQCKELVNLIFQCEDSEPFRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAG 63
Query: 162 RYKTFGQFRADFQLIVDNCRKYNGLD-NEYTDMVRRLQQIFRD 203
Y + +F D +LI N + Y ++ M RL +F +
Sbjct: 64 NYDSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEE 106
>3jvl_A Bromodomain-containing protein 4; alpha helical, N-acetyl lysine
binding domain, signaling protein; 1.20A {Mus musculus}
PDB: 3jvm_A 2dww_A 2i8n_A 3oni_A* 2dvv_A* 2e3k_A* 2g4a_A
3s92_A* 2oo1_A* 2e7n_A 2wp1_A*
Length = 120
Score = 110 bits (276), Expect = 1e-30
Identities = 35/93 (37%), Positives = 51/93 (54%), Gaps = 2/93 (2%)
Query: 113 MHKVMNRLKSHEDAWPFCDPVD--EATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFGQFR 170
+ K M K AWPF PVD +Y + IK PMD++ ++ KL++ Y+ +F
Sbjct: 17 ILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFG 76
Query: 171 ADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRD 203
AD +L+ NC KYN D+E M R+LQ +F
Sbjct: 77 ADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEM 109
>3k2j_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180,
polybromo01D, PBRM1, BRG associated factor 180,
structural genomics consortium, SGC; 2.20A {Homo
sapiens}
Length = 130
Score = 109 bits (275), Expect = 2e-30
Identities = 28/118 (23%), Positives = 53/118 (44%), Gaps = 6/118 (5%)
Query: 94 SYQTSTGGYRSTEEDLRIGMHKVMNRLKSHED------AWPFCDPVDEATAPNYYEQIKR 147
+ + G E+L ++ + ++S + A PF + P+YY+QIK
Sbjct: 3 HHHHHSSGVDLGTENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKM 62
Query: 148 PMDLTRMEEKLDAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAV 205
P+ L ++ KL Y+T D L+ +N ++YN ++ V +LQQ+ +
Sbjct: 63 PISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKK 120
>3iu5_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180,
polybromo0ID, PBRM1, BRG associated factor 180,
structural genomics, SGC; 1.63A {Homo sapiens}
Length = 116
Score = 109 bits (274), Expect = 2e-30
Identities = 25/113 (22%), Positives = 49/113 (43%), Gaps = 6/113 (5%)
Query: 104 STEEDLRIGMHKVMNRLKSHED------AWPFCDPVDEATAPNYYEQIKRPMDLTRMEEK 157
S D H++ N ++ ++D F P+YYE + +P+DL ++++K
Sbjct: 1 SMTVDPIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQK 60
Query: 158 LDAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLD 210
L Y ADFQL+ +N + Y D+ +L ++ + ++
Sbjct: 61 LKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQ 113
>2ouo_A HUNK1 protein, bromodomain-containing protein 4; BRD4, structural
genomics consortium, SGC, signaling protein; 1.89A {Homo
sapiens} PDB: 2yem_A*
Length = 130
Score = 109 bits (274), Expect = 4e-30
Identities = 36/91 (39%), Positives = 50/91 (54%), Gaps = 2/91 (2%)
Query: 115 KVMNRLKSHEDAWPFCDPVD--EATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFGQFRAD 172
K M K AWPF PVD +Y + IK PMD++ ++ KL+A Y+ +F AD
Sbjct: 32 KEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGAD 91
Query: 173 FQLIVDNCRKYNGLDNEYTDMVRRLQQIFRD 203
+L+ NC KYN D+E M R+LQ +F
Sbjct: 92 VRLMFSNCYKYNPPDHEVVAMARKLQDVFEM 122
>3mb3_A PH-interacting protein; PHIP, pleckstrin homology domain
interacting protein, DCAF14 DDB1 and CUL4 associated
factor 14, SGC; 2.25A {Homo sapiens}
Length = 135
Score = 107 bits (269), Expect = 2e-29
Identities = 31/109 (28%), Positives = 50/109 (45%), Gaps = 1/109 (0%)
Query: 113 MHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFGQFRAD 172
+++N + ED+ PF PVD P+Y + I PMD + E L+AG Y++ + D
Sbjct: 26 CEELLNLIFQCEDSEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKD 85
Query: 173 FQLIVDNCRKYNGLDN-EYTDMVRRLQQIFRDAVSRYLDGERSSGSEDE 220
+LI N + Y M RL F + +S L +S+ +
Sbjct: 86 VRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISSVLSDYKSALRFHK 134
