RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1228
(202 letters)
>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 = 137 bits (347), Expect = 7e-42
Identities = 52/134 (38%), Positives = 81/134 (60%), Gaps = 1/134 (0%)
Query: 64 TSKSPRALTRGKYLDNKPLKRRLYTLCKCLMDYRD-QDGRQPMLMFMELPSAKIYPEYYK 122
+S + + + K+R+ L +++ R+ GR+ +FM PS K YP+YYK
Sbjct: 7 SSATSDTGSAKRKSKKNIRKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYK 66
Query: 123 VIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLE 182
+I +P+D+ IE NI+N+KY ++ ++ D +LMF N R +NE GS +Y DA LEK+L E
Sbjct: 67 IILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKE 126
Query: 183 RVAELGPLPSGEDF 196
+ ELGPLP +D
Sbjct: 127 KRKELGPLPDDDDM 140
>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 = 132 bits (335), Expect = 2e-40
Identities = 38/108 (35%), Positives = 62/108 (57%)
Query: 80 KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQN 139
LK L L + ++ + GR +F +LPS YP+YY +IK+PID+ I IQN
Sbjct: 7 AYLKEILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQN 66
Query: 140 EKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
Y+S + D L+ N + +NEPGS +++DA +++K+ + AE+
Sbjct: 67 GSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEI 114
>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 = 133 bits (336), Expect = 2e-40
Identities = 39/123 (31%), Positives = 63/123 (51%)
Query: 72 TRGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMC 131
+ G L + L + L + R+ G+ F LPS K YP+YY+ IK PI +
Sbjct: 8 SSGVDLGTENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQ 67
Query: 132 QIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELGPLP 191
QI + ++N++Y + D + D LMF N + +N P S IY+ + L++V+ + EL
Sbjct: 68 QIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRD 127
Query: 192 SGE 194
E
Sbjct: 128 DIE 130
>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 = 132 bits (335), Expect = 2e-40
Identities = 48/126 (38%), Positives = 79/126 (62%), Gaps = 5/126 (3%)
Query: 62 ASTSKSPRALTRGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYY 121
+ + SP+ + KY+ P++++L + + + +Y D+ GR+ +F+ LPS P+YY
Sbjct: 1 SMSGISPK---KSKYMT--PMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYY 55
Query: 122 KVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLL 181
IK+P+DM +I S++ KY+ D ++ DF +MF N +NEP SLIY+DA+ L KVLL
Sbjct: 56 LTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLL 115
Query: 182 ERVAEL 187
E +L
Sbjct: 116 ETRRDL 121
>2dat_A Possible global transcription activator SNF2L2; bromodomain, all
alpha protein, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 123
Score = 131 bits (332), Expect = 6e-40
Identities = 38/108 (35%), Positives = 64/108 (59%)
Query: 80 KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQN 139
L +++ + +++Y+D GRQ +F++LPS K PEYY++I++P+D +I+ I+N
Sbjct: 12 PKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRN 71
Query: 140 EKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
KYRS ++ D L+ N + FN GS IYED++ L+ V
Sbjct: 72 HKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSARQSG 119
>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 = 130 bits (328), Expect = 2e-39
Identities = 24/112 (21%), Positives = 43/112 (38%)
Query: 78 DNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNI 137
L + +C ++ Y+D + + LP K +YY+ I P+D+ IE I
Sbjct: 6 RAARLAQIFKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQI 65
Query: 138 QNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELGP 189
Y++ + +D +F N ++ S + D L K E
Sbjct: 66 LTGYYKTVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHEASA 117
>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 = 125 bits (316), Expect = 2e-37
