RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14234
(779 letters)
>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 = 190 bits (484), Expect = 3e-57
Identities = 75/114 (65%), Positives = 86/114 (75%)
Query: 367 GSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKK 426
GSK K CS I+ E+F KKH YAWPFY PVDVE LGL DY DIIK PMD+ T++ K
Sbjct: 4 GSKISEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSK 63
Query: 427 MRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
+ +R Y+ A+EF DVRL+FSNCYKYNPPDH VV MAR+L VFE RFAKMPDE
Sbjct: 64 LESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE 117
Score = 150 bits (380), Expect = 9e-43
Identities = 44/117 (37%), Positives = 64/117 (54%), Gaps = 4/117 (3%)
Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPH---AWPFHEPVDAINLNLPDYHKVITQPMDLGTIK 173
+ + QL+ ++K ++ H AWPF++PVD L L DY +I PMD+ TIK
Sbjct: 3 MGSKISEQLKCC-SGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIK 61
Query: 174 KRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
+LE+ Y +E D MF+NCY YN P +VV MA+ L+ +F + MP E
Sbjct: 62 SKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDEP 118
>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 = 187 bits (477), Expect = 7e-56
Identities = 84/137 (61%), Positives = 104/137 (75%)
Query: 108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPM 167
+ + +PGR TNQLQY+ K VMKA+WKH AWPF +PVDA+ L LPDYHK+I QPM
Sbjct: 16 RGSHMSNPKKPGRVTNQLQYLHKVVMKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPM 75
Query: 168 DLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
D+GTIK+RLENNYYW+ E +QDF TMFTNCY+YNKP +D+VLMAQ LE++FL K+ MP
Sbjct: 76 DMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMP 135
Query: 228 SEEVVLDAPQPRSSKKK 244
EE L P++S KK
Sbjct: 136 QEEQELVVTIPKNSHKK 152
Score = 154 bits (391), Expect = 7e-44
Identities = 48/114 (42%), Positives = 65/114 (57%), Gaps = 3/114 (2%)
Query: 367 GSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKK 426
G T ++ L KHQ +AWPF PVD KLGL DY IIK+PMD+GT++++
Sbjct: 27 GRVTNQLQYLHKVVMKAL--WKHQ-FAWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRR 83
Query: 427 MRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
+ N Y A E D +F+NCY YN P ++V MA+ L +F + A MP E
Sbjct: 84 LENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLEKIFLQKVASMPQE 137
>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 = 184 bits (469), Expect = 4e-55
Identities = 74/113 (65%), Positives = 84/113 (74%)
Query: 368 SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKM 427
SK K CS I+ E+F KKH YAWPFY PVDVE LGL DY DIIK PMD+ T++ K+
Sbjct: 18 SKVSEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKL 77
Query: 428 RNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
R Y+ A+EF DVRL+FSNCYKYNPPDH VV MAR+L VFE RFAKMPDE
Sbjct: 78 EAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEMRFAKMPDE 130
Score = 148 bits (376), Expect = 4e-42
Identities = 45/128 (35%), Positives = 66/128 (51%), Gaps = 4/128 (3%)
Query: 105 GIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPH---AWPFHEPVDAINLNLPDYHK 161
+ P + + + QL+ ++K ++ H AWPF++PVD L L DY
Sbjct: 4 DVPDSQQHPAPEKSSKVSEQLKCC-SGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCD 62
Query: 162 VITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLT 221
+I PMD+ TIK +LE Y +E D MF+NCY YN P +VV MA+ L+ +F
Sbjct: 63 IIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEM 122
Query: 222 KITGMPSE 229
+ MP E
Sbjct: 123 RFAKMPDE 130
>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 = 183 bits (467), Expect = 8e-55
Identities = 79/122 (64%), Positives = 100/122 (81%)
Query: 109 PPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMD 168
PP ++P R TNQLQY+++ V+K +WKH AWPF +PVDA+ LNLPDY+K+I PMD
Sbjct: 6 PPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMD 65
Query: 169 LGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPS 228
+GTIKKRLENNYYW+ +E IQDF TMFTNCY+YNKPG+D+VLMA+ LE+LFL KI +P+
Sbjct: 66 MGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPT 125
Query: 229 EE 230
EE
Sbjct: 126 EE 127
Score = 160 bits (407), Expect = 2e-46
Identities = 45/114 (39%), Positives = 64/114 (56%), Gaps = 3/114 (2%)
Query: 367 GSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKK 426
+T ++ L KHQ +AWPF PVD KL L DY+ IIK PMD+GT++K+
Sbjct: 16 KRQTNQLQYLLRVVLKTL--WKHQ-FAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKR 72
Query: 427 MRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
+ N Y A+E D +F+NCY YN P ++V MA L +F + ++P E
Sbjct: 73 LENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQKINELPTE 126
>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 = 174 bits (444), Expect = 1e-51
Identities = 34/108 (31%), Positives = 55/108 (50%), Gaps = 2/108 (1%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