>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 = 108 bits (272), Expect = 2e-29
Identities = 33/99 (33%), Positives = 53/99 (53%), Gaps = 3/99 (3%)
Query: 113 MHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKL--DAGRYKTFGQFR 170
+++ L HE + F DPV T P+YY+ IK PMDL+ ++++L D Y F
Sbjct: 86 CERLLLFLYCHEMSLAFQDPVPL-TVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFV 144
Query: 171 ADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYL 209
ADF+LI NC ++N D+E + +L+ F + +
Sbjct: 145 ADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLY 183
>2grc_A Probable global transcription activator SNF2L4; bromodomain, BRG1,
chromatin remodelling, acely-lysine binding,
protein-protein interactions; 1.50A {Homo sapiens} PDB:
3uvd_A 2h60_A
Length = 129
Score = 106 bits (267), Expect = 3e-29
Identities = 21/107 (19%), Positives = 44/107 (41%)
Query: 112 GMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFGQFRA 171
+ K + + + F P YYE I++P+D +++E++ +Y++
Sbjct: 22 AVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEK 81
Query: 172 DFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSE 218
D L+ N + +N + + LQ +F + + S G E
Sbjct: 82 DVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDSEGEE 128
>2r0y_A Chromatin structure-remodeling complex protein RSC4; bromodomain,
chromatin, remodeler, RSC, acetylation, transcription,
chromatin regulator, nucleus, phosphorylation; HET: ALY;
1.75A {Saccharomyces cerevisiae} PDB: 2r0s_A
Length = 311
Score = 109 bits (273), Expect = 2e-28
Identities = 30/142 (21%), Positives = 50/142 (35%), Gaps = 1/142 (0%)
Query: 113 MHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFGQFRAD 172
N + + PF + VD+ P YYE + PM L+ +++ L+ G+Y F D
Sbjct: 168 ASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIID 227
Query: 173 FQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSEDEE-EMAVEFQEEL 231
L+ N +N L F + + E +E E + + E
Sbjct: 228 MLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFFPELQDLNERGEINLEFDKFEFE 287
Query: 232 PPKPKGKRGRKKKIVLSPRSLT 253
G G L+ +L
Sbjct: 288 NYLAIGGGGPAAAGALAISALD 309
Score = 82.0 bits (202), Expect = 3e-18
Identities = 16/99 (16%), Positives = 33/99 (33%), Gaps = 3/99 (3%)
Query: 105 TEEDLRIGMHKVMNRLKSHED--AWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGR 162
+ ++ L F P YY +I++PM + ++ +
Sbjct: 25 HIPKFNRFISFTLDVLIDKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRDY-EY 83
Query: 163 YKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIF 201
F D +L+ NC+ YN D+ ++ +
Sbjct: 84 EDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLI 122
>2dat_A Possible global transcription activator SNF2L2; bromodomain, all
alpha protein, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 123
Score = 104 bits (261), Expect = 2e-28
Identities = 22/109 (20%), Positives = 50/109 (45%), Gaps = 6/109 (5%)
Query: 103 RSTEEDLRIGMHKVMNRLKSHED------AWPFCDPVDEATAPNYYEQIKRPMDLTRMEE 156
L M+ +++ + +++D + F P YYE I++P+D +++E
Sbjct: 8 SPNPPKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKE 67
Query: 157 KLDAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAV 205
++ +Y++ G D L+ N + +N ++ + LQ +F+ A
Sbjct: 68 RIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSAR 116
>3ljw_A Protein polybromo-1; alpha helix, alternative splicing,
bromodomain, chromatin RE DNA-binding, nucleus,
phosphoprotein, transcription; 1.50A {Homo sapiens} PDB:
2ktb_B* 3hmf_A
Length = 120
Score = 103 bits (259), Expect = 3e-28
Identities = 22/117 (18%), Positives = 48/117 (41%), Gaps = 6/117 (5%)
Query: 104 STEEDLRIGMHKVMNRLKSHED------AWPFCDPVDEATAPNYYEQIKRPMDLTRMEEK 157
S+ L+ + +++ + + + F + P+YY IK P+DL + ++
Sbjct: 4 SSPAYLKEILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQR 63