Identities = 40/117 (34%), Positives = 68/117 (58%), Gaps = 1/117 (0%)
Query: 80 KPLKRRLYTLCKCLMDYRDQ-DGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQ 138
L +++ + ++ Y+D GRQ +F++LPS K PEYY++I++P+D +I+ I+
Sbjct: 10 PNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIR 69
Query: 139 NEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELGPLPSGED 195
N KYRS +++ D L+ N + FN GSLIYED++ L+ V ++ E
Sbjct: 70 NHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDSEG 126
>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 = 123 bits (311), Expect = 8e-37
Identities = 33/113 (29%), Positives = 60/113 (53%), Gaps = 2/113 (1%)
Query: 82 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEK 141
+ L + DY+D+ GR +F+ P + P+YY+V+ QPID+ +I+ ++ E+
Sbjct: 6 PIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEE 65
Query: 142 YRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELGPLPSGE 194
Y + + +DF+L+F N + + +P S Y+ A L + L E + GE
Sbjct: 66 YDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEF--VQKGE 116
>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 = 107 bits (269), Expect = 1e-28
Identities = 25/99 (25%), Positives = 44/99 (44%)
Query: 91 KCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILS 150
D + FMEL PEYY+++ P+ + ++ N++ +Y + +
Sbjct: 167 GASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFII 226
Query: 151 DFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELGP 189
D L+F N FN+P +LIY+DA L + +
Sbjct: 227 DMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFF 265
Score = 102 bits (255), Expect = 1e-26
Identities = 25/95 (26%), Positives = 46/95 (48%), Gaps = 1/95 (1%)
Query: 85 RLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRS 144
+ +D + F++LPS K +P+YY I+QP+ + +I+S E
Sbjct: 28 KFNRFISFTLDVLIDKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRD-YEYEDG 86
Query: 145 QDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKV 179
L D L+ NC+ +NE SLI ++++ + +
Sbjct: 87 PSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVML 121
>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 = 108 bits (270), Expect = 2e-28
Identities = 25/99 (25%), Positives = 44/99 (44%)
Query: 91 KCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILS 150
D + FMEL PEYY+++ P+ + ++ N++ +Y + +
Sbjct: 217 GASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFII 276
Query: 151 DFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELGP 189
D L+F N FN+P +LIY+DA L + +
Sbjct: 277 DMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFF 315
Score = 105 bits (262), Expect = 3e-27
Identities = 28/138 (20%), Positives = 57/138 (41%), Gaps = 1/138 (0%)
Query: 41 EESDSDEEQEGARVVRARQKVASTSKSPRALTRGKYLDNKPLKRRLYTLCKCLMDYRDQD 100
SD + + + ++K + + + + + +D
Sbjct: 34 GGSDERPKYLPGKHPKNQEKTPHVDYNAPLNPKSELFLDDWHIPKFNRFISFTLDVLIDK 93
Query: 101 GRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCR 160
+ F++LPS K +P+YY I+QP+ + +I+S E L D L+ NC+
Sbjct: 94 YKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRD-YEYEDGPSNFLLDVELLTKNCQ 152
Query: 161 EFNEPGSLIYEDAVNLEK 178
+NE SLI ++++ +
Sbjct: 153 AYNEYDSLIVKNSMQVVM 170
>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 = 105 bits (264), Expect = 6e-28
Identities = 26/80 (32%), Positives = 40/80 (50%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F + K P+YYKVI P+D+ I NI KY+S++ L D L+ N ++N P S
Sbjct: 191 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 250
Query: 168 LIYEDAVNLEKVLLERVAEL 187
+ A + V + + E
Sbjct: 251 QYTKTAQEIVNVCYQTLTEY 270
Score = 93.1 bits (231), Expect = 3e-23
Identities = 24/129 (18%), Positives = 52/129 (40%), Gaps = 4/129 (3%)
Query: 56 RARQKVASTSKSPRALTRGKYLDNKPLKRRLYTLCK-CLMDYRDQDGRQPMLMFMELPSA 114