+ + L+ + + PF PVD + LG+ DYFDI+K PMDL T+++K+ Y
Sbjct: 12 LRQALMPTLEALY--RQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQY 69
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
+ ++ DDV L+F+N + YN V +L+ VFE +
Sbjct: 70 QEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQS 117
Score = 145 bits (368), Expect = 3e-41
Identities = 31/116 (26%), Positives = 57/116 (49%), Gaps = 1/116 (0%)
Query: 115 KHRPGRNTNQLQYIVKNVMKAVWK-HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIK 173
+ +L+ + ++A+++ P + PF +PVD L +PDY ++ PMDL TIK
Sbjct: 2 MRKKIFKPEELRQALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIK 61
Query: 174 KRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE 229
++L+ Y + + D MF N ++YN+ V L ++F +I +
Sbjct: 62 RKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVFEQEIDPVMQS 117
>3fkm_X Signaling protein; bromodomain, malaria, structural genomics,
structural genomi consortium, SGC; 2.50A {Plasmodium
falciparum 3D7}
Length = 166
Score = 168 bits (426), Expect = 1e-48
Identities = 32/132 (24%), Positives = 56/132 (42%)
Query: 115 KHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
++ + Q + ++ ++ K+ F + VDA N PDY+ VI PM IK
Sbjct: 12 ENLYFQGNKQWYLLANQLILSLSKYEGGHIFEKLVDAKKQNCPDYYDVIKNPMSFSCIKT 71
Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLD 234
+L+ Y E ++D +F NC +YN V + +N+E F ++ M +L
Sbjct: 72 KLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFNNQLIVMGYNNFILK 131
Query: 235 APQPRSSKKKPP 246
+ K
Sbjct: 132 EKKINDMLKLVE 143
Score = 162 bits (411), Expect = 2e-46
Identities = 38/160 (23%), Positives = 65/160 (40%), Gaps = 9/160 (5%)
Query: 361 GGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDL 420
G L WY +++I L K++ F VD +K DY+D+IK PM
Sbjct: 10 GRENLYFQGNKQWYLLANQLILSL--SKYE-GGHIFEKLVDAKKQNCPDYYDVIKNPMSF 66
Query: 421 GTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP-- 478
++ K++ Y EF DV+LIF NC YN + V + + F ++ M
Sbjct: 67 SCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFNNQLIVMGYN 126
Query: 479 ----DESNLASRAAASVSSDDDSEDERQNQLKYLQEQLKS 514
E + + E+++Q++ + E +
Sbjct: 127 NFILKEKKINDMLKLVEEENIKWSKEKEDQIEEIDELENN 166
>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 = 161 bits (410), Expect = 6e-47
Identities = 35/113 (30%), Positives = 55/113 (48%), Gaps = 5/113 (4%)
Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
CS I+ E+ + AWPF PV+++ + Y +IKKPMD T+R+K+
Sbjct: 10 DDSKDLALCSMILTEMETHED---AWPFLLPVNLKLVP--GYKKVIKKPMDFSTIREKLS 64
Query: 429 NRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDES 481
+ Y + FA DVRL+F NC +N D ++ + FE ++ S
Sbjct: 65 SGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWTDTFKVS 117
Score = 144 bits (365), Expect = 1e-40
Identities = 31/112 (27%), Positives = 54/112 (48%), Gaps = 2/112 (1%)
Query: 116 HRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKR 175
+P R+ ++ + ++ + H AWPF PV+ + P Y KVI +PMD TI+++
Sbjct: 5 KKPKRDDSKDLALCSMILTEMETHEDAWPFLLPVNLKLV--PGYKKVIKKPMDFSTIREK 62
Query: 176 LENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
L + Y + + D +F NC +N+ D+ N+ + F K T
Sbjct: 63 LSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKKWTDTF 114
>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 = 163 bits (413), Expect = 1e-46
Identities = 40/139 (28%), Positives = 63/139 (45%), Gaps = 2/139 (1%)
Query: 90 VEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPV 149
V + ++ T + +K V++++ H AWPF EPV
Sbjct: 38 VGILQSEAELIDEYVCPQCQSTEDAMTVLTPLTEKDYEGLKRVLRSLQAHKMAWPFLEPV 97
Query: 150 DAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVV 209
D + PDY+ VI +PMDL T+++R++ YY E + D T +F NC YN
Sbjct: 98 DPNDA--PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFY 155
Query: 210 LMAQNLEQLFLTKITGMPS 228
A+ LE F+ K+ G +
Sbjct: 156 QCAEVLESFFVQKLKGFKA 174
Score = 143 bits (361), Expect = 2e-39
Identities = 36/110 (32%), Positives = 51/110 (46%), Gaps = 5/110 (4%)
Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
T Y+ ++ L K AWPF PVD DY+ +IK+PMDL T+ ++++
Sbjct: 69 LTEKDYEGLKRVLRSLQAHKM---AWPFLEPVDPNDA--PDYYGVIKEPMDLATMEERVQ 123
Query: 429 NRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP 478
R Y+ EF D+ IF NC YNP D A L + F +
Sbjct: 124 RRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFK 173
>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 = 160 bits (407), Expect = 2e-46
Identities = 41/115 (35%), Positives = 62/115 (53%), Gaps = 6/115 (5%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
W K C E++ +F + + PF PVD + DY DII PMD GTVR+ + Y
Sbjct: 11 WKKQCKELVNLIFQCED---SEPFRQPVD--LVEYPDYRDIIDTPMDFGTVRETLDAGNY 65
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHN-VVTMARQLSAVFEDRFAKMPDESNLASR 486
+ EF D+RLIFSN Y P + + +M +LSA+FE++ K+ + + +