Query: 158 LDAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERS 214
+ G YK+ D L+ N + YN ++ +++IF + E +
Sbjct: 64 IQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHEMA 120
>3mqm_A Probable histone-lysine N-methyltransferase ASH1L; KIAA1420, absent
small and homeotic disks prote homolog, lysine
N-methyltransferase 2H, KMT2H; 2.54A {Homo sapiens}
Length = 126
Score = 103 bits (258), Expect = 5e-28
Identities = 27/101 (26%), Positives = 48/101 (47%), Gaps = 6/101 (5%)
Query: 113 MHKVMNRLKSHED------AWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTF 166
++ + + S++D A P + + +YYE+I P+DL +E+++ G YKT
Sbjct: 14 FKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTV 73
Query: 167 GQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSR 207
F AD + N KY G + V RL++ + +A
Sbjct: 74 EAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHE 114
>3mb4_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180,
polybromo-1D, PBRM1, BRG associated factor 180,
structural genomics consortium, SGC; 1.66A {Homo
sapiens} PDB: 3g0j_A 2yqd_A
Length = 124
Score = 103 bits (258), Expect = 6e-28
Identities = 20/107 (18%), Positives = 46/107 (42%), Gaps = 6/107 (5%)
Query: 107 EDLRIGMHKVMNRLKSHED------AWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDA 160
++ +++V +K++ D + F + P+YY IK+PMD+ ++ + A
Sbjct: 14 TPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMA 73
Query: 161 GRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSR 207
+Y+ DF ++ +N YN ++ L ++ +
Sbjct: 74 NKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRD 120
>3tlp_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180,
polybromo-1D, PBRM1, BRG associated factor 180,
structural genomics consortium, SGC; 2.13A {Homo
sapiens}
Length = 150
Score = 99.1 bits (247), Expect = 5e-26
Identities = 18/93 (19%), Positives = 36/93 (38%)
Query: 113 MHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFGQFRAD 172
+ + F + P+YY+ I PMDL +E + +Y D
Sbjct: 36 VLEAREPGSGRRLCDLFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIED 95
Query: 173 FQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAV 205
+L+ N R YN ++ + L+++ ++
Sbjct: 96 MKLMFRNARHYNEEGSQVYNDAHILEKLLKEKR 128
>2r10_A Chromatin structure-remodeling complex protein RSC4, linker,
histone H3; bromodomain, remodeler, acetylation,
transcription; HET: ALY; 2.20A {Saccharomyces
cerevisiae} PDB: 2r0v_A*
Length = 361
Score = 103 bits (257), Expect = 8e-26
Identities = 31/148 (20%), Positives = 52/148 (35%), Gaps = 1/148 (0%)
Query: 108 DLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTFG 167
+G N + + PF + VD+ P YYE + PM L+ +++ L+ G+Y
Sbjct: 213 QALLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIY 272
Query: 168 QFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSEDEE-EMAVE 226
F D L+ N +N L F + + E +E E + +
Sbjct: 273 DFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFFPELQDLNERGEINLEFD 332
Query: 227 FQEELPPKPKGKRGRKKKIVLSPRSLTP 254
E G G L+ +L
Sbjct: 333 KFEFENYLAIGGGGPAAAGALAISALDN 360
Score = 79.1 bits (194), Expect = 5e-17
Identities = 22/167 (13%), Positives = 52/167 (31%), Gaps = 3/167 (1%)
Query: 37 QKEEETRRHQEEEERLEEEWRKHKAARERQRRIENRERGSRSNSEDRWTTEDTSSLCSYQ 96
+ T + + + RK G ++++ D ++ + +
Sbjct: 7 TARKSTGGKAPRKGGMVVKKRKLATEAGGSDERPKYLPGKHPKNQEKTPHVDYNAPLNPK 66
Query: 97 TSTGGYRSTEEDLRIGMHKVMNRLKSHED--AWPFCDPVDEATAPNYYEQIKRPMDLTRM 154
+ + ++ L F P YY +I++PM + +
Sbjct: 67 SELFLDDWHIPKFNRFISFTLDVLIDKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEI 126
Query: 155 EEKLDAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIF 201
+ + D F D +L+ NC+ YN D+ ++ +