+ R + + L ++ + + D RD P F +A
Sbjct: 18 KRRVGTTVHCDYLNRPHKSIHRRRTDPMVTLSSILESIINDMRDLPNTYP---FHTPVNA 74
Query: 115 KIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAV 174
K+ +YYK+I +P+D+ + N++ Y S++E L+ N +N P + + +
Sbjct: 75 KVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQ 134
Query: 175 NLEKVLLER 183
++ + E+
Sbjct: 135 SMLDLCDEK 143
>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 = 103 bits (259), Expect = 2e-27
Identities = 26/80 (32%), Positives = 40/80 (50%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F + K P+YYKVI P+D+ I NI KY+S++ L D L+ N ++N P S
Sbjct: 158 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 217
Query: 168 LIYEDAVNLEKVLLERVAEL 187
+ A + V + + E
Sbjct: 218 QYTKTAQEIVNVCYQTLTEY 237
Score = 93.1 bits (231), Expect = 2e-23
Identities = 23/100 (23%), Positives = 49/100 (49%), Gaps = 4/100 (4%)
Query: 86 LYTLCK-CLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRS 144
L ++ + + D RD P F +AK+ +YYK+I +P+D+ + N++ Y S
Sbjct: 15 LSSILESIINDMRDLPNTYP---FHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPS 71
Query: 145 QDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERV 184
++E L+ N +N P + + + ++ + E++
Sbjct: 72 REEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKL 111
>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 = 100 bits (250), Expect = 2e-27
Identities = 28/108 (25%), Positives = 48/108 (44%), Gaps = 4/108 (3%)
Query: 80 KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQN 139
++ ++ L +M ++D +GR E+P+ P + K P+ I N++N
Sbjct: 6 LLIQELIHNLFVSVMSHQDDEGRCYSDSLAEIPAVD--PNFP--NKPPLTFDIIRKNVEN 61
Query: 140 EKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
+YR D + R N S IYEDAV L++ ++ EL
Sbjct: 62 NRYRRLDLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDEL 109
>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 = 95.1 bits (237), Expect = 1e-25
Identities = 26/81 (32%), Positives = 43/81 (53%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
FME P+YY+VI+ PID+ + +++ Y ++ ++D + + NCRE+N P S
Sbjct: 28 FMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDS 87
Query: 168 LIYEDAVNLEKVLLERVAELG 188
A LEK ++ E G
Sbjct: 88 EYCRCASALEKFFYFKLKEGG 108
>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 = 91.6 bits (228), Expect = 3e-24
Identities = 28/112 (25%), Positives = 58/112 (51%), Gaps = 4/112 (3%)
Query: 77 LDNKPLKRRLYTLCKCLMDY-RDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIES 135
+ +P + + ++ ++ P F++ + + P+YY IK+P+D+ +E
Sbjct: 5 IAQRPKRGPHDAAIQNILTELQNHAAAWP---FLQPVNKEEVPDYYDFIKEPMDLSTMEI 61
Query: 136 NIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
+++ KY+ ++ + D RL+F NCR +N + Y+ A LEK +V E+
Sbjct: 62 KLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEI 113
>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 = 91.9 bits (228), Expect = 8e-24
Identities = 28/125 (22%), Positives = 51/125 (40%), Gaps = 3/125 (2%)
Query: 63 STSKSPRALTRGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYK 122
++ + ++ L + L + P F+E P+YY
Sbjct: 51 YVCPQCQSTEDAMTVLTPLTEKDYEGLKRVLRSLQAHKMAWP---FLEPVDPNDAPDYYG 107
Query: 123 VIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLE 182
VIK+P+D+ +E +Q Y E ++D +F NCR +N S Y+ A LE ++
Sbjct: 108 VIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQ 167
Query: 183 RVAEL 187
++
Sbjct: 168 KLKGF 172
>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 = 88.1 bits (219), Expect = 5e-23
Identities = 35/111 (31%), Positives = 54/111 (48%), Gaps = 6/111 (5%)
Query: 80 KPLKRRLYTLCKCLMDY-RDQDGRQPMLMFME--LPSAKIYPEYYKVIKQPIDMCQIESN 136
K +L L + ++ P F + P+YYK+IK P+DM I+