Sbjct: 66 DSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKISSDFKIGQK 120
Score = 132 bits (333), Expect = 2e-36
Identities = 29/101 (28%), Positives = 49/101 (48%), Gaps = 3/101 (2%)
Query: 130 KNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQ 189
K ++ +++ + PF +PVD + PDY +I PMD GT+++ L+ Y S E +
Sbjct: 16 KELVNLIFQCEDSEPFRQPVDL--VEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCK 73
Query: 190 DFTTMFTNCYVYN-KPGEDVVLMAQNLEQLFLTKITGMPSE 229
D +F+N Y + M L LF K+ + S+
Sbjct: 74 DIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKISSD 114
>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 = 159 bits (405), Expect = 2e-46
Identities = 38/108 (35%), Positives = 56/108 (51%), Gaps = 2/108 (1%)
Query: 120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
+ +QL +KN++ + HP AWPF EPV PDY++VI P+DL T+ +RL +
Sbjct: 3 EDPDQLYTTLKNLLAQIKSHPSAWPFMEPVKK--SEAPDYYEVIRFPIDLKTMTERLRSR 60
Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
YY + K + D + NC YN P + A LE+ F K+
Sbjct: 61 YYVTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKEGG 108
Score = 144 bits (365), Expect = 7e-41
Identities = 35/106 (33%), Positives = 56/106 (52%), Gaps = 5/106 (4%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
Y ++A++ K H AWPF PV K DY+++I+ P+DL T+ +++R+R Y
Sbjct: 8 LYTTLKNLLAQI--KSHP-SAWPFMEPVK--KSEAPDYYEVIRFPIDLKTMTERLRSRYY 62
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP 478
T K F D++ + +NC +YNPPD A L F + +
Sbjct: 63 VTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYFKLKEGG 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 = 158 bits (402), Expect = 9e-46
Identities = 38/118 (32%), Positives = 61/118 (51%), Gaps = 4/118 (3%)
Query: 117 RPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRL 176
RP R + +N++ + H AWPF +PV+ + PDY+ I +PMDL T++ +L
Sbjct: 8 RPKRGPHDAAI--QNILTELQNHAAAWPFLQPVNKEEV--PDYYDFIKEPMDLSTMEIKL 63
Query: 177 ENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLD 234
E+N Y ++ I D +F NC +YN A LE+ F K+ +P ++D
Sbjct: 64 ESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPEYSHLID 121
Score = 152 bits (386), Expect = 1e-43
Identities = 38/110 (34%), Positives = 61/110 (55%), Gaps = 5/110 (4%)
Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
I+ EL + H AWPF PV+ K + DY+D IK+PMDL T+ K+ + Y+
Sbjct: 15 DAAIQNILTEL--QNHA-AAWPFLQPVN--KEEVPDYYDFIKEPMDLSTMEIKLESNKYQ 69
Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNL 483
++F D RL+F+NC YN + + A +L F ++ ++P+ S+L
Sbjct: 70 KMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNNKVKEIPEYSHL 119
>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 = 154 bits (391), Expect = 4e-44
Identities = 42/119 (35%), Positives = 60/119 (50%), Gaps = 6/119 (5%)
Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
W K C E++ +F + + PF PVD L DY DII PMD TVR+ +
Sbjct: 18 DIQAWKKQCEELLNLIFQCED---SEPFRQPVD--LLEYPDYRDIIDTPMDFATVRETLE 72
Query: 429 NRTYKTAKEFADDVRLIFSNCYKYNPPDHN-VVTMARQLSAVFEDRFAKMPDESNLASR 486
Y++ E DVRLIFSN Y P + + +M+ +LSA FE+ + + + A R
Sbjct: 73 AGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISSVLSDYKSALR 131
Score = 132 bits (334), Expect = 2e-36
Identities = 30/124 (24%), Positives = 54/124 (43%), Gaps = 4/124 (3%)
Query: 108 QPPVVPPKHRP-GRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQP 166
P ++R + + + ++ +++ + PF +PVD L PDY +I P
Sbjct: 4 HQPRRRLRNRAQSYDIQAWKKQCEELLNLIFQCEDSEPFRQPVDL--LEYPDYRDIIDTP 61
Query: 167 MDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKP-GEDVVLMAQNLEQLFLTKITG 225
MD T+++ LE Y S E +D +F+N Y + M+ L F I+
Sbjct: 62 MDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLSAFFEEHISS 121
Query: 226 MPSE 229
+ S+
Sbjct: 122 VLSD 125
>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural
genomics, NPPSFA; 2.50A {Homo sapiens}
Length = 135
Score = 154 bits (390), Expect = 6e-44
Identities = 37/124 (29%), Positives = 59/124 (47%), Gaps = 8/124 (6%)
Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
TP+ + C ++ L+ + + F PV L + DY+ IIK PMDL T++K+++
Sbjct: 17 LTPIDKRKCERLLLFLYCHEM---SLAFQDPVP---LTVPDYYKIIKNPMDLSTIKKRLQ 70
Query: 429 NRT--YKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASR 486
Y ++F D RLIF NC ++N PD V +L FE+ + E
Sbjct: 71 EDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLYPEKRFPKS 130
Query: 487 AAAS 490
+S
Sbjct: 131 GPSS 134
Score = 148 bits (376), Expect = 5e-42
Identities = 35/119 (29%), Positives = 59/119 (49%), Gaps = 5/119 (4%)
Query: 114 PKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIK 173
+ T + + ++ ++ H + F +PV L +PDY+K+I PMDL TIK
Sbjct: 10 KTEGLVKLTPIDKRKCERLLLFLYCHEMSLAFQDPVP---LTVPDYYKIIKNPMDLSTIK 66
Query: 174 KRLENNY--YWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
KRL+ +Y Y ++ + DF +F NC +N+P +V LE F + + E+
Sbjct: 67 KRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLYPEK 125