Sbjct: 127 KSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLI 172
>3iu6_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180,
polybromo0ID, PBRM1, BRG associated factor 180,
structural genomics, SGC; HET: OCS; 1.79A {Homo sapiens}
Length = 147
Score = 80.7 bits (199), Expect = 4e-19
Identities = 23/132 (17%), Positives = 48/132 (36%), Gaps = 2/132 (1%)
Query: 109 LRIGMHKVMNRLKSHEDAW--PFCDPVDEATAPNYYEQIKRPMDLTRMEEKLDAGRYKTF 166
++ +H + + SH+D + D + E A + K P+ + + ++ RY+
Sbjct: 8 IQELIHNLFVSVMSHQDDEGRCYSDSLAEIPAVDPNFPNKPPLTFDIIRKNVENNRYRRL 67
Query: 167 GQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSEDEEEMAVE 226
F+ +++ R+ N D+E + LQQ F S
Sbjct: 68 DLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDELCKNGEILLSPALSYTTKH 127
Query: 227 FQEELPPKPKGK 238
++ + K K
Sbjct: 128 LHNDVEKERKEK 139
>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain,
TGF-beta, epigenetics, methylation, K9ME3, K14AC,
transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB:
3u5m_A* 3u5o_A* 3u5p_A*
Length = 207
Score = 80.3 bits (197), Expect = 2e-18
Identities = 28/104 (26%), Positives = 49/104 (47%), Gaps = 4/104 (3%)
Query: 113 MHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKL---DAGRYKTFGQF 169
+++ L HE + F +PV + PNYY+ IK+PMDL+ +++KL + Y+ F
Sbjct: 86 CERLLLYLYCHELSIEFQEPVPA-SIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDF 144
Query: 170 RADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGER 213
AD +LI NC ++N + + + G+
Sbjct: 145 VADVRLIFKNCERFNEMMKVVQVYADTQEINLKADSEVAQAGKA 188
>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 = 66.2 bits (160), Expect = 2e-13
Identities = 20/117 (17%), Positives = 43/117 (36%), Gaps = 11/117 (9%)
Query: 93 CSYQTSTGGYRSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLT 152
C+ + + E++L+I + +V+ L + ++P+DL
Sbjct: 60 CTERHPAEWRLALEKELQISLKQVLTALLNSRTTSHLLRYRQ-----------QQPLDLE 108
Query: 153 RMEEKLDAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYL 209
++ K+D G Y + +F D I+ +G E ++ F + R
Sbjct: 109 GVKRKMDQGNYTSVLEFSDDIVKIIQAAINSDGGQPEIKKANSMVKSFFIRQMERVF 165
>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 = 66.0 bits (160), Expect = 3e-13
Identities = 19/111 (17%), Positives = 37/111 (33%), Gaps = 6/111 (5%)
Query: 113 MHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEKL---DAGRYKTFGQF 169
+V+ L HE P ++ +Q +DLT + +L + Y + +F
Sbjct: 81 CERVLLALFCHEPCRPLHQLATDS--TFSLDQPGGTLDLTLIRARLQEKLSPPYSSPQEF 138
Query: 170 RADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSEDE 220
D + K + + LQ+ F ++ + S E
Sbjct: 139 AQDVGRMFKQFNKLTEDKADVQ-SIIGLQRFFETRMNEAFGDTKFSAVLVE 188
>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 = 52.2 bits (124), Expect = 7e-08
Identities = 41/255 (16%), Positives = 79/255 (30%), Gaps = 63/255 (24%)
Query: 20 RIEKLKH------SKEIERKLQKQKEEETRRHQEE-----------EERLEEEWRKHKAA 62
+ KH + IE L + E R+ + L W
Sbjct: 343 TWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI-- 400
Query: 63 RERQRRIENRERGSRSNSEDRWTTEDTSSLCSYQTSTGGYRSTEEDLRIGMHK-VMNRLK 121
+ + N + S ++ E T S+ S + E+ +H+ +++
Sbjct: 401 KSDVMVVVN-KLHKYS-LVEKQPKESTISIPSIYLE---LKVKLENEY-ALHRSIVDHYN 454
Query: 122 SHE--DAWPFCDPVDEATAPNYY-----------EQIKRP-------MDLTRMEEKL--- 158
+ D+ P + Y+ E +R +D +E+K+
Sbjct: 455 IPKTFDSDDLIPPYLD----QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHD 510
Query: 159 ------DAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRL-QQIFRDAVSRYLDG 211
T Q + I DN KY L N D + ++ + + S+Y D
Sbjct: 511 STAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLIC---SKYTDL 567
Query: 212 ERSSGSEDEEEMAVE 226
R + ++E + E
Sbjct: 568 LRIALMAEDEAIFEE 582
Score = 32.1 bits (72), Expect = 0.24