Sbjct: 16 KRQTNQLQYLLRVVLKTLWKHQFAWP---FQQPVDAVKLNLPDYYKIIKTPMDMGTIKKR 72
Query: 137 IQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
++N Y + E + DF MF NC +N+PG I A LEK+ L+++ EL
Sbjct: 73 LENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINEL 123
>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural
genomics, NPPSFA; 2.50A {Homo sapiens}
Length = 135
Score = 88.2 bits (219), Expect = 7e-23
Identities = 40/129 (31%), Positives = 60/129 (46%), Gaps = 9/129 (6%)
Query: 63 STSKSPRALTRGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYK 122
S+ S + T G KR+ L L + L F + P P+YYK
Sbjct: 2 SSGSSGKKKTEGLVKLTPIDKRKCERLLLFLYCHEMS------LAFQD-PVPLTVPDYYK 54
Query: 123 VIKQPIDMCQIESNIQNE--KYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVL 180
+IK P+D+ I+ +Q + Y ++ ++DFRL+F NC EFNEP S + + LE
Sbjct: 55 IIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYF 114
Query: 181 LERVAELGP 189
E + L P
Sbjct: 115 EELLKNLYP 123
>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 = 87.8 bits (218), Expect = 8e-23
Identities = 23/79 (29%), Positives = 43/79 (54%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F+E P YY++IK P+D+ +E + Y +++E ++D + MF NCR++N S
Sbjct: 37 FLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESS 96
Query: 168 LIYEDAVNLEKVLLERVAE 186
+ + NLE+ + +
Sbjct: 97 EYTKMSDNLERCFHRAMMK 115
>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 = 88.6 bits (220), Expect = 9e-23
Identities = 37/140 (26%), Positives = 58/140 (41%), Gaps = 9/140 (6%)
Query: 51 GARVVRARQKVASTSKSPRALTRGKYLDNKPLKRRLYTLCKCLMDY-RDQDGRQPMLMFM 109
G+ + K + +L L K +M P F
Sbjct: 1 GSSHHHHHHSSGLVPRGSHMSNPKK---PGRVTNQLQYLHKVVMKALWKHQFAWP---FR 54
Query: 110 E--LPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
+ P+Y+K+IKQP+DM I+ ++N Y + E + DF MF NC +N+P
Sbjct: 55 QPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTD 114
Query: 168 LIYEDAVNLEKVLLERVAEL 187
I A LEK+ L++VA +
Sbjct: 115 DIVLMAQTLEKIFLQKVASM 134
>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 = 87.4 bits (217), Expect = 1e-22
Identities = 23/110 (20%), Positives = 46/110 (41%), Gaps = 6/110 (5%)
Query: 78 DNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNI 137
+ L + L + + +F E P+Y IK+P+D ++ N+
Sbjct: 4 GSSGFLILLRKTLEQLQEKDTGN------IFSEPVPLSEVPDYLDHIKKPMDFFTMKQNL 57
Query: 138 QNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
+ +Y + D+ DF L+ NC ++N ++ Y AV L + + +
Sbjct: 58 EAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQA 107
>3fkm_X Signaling protein; bromodomain, malaria, structural genomics,
structural genomi consortium, SGC; 2.50A {Plasmodium
falciparum 3D7}
Length = 166
Score = 88.8 bits (220), Expect = 1e-22
Identities = 29/127 (22%), Positives = 50/127 (39%), Gaps = 10/127 (7%)
Query: 65 SKSPRALTRGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMEL--PSAKIYPEYYK 122
S R + NK L L Y +F +L + P+YY
Sbjct: 7 HSSGRENLYFQ--GNKQWYLLANQLILSLSKYEGG------HIFEKLVDAKKQNCPDYYD 58
Query: 123 VIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLE 182
VIK P+ I++ ++ +Y E + D +L+F NC +N S++ N+E
Sbjct: 59 VIKNPMSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFNN 118
Query: 183 RVAELGP 189
++ +G
Sbjct: 119 QLIVMGY 125
>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 = 87.2 bits (216), Expect = 4e-22
Identities = 26/80 (32%), Positives = 40/80 (50%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F + K P+YYKVI P+D+ I NI KY+S++ L D L+ N ++N P S
Sbjct: 51 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 110
Query: 168 LIYEDAVNLEKVLLERVAEL 187
+ A + V + + E
Sbjct: 111 QYTKTAQEIVNVCYQTLTEY 130
>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 = 85.8 bits (213), Expect = 4e-22