>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 = 147 bits (373), Expect = 7e-42
Identities = 34/109 (31%), Positives = 55/109 (50%), Gaps = 2/109 (1%)
Query: 115 KHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
K + + + V+ V H +WPF EPVD P+Y+++I PMD+ +++K
Sbjct: 7 KTKDLFELDDDFTAMYKVLDVVKAHKDSWPFLEPVDE--SYAPNYYQIIKAPMDISSMEK 64
Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
+L Y + +E + D TMF NC YN + M+ NLE+ F +
Sbjct: 65 KLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCFHRAM 113
Score = 144 bits (365), Expect = 7e-41
Identities = 32/104 (30%), Positives = 52/104 (50%), Gaps = 5/104 (4%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
+ +++ + K H+ +WPF PVD + +Y+ IIK PMD+ ++ KK+ Y
Sbjct: 17 DFTAMYKVLDVV--KAHK-DSWPFLEPVD--ESYAPNYYQIIKAPMDISSMEKKLNGGLY 71
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAK 476
T +EF +D++ +F NC KYN M+ L F K
Sbjct: 72 CTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCFHRAMMK 115
>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 = 146 bits (369), Expect = 8e-41
Identities = 34/136 (25%), Positives = 55/136 (40%), Gaps = 3/136 (2%)
Query: 109 PPVVPPKHRPGRNTNQLQYIVKN-VMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPM 167
+ +I+ N V + + P +WPFH PV+ +PDY+KVI PM
Sbjct: 14 GTENLYFQSMDDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNK--KFVPDYYKVIVNPM 71
Query: 168 DLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
DL TI+K + + Y S + + D + N YN P AQ + + +T
Sbjct: 72 DLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYD 131
Query: 228 SEEVVLDAPQPRSSKK 243
L+ + +
Sbjct: 132 EHLTQLEKDICTAKEA 147
Score = 141 bits (357), Expect = 3e-39
Identities = 35/134 (26%), Positives = 63/134 (47%), Gaps = 9/134 (6%)
Query: 374 YKYCSEIIAELFHKKHQN--YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRT 431
S I+ + +K +WPF+ PV+ K + DY+ +I PMDL T+RK +
Sbjct: 27 QVAFSFILDNIVTQKMMAVPDSWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHK 84
Query: 432 YKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD-----ESNLASR 486
Y++ + F DDV LI +N KYN P+ A+++ V + + E ++ +
Sbjct: 85 YQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTA 144
Query: 487 AAASVSSDDDSEDE 500
A++ + +
Sbjct: 145 KEAALEEAELESLD 158
>2i7k_A Bromodomain-containing protein 7; helix, LEFT-handed four-helix
bundle, transcription; NMR {Homo sapiens}
Length = 117
Score = 141 bits (357), Expect = 1e-39
Identities = 30/106 (28%), Positives = 49/106 (46%), Gaps = 2/106 (1%)
Query: 125 LQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSG 184
LQ + +M+ + + + F PV P Y +I PMD T+K++++NN Y S
Sbjct: 9 LQEALNQLMRQLQRKDPSAFFSFPVTD--FIAPGYSMIIKHPMDFSTMKEKIKNNDYQSI 66
Query: 185 KEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
+E +F M TN +YNKP A+ L + ++ E
Sbjct: 67 EELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMKILSQERLEH 112
Score = 132 bits (335), Expect = 1e-36
Identities = 29/113 (25%), Positives = 54/113 (47%), Gaps = 6/113 (5%)
Query: 368 SKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKM 427
+TPL + ++++ +L K + F PV Y IIK PMD T+++K+
Sbjct: 5 EQTPL-QEALNQLMRQLQRKDP---SAFFSFPVT--DFIAPGYSMIIKHPMDFSTMKEKI 58
Query: 428 RNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
+N Y++ +E D+ +L+ +N YN P+ A++L ++ E
Sbjct: 59 KNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMKILSQERLE 111
>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 131
Score = 139 bits (352), Expect = 7e-39
Identities = 35/120 (29%), Positives = 50/120 (41%), Gaps = 10/120 (8%)
Query: 361 GGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDL 420
G SG G+ + ++ L K F PV DY ++IK+PMDL
Sbjct: 1 GSSGSSGNTLRELRLFLRDVTKRLATDKR---FNIFSKPVS-------DYLEVIKEPMDL 50
Query: 421 GTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
TV K+ Y TAK+F D+ LI SN +YNP + R + +D +
Sbjct: 51 STVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAA 110
Score = 125 bits (316), Expect = 6e-34
Identities = 23/116 (19%), Positives = 49/116 (42%), Gaps = 7/116 (6%)
Query: 115 KHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
G +L+ +++V K + F +PV DY +VI +PMDL T+
Sbjct: 3 SGSSGNTLRELRLFLRDVTKRLATDKRFNIFSKPVS-------DYLEVIKEPMDLSTVIT 55
Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
+++ + Y + K+ ++D + +N YN + + ++ + + E
Sbjct: 56 KIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAAE 111
>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 = 138 bits (349), Expect = 2e-38
Identities = 28/117 (23%), Positives = 54/117 (46%), Gaps = 4/117 (3%)
Query: 117 RPGRNTNQLQYIVKNVMKAVWK--HPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
P L+ +++ ++ A + F + + PDY+ +I +P+DL TI +
Sbjct: 5 SPAYLKEILEQLLEAIVVATNPSGRLISELFQKLPSK--VQYPDYYAIIKEPIDLKTIAQ 62
Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEV 231