Identities = 35/276 (12%), Positives = 80/276 (28%), Gaps = 94/276 (34%)
Query: 6 FGWLVDSISSCQSTRIEKLKHSKEIERKLQKQKEEETRRHQEEEERLE---EEWRKHKAA 62
+ +L+ I + Q+Q TR + E+ +RL + + K+ +
Sbjct: 91 YKFLMSPI------------------KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132
Query: 63 RERQRRIENRERGSRSNSEDRWTTED----------TSSLCS------------YQTSTG 100
R + + + D +C + +
Sbjct: 133 RLQP--YLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 101 GYRSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVDEATAPNY-----YEQIKRPMDLTRME 155
S E L + + +L D + D ++ +++R + E
Sbjct: 191 NCNSPETVLEM-----LQKLLYQIDP-NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244
Query: 156 EKL-------DAGRYKTFGQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVS-- 206
L +A + F + C+ + R +Q+ D +S
Sbjct: 245 NCLLVLLNVQNAKAWNAF-----NLS-----CK---------ILLTTRFKQVT-DFLSAA 284
Query: 207 ----RYLDGERSSGSEDE-EEMAVEF----QEELPP 233
LD + + DE + + +++ ++LP
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 40.5 bits (94), Expect = 2e-04
Identities = 14/67 (20%), Positives = 33/67 (49%), Gaps = 5/67 (7%)
Query: 19 TRIEKLKHSKEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQ----RRIENRER 74
+ ++L E RK ++++ + + + +E+EWR+ KA ++ + R+ E E+
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWRE-KAKKDLEEWNQRQSEQVEK 133
Query: 75 GSRSNSE 81
+N
Sbjct: 134 NKINNRI 140
Score = 34.7 bits (79), Expect = 0.016
Identities = 13/58 (22%), Positives = 30/58 (51%), Gaps = 6/58 (10%)
Query: 22 EKLKHSKEIERKLQKQKEEETRRHQEEEERLE-----EEWRKHKAARERQRRIENRER 74
E ++ +E E++ + Q+ + + E+E R + EEW + ++ + + +I NR
Sbjct: 85 ESIRKWRE-EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIA 141
Score = 31.7 bits (71), Expect = 0.16
Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 7/54 (12%)
Query: 30 IERKLQKQKEEETRR--HQEEEERLEEEWRKHKAARERQRRIENRERGSRSNSE 81
I + + +E E+ R +E+ +RL+E A + E RE+ + E
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQE-----LDAASKVMEQEWREKAKKDLEE 122
>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 = 37.3 bits (86), Expect = 0.005
Identities = 27/158 (17%), Positives = 45/158 (28%), Gaps = 44/158 (27%)
Query: 114 HKVMNRLKSHEDAWPFCDPVDEATAPNYYE---QIKRPMD------LTRMEEKLDAGRYK 164
H + +L D + NY KRP D L R + +A
Sbjct: 102 HALAAKLLQENDT---TLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVA 158
Query: 165 TF-GQFRADFQLIVDNCRKYNGLDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSEDEEEM 223
F GQ G ++Y + +R L Q + V + +
Sbjct: 159 IFGGQ----------------GNTDDYFEELRDLYQTYHVLVGDLI-----------KFS 191
Query: 224 AVEFQEELPPKPKGKRGRKKKI----VLSPRSLTPTDE 257
A E + ++ + + L S TP +
Sbjct: 192 AETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD 229
Score = 35.4 bits (81), Expect = 0.022
Identities = 24/118 (20%), Positives = 31/118 (26%), Gaps = 39/118 (33%)
Query: 50 ERLEEEWRKHKAARER-QRRIENRERGSR-SNS---------------------EDRWTT 86
L RK KA Q RI ER + SN +D
Sbjct: 387 YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKN 446
Query: 87 E---DTSSLCS--YQTSTGGYRSTEEDLRIGMHKVMNRLKSHEDAWPFCDPVD-EATA 138
+ + Y T G DLR+ + R+ PV E T
Sbjct: 447 NVSFNAKDIQIPVYDTFDG------SDLRVLSGSISERIVD----CIIRLPVKWETTT 494
Score = 35.0 bits (80), Expect = 0.029
Identities = 49/336 (14%), Positives = 94/336 (27%), Gaps = 124/336 (36%)
Query: 2 EL-EHF-GWLVDSIS-SCQSTRIEKLKHS-KEIERKLQKQKE-----EETRRHQEEEERL 52
EL F G++ + S + L E E + + + + +
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVK 118
Query: 53 EEEW-RKHKAARERQRRIENRERGS---RS----------------NSEDRWTTEDTSSL 92
+E + + AR +R +++ S R+ N++D + E+ L
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF--EELRDL 176
Query: 93 CSYQTSTGGYRSTEEDLRIGMHKVMNRL-KSHEDAWPF----CDPV----DEATAPN--Y 141