Identities = 25/80 (31%), Positives = 40/80 (50%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGS 167
F+ + K+ P Y KVIK+P+D I + + +Y + + D RL+F NC FNE S
Sbjct: 34 FLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDS 93
Query: 168 LIYEDAVNLEKVLLERVAEL 187
I N+ K ++ +
Sbjct: 94 DIGRAGHNMRKYFEKKWTDT 113
>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 = 84.6 bits (210), Expect = 1e-21
Identities = 25/70 (35%), Positives = 40/70 (57%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
+Y +IK P+DM I+S +++ +YR E +D RLMF NC ++N P + A L+
Sbjct: 45 HDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQ 104
Query: 178 KVLLERVAEL 187
V R A++
Sbjct: 105 DVFEMRFAKM 114
>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 = 84.7 bits (210), Expect = 1e-21
Identities = 31/124 (25%), Positives = 51/124 (41%), Gaps = 5/124 (4%)
Query: 66 KSPRALTRGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMEL--PSAKIYPEYYKV 123
S + K + + K + + P F + A +Y +
Sbjct: 7 DSQQHPAPEKSSKVSEQLKCCSGILKEMFAKKHAAYAWP---FYKPVDVEALGLHDYCDI 63
Query: 124 IKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLER 183
IK P+DM I+S ++ +YR E +D RLMF NC ++N P + A L+ V R
Sbjct: 64 IKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMR 123
Query: 184 VAEL 187
A++
Sbjct: 124 FAKM 127
>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 = 83.9 bits (208), Expect = 2e-21
Identities = 26/114 (22%), Positives = 51/114 (44%), Gaps = 6/114 (5%)
Query: 78 DNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNI 137
++ P+++ L + L +D F + I P Y +IK P+D ++ I
Sbjct: 10 ESTPIQQLLEHFLRQLQR---KDPHGF---FAFPVTDAIAPGYSMIIKHPMDFGTMKDKI 63
Query: 138 QNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELGPLP 191
+Y+S E +DF+LM N +N P ++ Y+ A + + +++ L
Sbjct: 64 VANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMMSKERLLA 117
>3rcw_A Bromodomain-containing protein 1; transcription, structural
genomics, structural consortium, SGC; 2.21A {Homo
sapiens}
Length = 135
Score = 83.6 bits (207), Expect = 5e-21
Identities = 26/108 (24%), Positives = 45/108 (41%), Gaps = 6/108 (5%)
Query: 80 KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQN 139
PL L ++ L D +F + S K P+Y IK P+D + ++
Sbjct: 12 TPLTVLLRSVLDQLQDKDPAR------IFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEA 65
Query: 140 EKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
+ Y++ E DF L+ NC ++N ++ Y AV L + +
Sbjct: 66 QGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRLRDQGGVVLRQA 113
>2i7k_A Bromodomain-containing protein 7; helix, LEFT-handed four-helix
bundle, transcription; NMR {Homo sapiens}
Length = 117
Score = 82.8 bits (205), Expect = 6e-21
Identities = 27/111 (24%), Positives = 52/111 (46%), Gaps = 6/111 (5%)
Query: 77 LDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESN 136
++ PL+ L L + L F + I P Y +IK P+D ++
Sbjct: 4 VEQTPLQEALNQLMRQLQRKDPSA------FFSFPVTDFIAPGYSMIIKHPMDFSTMKEK 57
Query: 137 IQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
I+N Y+S +E+ +F+LM N +N+P ++ Y+ A L ++ +++
Sbjct: 58 IKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMKILSQE 108
>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 = 82.4 bits (204), Expect = 9e-21
Identities = 26/117 (22%), Positives = 50/117 (42%), Gaps = 7/117 (5%)
Query: 73 RGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFME--LPSAKIYPEYYKVIKQPIDM 130
R K + L++ L + L R P F + P P+Y+ ++K P+D+
Sbjct: 3 RKKIFKPEELRQALMPTLEALY--RQDPESLP---FRQPVDPQLLGIPDYFDIVKNPMDL 57
Query: 131 CQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
I+ + +Y+ + + D LMF N +N S +Y+ L +V + + +
Sbjct: 58 STIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPV 114