R++N Y S +D + N YN+PG V A +++++F K + E+
Sbjct: 63 RIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHEM 119
Score = 125 bits (317), Expect = 3e-34
Identities = 27/117 (23%), Positives = 53/117 (45%), Gaps = 5/117 (4%)
Query: 367 GSKTPLWYKYCSEIIAELFHKKHQN---YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTV 423
GS + +++ + + + + F K+ DY+ IIK+P+DL T+
Sbjct: 3 GSSPAYLKEILEQLLEAIVVATNPSGRLISELFQKLPS--KVQYPDYYAIIKEPIDLKTI 60
Query: 424 RKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
++++N +YK+ A D+ L+ N YN P V A + +F + A++
Sbjct: 61 AQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHH 117
>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 = 140 bits (353), Expect = 2e-38
Identities = 35/112 (31%), Positives = 55/112 (49%), Gaps = 8/112 (7%)
Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
TP+ + C ++ L+ + F PV L + DY+ IIK PMDL T++K+++
Sbjct: 78 LTPIDKRKCERLLLFLYC---HEMSLAFQDPVP---LTVPDYYKIIKNPMDLSTIKKRLQ 131
Query: 429 NRT--YKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMP 478
Y ++F D RLIF NC ++N PD V +L FE+ +
Sbjct: 132 EDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELLKNLY 183
Score = 139 bits (351), Expect = 4e-38
Identities = 35/138 (25%), Positives = 58/138 (42%), Gaps = 5/138 (3%)
Query: 92 PPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDA 151
D + T + + ++ ++ H + F +PV
Sbjct: 49 RDLSKPEVEYDCDAPSHNSEKKKTEGLVKLTPIDKRKCERLLLFLYCHEMSLAFQDPVP- 107
Query: 152 INLNLPDYHKVITQPMDLGTIKKRLENNY--YWSGKEAIQDFTTMFTNCYVYNKPGEDVV 209
L +PDY+K+I PMDL TIKKRL+ +Y Y ++ + DF +F NC +N+P +V
Sbjct: 108 --LTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVA 165
Query: 210 LMAQNLEQLFLTKITGMP 227
LE F + +
Sbjct: 166 NAGIKLENYFEELLKNLY 183
>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 = 135 bits (343), Expect = 8e-38
Identities = 31/117 (26%), Positives = 49/117 (41%), Gaps = 5/117 (4%)
Query: 366 GGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRK 425
G S + + + + +L K F PV + ++ DY D IKKPMD T+++
Sbjct: 1 GSSGSSGFLILLRKTLEQLQEKDT---GNIFSEPVPLSEV--PDYLDHIKKPMDFFTMKQ 55
Query: 426 KMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESN 482
+ Y +F +D LI SNC KYN D A +L + ++
Sbjct: 56 NLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQARRQAE 112
Score = 134 bits (340), Expect = 3e-37
Identities = 24/119 (20%), Positives = 47/119 (39%), Gaps = 2/119 (1%)
Query: 120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
++ +++ ++ + + F EPV + PDY I +PMD T+K+ LE
Sbjct: 3 SGSSGFLILLRKTLEQLQEKDTGNIFSEPVPLSEV--PDYLDHIKKPMDFFTMKQNLEAY 60
Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQP 238
Y + + +DF + +NC YN A L + + + + +
Sbjct: 61 RYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQARRQAEKMGSGPS 119
>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 = 135 bits (342), Expect = 1e-37
Identities = 30/107 (28%), Positives = 45/107 (42%), Gaps = 6/107 (5%)
Query: 370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN 429
TP+ + + +L K F PV Y IIK PMD GT++ K+
Sbjct: 12 TPI-QQLLEHFLRQLQRKDP---HGFFAFPVTDAIA--PGYSMIIKHPMDFGTMKDKIVA 65
Query: 430 RTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAK 476
YK+ EF D +L+ N YN PD +A+++ +K
Sbjct: 66 NEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMMSK 112
Score = 135 bits (341), Expect = 2e-37
Identities = 25/102 (24%), Positives = 44/102 (43%), Gaps = 2/102 (1%)
Query: 122 TNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYY 181
+ +Q ++++ ++ + + F PV P Y +I PMD GT+K ++ N Y
Sbjct: 11 STPIQQLLEHFLRQLQRKDPHGFFAFPVTD--AIAPGYSMIIKHPMDFGTMKDKIVANEY 68
Query: 182 WSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
S E DF M N YN+P +A+ + +
Sbjct: 69 KSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMM 110
>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 = 140 bits (354), Expect = 1e-37
Identities = 35/167 (20%), Positives = 62/167 (37%), Gaps = 2/167 (1%)
Query: 77 NESNSGNSTKAASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAV 136
N + + S+ ++ + + + P + V + +
Sbjct: 90 NGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKM 149
Query: 137 WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFT 196
P +WPFH PV+ +PDY+KVI PMDL TI+K + + Y S + + D +
Sbjct: 150 MAVPDSWPFHHPVNK--KFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILA 207
Query: 197 NCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKK 243
N YN P AQ + + +T L+ + +
Sbjct: 208 NSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAKEA 254
Score = 131 bits (331), Expect = 2e-34
Identities = 34/133 (25%), Positives = 64/133 (48%), Gaps = 11/133 (8%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
+ + + ++ +WPF+ PV+ K + DY+ +I PMDL T+RK + Y
Sbjct: 138 SFILDNIVTQKMMAVPD---SWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHKY 192