YQT Y DL + ++ L ++ DA + + + + P+ Y
Sbjct: 177 --YQT----YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 142 --YEQIKRPM-DLTRMEEKLDAGRYKTFGQFRADFQLIVDNCRKYNGLD-NEYTDMVR-- 195
I P+ + ++ Y + G E ++
Sbjct: 231 LLSIPISCPLIGVIQL------AHYVVT-------------AKLL-GFTPGELRSYLKGA 270
Query: 196 --RLQQI--------------FRDAVSRYLD-----GERSSGSEDEEEMAVEFQEELPPK 234
Q + F +V + + G R E P
Sbjct: 271 TGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRC-------------YEAYPN- 316
Query: 235 PKGKRGRKKKIVLSPRSLTPTDEEEDKENEEKSGTP 270
SL P+ E+ EN E +P
Sbjct: 317 ---------------TSLPPSILEDSLENNEGVPSP 337
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 36.0 bits (83), Expect = 0.013
Identities = 11/53 (20%), Positives = 27/53 (50%)
Query: 20 RIEKLKHSKEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRRIENR 72
E ++E+ +L +K+E E E R+EEE + + + +++++ +
Sbjct: 904 ETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQ 956
Score = 29.4 bits (66), Expect = 1.8
Identities = 11/59 (18%), Positives = 23/59 (38%), Gaps = 4/59 (6%)
Query: 19 TRIEKLKHSKEIER----KLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRRIENRE 73
+ I L+ E E+ K +KQK + + + + LE+ +E + +
Sbjct: 1123 SHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGSDYKDD 1181
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 34.7 bits (80), Expect = 0.035
Identities = 7/52 (13%), Positives = 19/52 (36%), Gaps = 1/52 (1%)
Query: 22 EKLKHSKEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRRIENRE 73
++ K++ L+ + + R+ E+ + + K E E +
Sbjct: 914 RSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEK-MNNLEITYSTETEK 964
Score = 30.8 bits (70), Expect = 0.47
Identities = 8/53 (15%), Positives = 24/53 (45%)
Query: 22 EKLKHSKEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRRIENRER 74
+KLK + +K + + + +++E+ +++K+ E+ +E
Sbjct: 907 KKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYS 959
Score = 28.5 bits (64), Expect = 2.6
Identities = 13/66 (19%), Positives = 28/66 (42%)
Query: 18 STRIEKLKHSKEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRRIENRERGSR 77
ST EKL+ E R +++ + T R +E + + ++ + ++ IE +
Sbjct: 959 STETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYK 1018
Query: 78 SNSEDR 83
+E
Sbjct: 1019 HETEQL 1024
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 32.8 bits (74), Expect = 0.098
Identities = 14/65 (21%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 22 EKLKHSKEIERKLQKQKEEETRRHQEEEERLEEE---WRKHKAARERQRRIENRERGSRS 78
E K E +L+K ++E ++ +++++ L++E +++ K A E + ++ GS++
Sbjct: 359 EAEKELHEKFDRLKKLHQDEKKKLEDKKKSLDDEVNAFKQRKTAAELLQSQGSQAGGSQT 418
Query: 79 NSEDR 83
D+
Sbjct: 419 LKRDK 423
>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 361
Score = 32.1 bits (72), Expect = 0.18
Identities = 10/42 (23%), Positives = 20/42 (47%)
Query: 14 SSCQSTRIEKLKHSKEIERKLQKQKEEETRRHQEEEERLEEE 55
S K+++ + ++ +KE E RR QE R++ +
Sbjct: 301 SERLKRGGRKVENEDMNKDQILLEKEAELRRMQEMIARMQAQ 342
>2gbw_A Biphenyl 2,3-dioxygenase alpha subunit; rieske oxygenase,
oxidoreductase, non heme iron; 1.70A {Sphingobium
yanoikuyae} PDB: 2gbx_A* 2ckf_A
Length = 454
Score = 31.4 bits (71), Expect = 0.33
Identities = 10/97 (10%), Positives = 23/97 (23%), Gaps = 4/97 (4%)
Query: 56 WRKHKAARE--RQRRIENRERGSRSNSEDRWTTEDTSSLCSYQTSTGGYRSTEEDLRIGM 113
+ A + R + ++D ++ S G + + M
Sbjct: 328 TIVPRDADPATKSMIQREAIRTFGTAG--TLESDDGENMSSATYINRGVITRNGRMNSTM 385
Query: 114 HKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMD 150
+ E + +Y K +D
Sbjct: 386 GVGYEGPHPVYPGIVGISFIGETSYRGFYRFWKEMID 422
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 30.2 bits (67), Expect = 0.91