>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 = 83.9 bits (207), Expect = 1e-20
Identities = 31/84 (36%), Positives = 47/84 (55%), Gaps = 3/84 (3%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNE--KYRSQDEILSDFRLMFGNCREFNEP 165
F + P P+YYK+IK P+D+ I+ +Q + Y ++ ++DFRL+F NC EFNEP
Sbjct: 102 FQD-PVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEP 160
Query: 166 GSLIYEDAVNLEKVLLERVAELGP 189
S + + LE E + L P
Sbjct: 161 DSEVANAGIKLENYFEELLKNLYP 184
>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 = 79.0 bits (195), Expect = 3e-19
Identities = 26/116 (22%), Positives = 48/116 (41%), Gaps = 7/116 (6%)
Query: 73 RGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQ 132
R + D + K++ L + D +P F + YP+Y +I P+D
Sbjct: 13 RAQSYDIQAWKKQCEELLNLIFQCEDS---EP---FRQPVDLLEYPDYRDIIDTPMDFAT 66
Query: 133 IESNIQNEKYRSQDEILSDFRLMFGNCREFNEP-GSLIYEDAVNLEKVLLERVAEL 187
+ ++ Y S E+ D RL+F N + + S IY ++ L E ++ +
Sbjct: 67 VRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISSV 122
>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 = 77.0 bits (190), Expect = 1e-18
Identities = 20/81 (24%), Positives = 35/81 (43%), Gaps = 1/81 (1%)
Query: 108 FMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNE-PG 166
F + YP+Y +I P+D + + Y S E D RL+F N + +
Sbjct: 31 FRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPNKR 90
Query: 167 SLIYEDAVNLEKVLLERVAEL 187
S IY + L + E++ ++
Sbjct: 91 SKIYSMTLRLSALFEEKMKKI 111
>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 131
Score = 74.0 bits (182), Expect = 2e-17
Identities = 15/70 (21%), Positives = 30/70 (42%)
Query: 118 PEYYKVIKQPIDMCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLE 177
+Y +VIK+P+D+ + + I Y + + L D L+ N E+N + +
Sbjct: 38 SDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRHRA 97
Query: 178 KVLLERVAEL 187
L + +
Sbjct: 98 CTLKDTAHAI 107
>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 = 73.6 bits (181), Expect = 3e-17
Identities = 23/108 (21%), Positives = 40/108 (37%), Gaps = 6/108 (5%)
Query: 80 KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQN 139
+ L+ L + L + +F + P+Y VIKQP+D+ + S I
Sbjct: 9 RELRIFLRNVTHRLAIDKRFR------VFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDL 62
Query: 140 EKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAEL 187
KY + + L D L+ N E+N + L + +
Sbjct: 63 HKYLTVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAI 110
>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 = 70.7 bits (172), Expect = 2e-15
Identities = 26/138 (18%), Positives = 50/138 (36%), Gaps = 3/138 (2%)
Query: 46 DEEQEGARVVRARQKVASTSKSPRALTRGKYLDNKPLKRRLYTLCKCLMDYRDQDGRQPM 105
G + + + K + + +
Sbjct: 39 LSFPSGDWICTFCRDIGKPEVEYDCDNLQHSKKGKTAQGLSPVDQRKCERLLLYLYCHEL 98
Query: 106 LMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQ---NEKYRSQDEILSDFRLMFGNCREF 162
+ + P P YYK+IK+P+D+ ++ +Q ++ Y+ D+ ++D RL+F NC F
Sbjct: 99 SIEFQEPVPASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERF 158
Query: 163 NEPGSLIYEDAVNLEKVL 180
NE ++ A E L
Sbjct: 159 NEMMKVVQVYADTQEINL 176
>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 = 63.3 bits (153), Expect = 7e-13
Identities = 17/106 (16%), Positives = 32/106 (30%), Gaps = 6/106 (5%)
Query: 87 YTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNE---KYR 143
KC +P +L + +D+ I + +Q + Y
Sbjct: 76 ANQRKCERVLLALFCHEPCRPLHQLATD--STFSLDQPGGTLDLTLIRARLQEKLSPPYS 133
Query: 144 SQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELGP 189
S E D MF + E + + + L++ R+ E
Sbjct: 134 SPQEFAQDVGRMFKQFNKLTEDKA-DVQSIIGLQRFFETRMNEAFG 178
>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 = 60.4 bits (145), Expect = 8e-12
Identities = 10/108 (9%), Positives = 33/108 (30%), Gaps = 1/108 (0%)