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPD-----ESNLASRA 487
++ + F DDV LI +N KYN P+ A+++ V + + E ++ +
Sbjct: 193 QSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAK 252
Query: 488 AASVSSDD-DSED 499
A++ + +S D
Sbjct: 253 EAALEEAELESLD 265
Score = 121 bits (306), Expect = 4e-31
Identities = 30/116 (25%), Positives = 57/116 (49%), Gaps = 2/116 (1%)
Query: 114 PKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIK 173
R L I+++++ + P+ +PFH PV+A + DY+K+IT+PMDL T++
Sbjct: 4 IHRRRTDPMVTLSSILESIINDMRDLPNTYPFHTPVNA--KVVKDYYKIITRPMDLQTLR 61
Query: 174 KRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE 229
+ + Y S +E + + N YN P + ++Q++ L K+ +
Sbjct: 62 ENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDK 117
Score = 116 bits (293), Expect = 2e-29
Identities = 35/144 (24%), Positives = 72/144 (50%), Gaps = 5/144 (3%)
Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
II ++ + +PF+TPV+ + + DY+ II +PMDL T+R+ +R R Y
Sbjct: 16 SSILESIINDM---RDLPNTYPFHTPVNAKVV--KDYYKIITRPMDLQTLRENVRKRLYP 70
Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAAASVSS 493
+ +EF + + LI N YN P H++ +++ + + +++ + D+ +A +
Sbjct: 71 SREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLD 130
Query: 494 DDDSEDERQNQLKYLQEQLKSLTD 517
DDD + +++ ++ D
Sbjct: 131 DDDQVAFSFILDNIVTQKMMAVPD 154
>3rcw_A Bromodomain-containing protein 1; transcription, structural
genomics, structural consortium, SGC; 2.21A {Homo
sapiens}
Length = 135
Score = 133 bits (337), Expect = 9e-37
Identities = 31/141 (21%), Positives = 54/141 (38%), Gaps = 10/141 (7%)
Query: 107 VQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQP 166
++ + + P L ++++V+ + A F +PV +PDY I P
Sbjct: 2 MEQVAMELRLTP------LTVLLRSVLDQLQDKDPARIFAQPVSL--KEVPDYLDHIKHP 53
Query: 167 MDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGM 226
MD T++KRLE Y + E +DF + NC YN A L +
Sbjct: 54 MDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRLRDQGGVVLRQA 113
Query: 227 P--SEEVVLDAPQPRSSKKKP 245
+ + L+ ++P
Sbjct: 114 RREVDSIGLEEASGMHLPERP 134
Score = 129 bits (326), Expect = 3e-35
Identities = 38/121 (31%), Positives = 53/121 (43%), Gaps = 6/121 (4%)
Query: 370 TPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRN 429
TPL ++ +L K A F PV ++++ DY D IK PMD T+RK++
Sbjct: 12 TPL-TVLLRSVLDQLQDKDP---ARIFAQPVSLKEV--PDYLDHIKHPMDFATMRKRLEA 65
Query: 430 RTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAAA 489
+ YK EF +D LI NC KYN D A +L + E + A
Sbjct: 66 QGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRLRDQGGVVLRQARREVDSIGLEEA 125
Query: 490 S 490
S
Sbjct: 126 S 126
>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 = 132 bits (335), Expect = 2e-36
Identities = 30/107 (28%), Positives = 46/107 (42%), Gaps = 5/107 (4%)
Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
+ + L K F PVD +++ DY +IK+PMDL +V K+ Y
Sbjct: 12 RIFLRNVTHRLAIDKR---FRVFTKPVDPDEV--PDYVTVIKQPMDLSSVISKIDLHKYL 66
Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
T K++ D+ LI SN +YNP + R + D + E
Sbjct: 67 TVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIKE 113
Score = 120 bits (303), Expect = 3e-32
Identities = 27/114 (23%), Positives = 49/114 (42%), Gaps = 6/114 (5%)
Query: 123 NQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYW 182
+L+ ++NV + F +PVD +PDY VI QPMDL ++ +++ + Y
Sbjct: 9 RELRIFLRNVTHRLAIDKRFRVFTKPVDP--DEVPDYVTVIKQPMDLSSVISKIDLHKYL 66
Query: 183 SGKEAIQDFTTMFTNCYVYNKPGED----VVLMAQNLEQLFLTKITGMPSEEVV 232
+ K+ ++D + +N YN + + A L I E+
Sbjct: 67 TVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIKEELDEDFE 120
>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 = 129 bits (327), Expect = 2e-35
Identities = 29/126 (23%), Positives = 52/126 (41%), Gaps = 2/126 (1%)
Query: 358 EGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKP 417
G LG + + + + Q A PFY K DY+ IK P
Sbjct: 6 HHSSGVDLGTENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPS--KKKYPDYYQQIKMP 63
Query: 418 MDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
+ L +R K++N+ Y+T D+ L+F N +YN P+ + +L V + + ++
Sbjct: 64 ISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKEL 123
Query: 478 PDESNL 483
++
Sbjct: 124 ARRDDI 129
Score = 121 bits (305), Expect = 2e-32
Identities = 25/111 (22%), Positives = 39/111 (35%), Gaps = 4/111 (3%)
Query: 122 TNQLQYIVKNVMKAV--WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
Q + V A PF+ PDY++ I P+ L I+ +L+N
Sbjct: 19 YFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSK--KKYPDYYQQIKMPISLQQIRTKLKNQ 76
Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
Y + D MF N YN P + L+Q+ K + +
Sbjct: 77 EYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRD 127
>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 = 135 bits (340), Expect = 2e-35