Identities = 13/62 (20%), Positives = 20/62 (32%)
Query: 20 RIEKLKHSKEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRRIENRERGSRSN 79
R +L + K E R QE RLE + ++ E+ R+
Sbjct: 656 RSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMA 715
Query: 80 SE 81
E
Sbjct: 716 VE 717
Score = 29.4 bits (65), Expect = 1.8
Identities = 8/54 (14%), Positives = 18/54 (33%)
Query: 20 RIEKLKHSKEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRRIENRE 73
R+E+ K + E + +++ E E + ++ E R
Sbjct: 687 RLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAARIEGEGS 740
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 28.5 bits (64), Expect = 2.4
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 28 KEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRRIENRE 73
+ ++ +L EEE +E E +E + + +R R R
Sbjct: 369 ESLKTRLLLIAEEEII--EEAEANWKELVHEVEESRRRSERELTDT 412
>3pbl_A D(3) dopamine receptor, lysozyme chimera; structural genomics,
PSI-2, protein structure initiative, AC technologies
center for gene to 3D structure; HET: ETQ MAL; 2.89A
{Homo sapiens}
Length = 481
Score = 28.6 bits (63), Expect = 2.5
Identities = 12/106 (11%), Positives = 32/106 (30%), Gaps = 4/106 (3%)
Query: 56 WRKHKAARERQRRIENRER----GSRSNSEDRWTTEDTSSLCSYQTSTGGYRSTEEDLRI 111
R + ++R+R+ G R T + T + + + +L
Sbjct: 218 ARIYVVLKQRRRKNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAKSELDK 277
Query: 112 GMHKVMNRLKSHEDAWPFCDPVDEATAPNYYEQIKRPMDLTRMEEK 157
+ + N + + ++A + +A K ++
Sbjct: 278 AIGRNTNGVITKDEAEKLFNQDVDAAVRGILRNAKLKPVYDSLDAV 323
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 28.4 bits (62), Expect = 3.3
Identities = 10/65 (15%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 17 QSTRIEKLKHSKEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQ-RRIENRERG 75
+ + K + + L++Q+ + QE+E+ L+E ++K + + + ++ + R
Sbjct: 526 EHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNEIQDLQTKMRR 585
Query: 76 SRSNS 80
++ +
Sbjct: 586 RKACT 590
>3qx3_A DNA topoisomerase 2-beta; toprim domain, winged-helix domain,
coiled-coil domain, DNA and cleavage, nucleus; HET: DNA
EVP; 2.16A {Homo sapiens}
Length = 803
Score = 27.8 bits (61), Expect = 5.3
Identities = 10/76 (13%), Positives = 26/76 (34%), Gaps = 6/76 (7%)
Query: 12 SISSCQSTRIEKLKHSKEIERKLQKQKEEETRRHQ----EEEERLEEEWRKHKAARERQR 67
S+ S ++E+L K+ + K ++ + + + E+ EE K ++
Sbjct: 727 SLWSLTKEKVEELI--KQRDAKGREVNDLKRKSPSDLWKEDLAAFVEELDKVESQEREDG 784
Query: 68 RIENRERGSRSNSEDR 83
+ +
Sbjct: 785 APGFSSISAHHHHHHH 800
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 27.5 bits (61), Expect = 5.6
Identities = 11/76 (14%), Positives = 24/76 (31%), Gaps = 14/76 (18%)
Query: 47 EEEERLEEEWRKHKAARER--QRRIENRERGS---RSNSEDRWTTEDTSSL-------CS 94
E+ E+ +ARE+ + N + S +T E + S
Sbjct: 1467 TEDRY--NEYVAKVSAREKSAYKFFHNGMIYNKLFVSKEHAPYTDELEEDVYLDPLARVS 1524
Query: 95 YQTSTGGYRSTEEDLR 110
+G ++++
Sbjct: 1525 KDKKSGSLTFNSKNIQ 1540
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 27.6 bits (62), Expect = 5.7
Identities = 13/54 (24%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 20 RIEKLKHSKEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRRIENRE 73
++++++ KE + +Q Q+ E+ ++ E+RL E+ K + + ++ EN E
Sbjct: 402 KLDEVR--KEKDAAVQSQEFEKAASLRDTEQRLREQVEDTKKSWKEKQGQENSE 453
>3sbq_A Nitrous-oxide reductase; beta-propeller, cupredoxin domain,
copper-contain periplasmic, oxidoreductase; 1.70A
{Pseudomonas stutzeri} PDB: 3sbp_A 3sbr_A 1qni_A
Length = 638
Score = 27.2 bits (60), Expect = 6.8
Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 10/77 (12%)
Query: 121 KSHEDAWPFCDPVDEATAPNYYEQIKRPMD------LTRMEEKLDAGRYKTFGQFRADFQ 174
+ + + A + ++ D + +E + AG + T G D +