Query: 83 KRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV-IKQPIDMCQIESNIQNEK 141
+ + + + L +++ + +QP+D+ ++ +
Sbjct: 59 NCTERHPAEWRLALEKELQISLKQVLTALLNSRTTSHLLRYRQQQPLDLEGVKRKMDQGN 118
Query: 142 YRSQDEILSDFRLMFGNCREFNEPGSLIYEDAVNLEKVLLERVAELGP 189
Y S E D + + I + ++ + ++ + P
Sbjct: 119 YTSVLEFSDDIVKIIQAAINSDGGQPEIKKANSMVKSFFIRQMERVFP 166
>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 = 32.5 bits (73), Expect = 0.080
Identities = 35/253 (13%), Positives = 70/253 (27%), Gaps = 84/253 (33%)
Query: 1 MVGFEPGTFCMA-----SKRVTTGQTVFYYYIF--KVLDREGRNQYDEE----------- 42
++G G +A S +V Q + IF + E
Sbjct: 158 VLGS--GKTWVALDVCLSYKV---QCKMDFKIFWLNL----KNCNSPETVLEMLQKLLYQ 208
Query: 43 SDSDEEQEGARVVRARQKVASTSKSPRALTRGKYLDNKPLKRRLYTL------------- 89
D + + ++ S R L L +KP + L L
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRL-----LKSKPYENCLLVLLNVQNAKAWNAFN 263
Query: 90 --CKCLMDYRDQ------DGRQPMLMFMELPSAKIYPEYY-----KVIKQ-----PIDMC 131
CK L+ R + + ++ S + P+ K + P ++
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 132 QIE---------------SNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSL-----IYE 171
+ N K+ + D+ L+ N E E + ++
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDK-LTTIIESSLNVLEPAEYRKMFDRLSVFP 382
Query: 172 DAVNLEKVLLERV 184
+ ++ +LL +
Sbjct: 383 PSAHIPTILLSLI 395
Score = 31.0 bits (69), Expect = 0.28
Identities = 23/116 (19%), Positives = 41/116 (35%), Gaps = 35/116 (30%)
Query: 70 ALTRGKYLDNKPLKRRL---YTLCKCLMDYRDQDGRQPMLMFMELPSAKIY--------P 118
L R +LD + L++++ T + +L K Y P
Sbjct: 491 TLFRMVFLDFRFLEQKIRHDSTAWNASGSILN--------TLQQL---KFYKPYICDNDP 539
Query: 119 EYYKVIKQPID-MCQIESNIQNEKYRSQDEILSDFRLMFGNCREFNEPGSLIYEDA 173
+Y +++ +D + +IE N+ KY L LM I+E+A
Sbjct: 540 KYERLVNAILDFLPKIEENLICSKYTD----LLRIALMA--------EDEAIFEEA 583
Score = 30.6 bits (68), Expect = 0.44
Identities = 26/210 (12%), Positives = 52/210 (24%), Gaps = 69/210 (32%)
Query: 25 YYIFKVLDREGRNQYDE------------------ESDSDEEQEGARVVRARQKVASTSK 66
+F L + + + R ++ + ++
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 67 --SPRALTRGKYLDNKPLKRRLYTL-------------C-K-CL--MDYRDQDGRQPMLM 107
+ ++R + L++ L L K + Q +
Sbjct: 125 VFAKYNVSRLQPYLK--LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYK-VQCKMD 181
Query: 108 FMELPSAKIY---------PEYYKVIKQPIDMC-QIESN-------IQNEKYRSQDEILS 150
F KI+ PE V++ + QI+ N N K R
Sbjct: 182 F------KIFWLNLKNCNSPE--TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233
Query: 151 DFRLMFGNCREFNEPGSLIYEDAVNLEKVL 180
RL+ + + L+ V K
Sbjct: 234 LRRLLKS--KPY--ENCLLVLLNVQNAKAW 259
Score = 28.3 bits (62), Expect = 2.2
Identities = 22/147 (14%), Positives = 44/147 (29%), Gaps = 34/147 (23%)
Query: 75 KYLDNKPLKRRLYTLCKCLMDYRDQDGRQPML--MFMELPSAKIYPEYYKVIKQPID--- 129
L K K ++ ++ + + + L ++ + + +I +D
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF 473
Query: 130 -------MCQIESNIQNEKYRSQDEILSDFRLMFGNCRE----FNEPGSL--------IY 170
+ IE E+ + DFR + R +N GS+ Y
Sbjct: 474 YSHIGHHLKNIE---HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFY 530
Query: 171 EDAVNLEKVLLER-VAELGPLPSGEDF 196
+ + ER V + DF
Sbjct: 531 KPYICDNDPKYERLVNAI------LDF 551
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2
PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D*
2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D*
3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Length = 1524
Score = 29.4 bits (66), Expect = 0.93
Identities = 26/165 (15%), Positives = 56/165 (33%), Gaps = 9/165 (5%)
Query: 39 YDEESDSDEEQEGARVVRARQKVASTSKSPRALTRGKYLDNKPLKRRLYTLCKCLMDYRD 98
+ + + QE A V +R + + PR R +Y+ + RL
Sbjct: 179 VKDGEEVVKGQELAPGVVSRLDGVALYRFPRR-VRVEYVKKERAGLRL----PLAAWVEK 233