Identities = 35/167 (20%), Positives = 62/167 (37%), Gaps = 2/167 (1%)
Query: 77 NESNSGNSTKAASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAV 136
N + + S+ ++ + + + P + V + +
Sbjct: 123 NGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKM 182
Query: 137 WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFT 196
P +WPFH PV+ +PDY+KVI PMDL TI+K + + Y S + + D +
Sbjct: 183 MAVPDSWPFHHPVNK--KFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILA 240
Query: 197 NCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKK 243
N YN P AQ + + +T L+ + +
Sbjct: 241 NSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAKEA 287
Score = 124 bits (312), Expect = 1e-31
Identities = 30/108 (27%), Positives = 53/108 (49%), Gaps = 5/108 (4%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
+ + + ++ +WPF+ PV+ K + DY+ +I PMDL T+RK + Y
Sbjct: 171 SFILDNIVTQKMMAVPD---SWPFHHPVN--KKFVPDYYKVIVNPMDLETIRKNISKHKY 225
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
++ + F DDV LI +N KYN P+ A+++ V + +
Sbjct: 226 QSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEH 273
Score = 121 bits (304), Expect = 2e-30
Identities = 32/140 (22%), Positives = 61/140 (43%), Gaps = 2/140 (1%)
Query: 88 ASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHE 147
+ P + + P R L I+++++ + P+ +PFH
Sbjct: 11 QQLPPKKKRRVGTTVHCDYLNRPHKSIHRRRTDPMVTLSSILESIINDMRDLPNTYPFHT 70
Query: 148 PVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGED 207
PV+A + DY+K+IT+PMDL T+++ + Y S +E + + N YN P
Sbjct: 71 PVNA--KVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHS 128
Query: 208 VVLMAQNLEQLFLTKITGMP 227
+ ++Q++ L K+
Sbjct: 129 LTQISQSMLDLCDEKLKEKE 148
Score = 111 bits (278), Expect = 4e-27
Identities = 38/176 (21%), Positives = 77/176 (43%), Gaps = 6/176 (3%)
Query: 342 RRESGSITKKPQRISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVD 401
+R G+ L II ++ + +PF+TPV+
Sbjct: 18 KRRVGTTVHCDYLNRPHKSIHRRRTDPMVTL-SSILESIINDM---RDLPNTYPFHTPVN 73
Query: 402 VEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVT 461
+ + DY+ II +PMDL T+R+ +R R Y + +EF + + LI N YN P H++
Sbjct: 74 AKVV--KDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQ 131
Query: 462 MARQLSAVFEDRFAKMPDESNLASRAAASVSSDDDSEDERQNQLKYLQEQLKSLTD 517
+++ + + +++ + D+ +A + DDD + +++ ++ D
Sbjct: 132 ISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPD 187
>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 = 130 bits (328), Expect = 2e-35
Identities = 32/137 (23%), Positives = 52/137 (37%), Gaps = 5/137 (3%)
Query: 108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWK---HPHAWPFHEPVDAINLNLPDYHKVIT 164
K + +++ + V++A F + PDY+K+I
Sbjct: 12 DTGSAKRKSKKNIRKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSK--KDYPDYYKIIL 69
Query: 165 QPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKIT 224
+PMDL I+ + N+ Y + I+D MF N YN+ G V A LE+L K
Sbjct: 70 EPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRK 129
Query: 225 GMPSEEVVLDAPQPRSS 241
+ D P +
Sbjct: 130 ELGPLPDDDDMASPAEN 146
Score = 115 bits (289), Expect = 4e-30
Identities = 29/117 (24%), Positives = 50/117 (42%), Gaps = 6/117 (5%)
Query: 375 KYCSEIIAELFHKKH-QNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
K ++ E + F K DY+ II +PMDL + +RN Y
Sbjct: 30 KILFNVVLEAREPGSGRRLCDLFMVKPS--KKDYPDYYKIILEPMDLKIIEHNIRNDKYA 87
Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM---PDESNLASRA 487
+ +D++L+F N YN V A L + +++ ++ PD+ ++AS A
Sbjct: 88 GEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKELGPLPDDDDMASPA 144
>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 = 128 bits (324), Expect = 4e-35
Identities = 27/122 (22%), Positives = 46/122 (37%), Gaps = 8/122 (6%)
Query: 114 PKHRPGRNTNQLQYIVKNVMKAVWK------HPHAWPFHEPVDAINLNLPDYHKVITQPM 167
+ + +Q + V +AV + F LPDY+ I +PM
Sbjct: 5 ISPKKSKYMTPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSR--SELPDYYLTIKKPM 62
Query: 168 DLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
D+ I+ + N Y ++DF MF N YN+P + A L ++ L +
Sbjct: 63 DMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRDLE 122
Query: 228 SE 229
+
Sbjct: 123 GD 124
Score = 116 bits (293), Expect = 5e-31
Identities = 24/106 (22%), Positives = 42/106 (39%), Gaps = 2/106 (1%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
E + K+ + + F + L DY+ IKKPMD+ +R M Y+
Sbjct: 21 NEVYEAVKNYTDKRGRRLSAIFLRLPS--RSELPDYYLTIKKPMDMEKIRSHMMANKYQD 78
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
+D ++F+N YN P+ + A L V + + +
Sbjct: 79 IDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRDLEGD 124
>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 = 125 bits (317), Expect = 3e-34
Identities = 22/116 (18%), Positives = 45/116 (38%), Gaps = 5/116 (4%)
Query: 368 SKTPLWYKYCSEIIAELFHKKHQN---YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVR 424