Sbjct: 244 ADYTGRFAAATCYNSEKAFDLGGMMRNERDWVVVFDIHAVEAAVKAGDFITLG----DSK 299
Query: 175 LIVDNCRKYNGLDNEYT 191
V + RK +G D+++T
Sbjct: 300 TPVLDGRKKDGKDSKFT 316
>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE;
1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A
Length = 260
Score = 26.9 bits (59), Expect = 7.6
Identities = 7/41 (17%), Positives = 12/41 (29%)
Query: 33 KLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRRIENRE 73
L + +ER++E + E QR
Sbjct: 217 GLYSLIQRSKCGPVGSDERVKEFKQSLIKYMETQRSYTALA 257
>1ozh_A ALS, acetolactate synthase, catabolic; acetohydroxyacid synthase,
thiamin diphosphate, lyase; HET: PGE HE3; 2.00A
{Klebsiella pneumoniae} SCOP: c.31.1.3 c.36.1.5 c.36.1.9
PDB: 1ozg_A* 1ozf_A*
Length = 566
Score = 27.1 bits (61), Expect = 7.9
Identities = 6/33 (18%), Positives = 11/33 (33%), Gaps = 9/33 (27%)
Query: 186 LDNEYTDMVRRLQQIFRDAVSRYLDGERSSGSE 218
+ +MV ++ +R SG E
Sbjct: 472 WVDNGYNMVAIQEEKK---------YQRLSGVE 495
>2oxn_A Beta-hexosaminidase; TIM-barrel, hydrolase; HET: OAN; 1.70A {Vibrio
cholerae} PDB: 3gs6_A* 3gsm_A* 1y65_A* 1tr9_A
Length = 340
Score = 26.9 bits (60), Expect = 8.6
Identities = 8/60 (13%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 9 LVDSISSCQSTRIEKLKHSKEIERKLQKQKEEETRRHQEEEERLEEEWRKHKAARERQRR 68
++D++ + + E L ++ + ++ E ++ +RL E++ +H
Sbjct: 282 VLDNLPIMEVPQAEALLKKQQFSYS-ELKRLERWQQASANMQRLIEQFSEHHHHHHHHHH 340
>3pn3_A Peptide deformylase 1B, chloroplastic; PDF, N-terminal excision
pathway, N induced-FIT, hydrolase-hydrolase inhibitor
complex; HET: PN3; 1.30A {Arabidopsis thaliana} PDB:
3m6p_A* 3o3j_A* 3pn2_A 3m6o_A* 3pn4_A* 3pn5_A 3m6q_A
3pn6_A 3m6r_A 3cpm_A
Length = 193
Score = 26.4 bits (59), Expect = 8.9
Identities = 9/49 (18%), Positives = 19/49 (38%), Gaps = 2/49 (4%)
Query: 20 RIEKLKHSKEIERKLQK-QKEEETRRHQEEEERLEEEWRKHKAARERQR 67
R+ I +L+ +K+ E + ER+E ++ +R
Sbjct: 146 RMTDQVLDS-IREELEALEKKYEEKTGLPSPERVEARQKRKAGVGFGKR 193
>3ehh_A Sensor kinase (YOCF protein); four-helix bundle, GHL ATPase
domain, transferase; HET: MSE ADP; 2.10A {Bacillus
subtilis} PDB: 3ehj_A* 3gie_A* 3gif_A* 3gig_A* 3ehf_A*
Length = 218
Score = 26.5 bits (59), Expect = 9.1
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 46 QEEEERLEEEWRKHKAARERQRRIENRERGSR 77
++E ERLEE+ ++E R+R +R
Sbjct: 2 RKERERLEEKLEDANERIAELVKLEERQRMAR 33
>1t9b_A Acetolactate synthase, mitochondrial; acetohydroxyacid synthase,
herbicide, sulfonylurea, thiamin diphosphate, FAD,
inhibitor; HET: 1CS P25 FAD NSP P22 YF3; 2.20A
{Saccharomyces cerevisiae} SCOP: c.31.1.3 c.36.1.5
c.36.1.9 PDB: 1n0h_A* 1t9a_A* 1t9c_A* 1t9d_A* 1jsc_A*
Length = 677
Score = 26.8 bits (60), Expect = 9.4
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 186 LDNEYTDMVRRLQQIFRDAVSRY 208
L+NE MV + Q +F + RY
Sbjct: 565 LNNEEQGMVTQWQSLFYE--HRY 585
>3tqq_A Methionyl-tRNA formyltransferase; protein synthesis; 2.00A
{Coxiella burnetii}
Length = 314
Score = 26.7 bits (60), Expect = 9.9
Identities = 8/18 (44%), Positives = 11/18 (61%), Gaps = 3/18 (16%)
Query: 232 PPKPKGKRGRKKKIVLSP 249
P +P G R +KI+ SP
Sbjct: 35 PDRPSG---RGQKIMESP 49
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
0.311 0.129 0.369
Gapped
Lambda K H
0.267 0.0545 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,359,262
Number of extensions: 262735
Number of successful extensions: 1203
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1075
Number of HSP's successfully gapped: 236
Length of query: 277
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 185
Effective length of database: 4,133,061
Effective search space: 764616285
Effective search space used: 764616285
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 57 (26.2 bits)