Query: 99 QDGRQPMLMFMELPSAKIYPEYYKVIKQPIDMCQIESNIQNEKYRSQDE--ILSDFRLMF 156
+ + P + ELP ++ + + + ++ + + + + +
Sbjct: 234 EAYK-PGEILAELPEPYLFRAEEEGVVELKELEEGAFLVLRREDEPVATYFLPVGMTPLV 292
Query: 157 GNCREFNEPGSLIYEDAVNLEKVLLERVAELGPLPSGEDFFILLF 201
+ E E G + E L R A++ GE ++ LF
Sbjct: 293 VH-GEIVEKGQPLAEAKGLLRMPRQVRAAQVEAEEEGETVYLTLF 336
>2abq_A Fructose 1-phosphate kinase; dimer, structural genomics, PSI,
protein structure initiative; 2.10A {Bacillus
halodurans} SCOP: c.72.1.1
Length = 306
Score = 27.9 bits (63), Expect = 2.3
Identities = 11/48 (22%), Positives = 18/48 (37%), Gaps = 14/48 (29%)
Query: 161 EFNEPGSLIYEDAVNLEKVLLERVAELGP---------LPSG--EDFF 197
E N LI ++ V LLE++ EL +P + +
Sbjct: 100 ELNGTAPLIKKEHVQA---LLEQLTELEKGDVLVLAGSVPQAMPQTIY 144
>3cqd_A 6-phosphofructokinase isozyme 2; phosphofructokinases, PFK-2,
glycolysis, transferase; HET: ATP; 1.98A {Escherichia
coli} PDB: 3n1c_A*
Length = 309
Score = 27.9 bits (63), Expect = 2.5
Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 14/48 (29%)
Query: 161 EFNEPGSLIYEDAVNLEKVLLERVAELGP---------LPSG--EDFF 197
F PG+ + ED L E+V E+ LP G +
Sbjct: 105 RFVMPGAALNEDEFRQ---LEEQVLEIESGAILVISGSLPPGVKLEKL 149
>2jg5_A Fructose 1-phosphate kinase; 1-phosphofructokinase, transferase;
2.3A {Staphylococcus aureus}
Length = 306
Score = 27.1 bits (61), Expect = 3.7
Identities = 10/48 (20%), Positives = 15/48 (31%), Gaps = 14/48 (29%)
Query: 161 EFNEPGSLIYEDAVNLEKVLLERVAELGP---------LPSG--EDFF 197
E N PG I LL+++ +PS D +
Sbjct: 100 EINAPGPHITSTQFEQ---LLQQIKNTTSEDIVIVAGSVPSSIPSDAY 144
>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 = 26.9 bits (59), Expect = 5.7
Identities = 25/177 (14%), Positives = 42/177 (23%), Gaps = 73/177 (41%)
Query: 27 IFKVLDREGRNQYD---------E------ESDSDEEQEGARVVRARQKVASTSKSPRAL 71
F+ L +G D E +D + VV
Sbjct: 1743 AFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFY-------------- 1788
Query: 72 TRGKYLDN-KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKVIKQPIDM 130
RG + P RD+ GR M P +
Sbjct: 1789 -RGMTMQVAVP---------------RDELGRSNYGMIAINPGR---------VAASFSQ 1823
Query: 131 CQIESNIQNEKYRSQD--EILSDFRLMFGNCREFNEPGSLI----YEDAVN-LEKVL 180
++ ++ R+ EI+ N +N A++ + VL
Sbjct: 1824 EALQYVVERVGKRTGWLVEIV--------N---YNVENQQYVAAGDLRALDTVTNVL 1869
>2f02_A Tagatose-6-phosphate kinase; LACC, structural genomics, PSI,
protein structure initiative YORK SGX research center
for structural genomics; HET: ATP; 1.90A {Enterococcus
faecalis} SCOP: c.72.1.1 PDB: 2awd_A*
Length = 323
Score = 26.8 bits (60), Expect = 5.8
Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 15/49 (30%)
Query: 161 EFNEPGSLIYEDAVNLEKVLLERVAEL----------GPLPSG--EDFF 197
E E G + + ++ LE +L G L G DF+
Sbjct: 103 EILEAGPTVSPEEISN---FLENFDQLIKQAEIVTISGSLAKGLPSDFY 148
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 26.6 bits (58), Expect = 6.0
Identities = 11/52 (21%), Positives = 22/52 (42%), Gaps = 6/52 (11%)
Query: 94 MDYRDQDGRQPMLMFM---ELPSAKIYPEYYKVIK-QPIDMCQIESNIQNEK 141
+D D+ P++ + EL K + + VI +P + IE + +
Sbjct: 133 VDSDDKAKVPPLIRIVSGLELSDTKQKGKKFLVIAYEPFENIAIE--LPPNE 182
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
0.321 0.138 0.403
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,076,673
Number of extensions: 170528
Number of successful extensions: 381
Number of sequences better than 10.0: 1
Number of HSP's gapped: 372
Number of HSP's successfully gapped: 55
Length of query: 202
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 113
Effective length of database: 4,216,824
Effective search space: 476501112
Effective search space used: 476501112
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.5 bits)