S T C E+ + K + F + DY++++ +P+DL ++
Sbjct: 1 SMTVDPIAVCHELYNTIRDYKDEQGRLLCELFIRAPK--RRNQPDYYEVVSQPIDLMKIQ 58
Query: 425 KKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDE 480
+K++ Y D +L+F+N Y PD A +L ++ + +
Sbjct: 59 QKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQK 114
Score = 112 bits (282), Expect = 1e-29
Identities = 24/111 (21%), Positives = 38/111 (34%), Gaps = 4/111 (3%)
Query: 122 TNQLQYIVKNVMKAV--WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
+ + F N PDY++V++QP+DL I+++L+
Sbjct: 7 IAVCHELYNTIRDYKDEQGRLLCELFIRAPKR--RNQPDYYEVVSQPIDLMKIQQKLKME 64
Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
Y DF +F N Y KP A L L+L +
Sbjct: 65 EYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQKG 115
>2dat_A Possible global transcription activator SNF2L2; bromodomain, all
alpha protein, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 123
Score = 124 bits (313), Expect = 1e-33
Identities = 26/119 (21%), Positives = 50/119 (42%), Gaps = 4/119 (3%)
Query: 113 PPKHRPGRNTNQLQYIVKNVMKAV--WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLG 170
P + T Q+ I+ V+ + F + LP+Y+++I +P+D
Sbjct: 6 SGSPNPPKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSR--KELPEYYELIRKPVDFK 63
Query: 171 TIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSE 229
IK+R+ N+ Y S + +D + N +N G + + L+ +F + PS
Sbjct: 64 KIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSARQSGPSS 122
Score = 122 bits (307), Expect = 7e-33
Identities = 26/124 (20%), Positives = 52/124 (41%), Gaps = 5/124 (4%)
Query: 360 GGGSGLGGSKTPLWYKYCSEIIAELFHKK---HQNYAWPFYTPVDVEKLGLTDYFDIIKK 416
G G P K + II + + K + + F + L +Y+++I+K
Sbjct: 1 GSSGSSGSPNPPKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPS--RKELPEYYELIRK 58
Query: 417 PMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAK 476
P+D +++++RN Y++ + DV L+ N +N + + L +VF+
Sbjct: 59 PVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSARQS 118
Query: 477 MPDE 480
P
Sbjct: 119 GPSS 122
>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 = 124 bits (312), Expect = 2e-33
Identities = 22/116 (18%), Positives = 40/116 (34%), Gaps = 4/116 (3%)
Query: 117 RPGRNTNQLQYIVKNVMKAV--WKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKK 174
R R + I ++ + A P DY++ I+ P+DL TI+K
Sbjct: 6 RAARLAQIFKEICDGIISYKDSSRQALAAPLLNLPPK--KKNADYYEKISDPLDLITIEK 63
Query: 175 RLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
++ YY + + D +F N Y V L + + ++
Sbjct: 64 QILTGYYKTVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHEASAQI 119
Score = 111 bits (280), Expect = 4e-29
Identities = 25/109 (22%), Positives = 42/109 (38%), Gaps = 2/109 (1%)
Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
+K + I Q A P K DY++ I P+DL T+ K++ YK
Sbjct: 14 FKEICDGIISYKDSSRQALAAPLLNLPP--KKKNADYYEKISDPLDLITIEKQILTGYYK 71
Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESN 482
T + F D+ +F N KY V +L + + + + +
Sbjct: 72 TVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHEASAQID 120
>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 = 123 bits (311), Expect = 2e-33
Identities = 26/120 (21%), Positives = 53/120 (44%), Gaps = 5/120 (4%)
Query: 114 PKHRPGRNTNQLQYIVKNVMK---AVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLG 170
P T +++ IV V+K + + F + LP+Y+++I +P+D
Sbjct: 5 LSPNPPNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSR--KELPEYYELIRKPVDFK 62
Query: 171 TIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEE 230
IK+R+ N+ Y S + +D + N +N G + + L+ +F + + E+
Sbjct: 63 KIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKED 122
Score = 122 bits (307), Expect = 8e-33
Identities = 22/114 (19%), Positives = 48/114 (42%), Gaps = 2/114 (1%)
Query: 375 KYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYKT 434
K +I + + F + L +Y+++I+KP+D +++++RN Y++
Sbjct: 18 KIVDAVIKYKDSSSGRQLSEVFIQLPS--RKELPEYYELIRKPVDFKKIKERIRNHKYRS 75
Query: 435 AKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAA 488
+ DV L+ N +N + + L +VF K+ E + +
Sbjct: 76 LNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDSEGEES 129
>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 = 119 bits (298), Expect = 1e-29
Identities = 28/131 (21%), Positives = 50/131 (38%), Gaps = 4/131 (3%)
Query: 374 YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTYK 433
+ + + PF VD K L +Y++I+ PM L V++ + Y
Sbjct: 162 NQALLGASSPKNLDDKVKLSEPFMELVD--KDELPEYYEIVHSPMALSIVKQNLEIGQYS 219
Query: 434 TAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM--PDESNLASRAAASV 491
+F D+ L+F N + +N P + A L+ F K P+ +L R ++
Sbjct: 220 KIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFFPELQDLNERGEINL 279
Query: 492 SSDDDSEDERQ 502
D +
Sbjct: 280 EFDKFEFENYL 290
Score = 113 bits (283), Expect = 1e-27
Identities = 33/165 (20%), Positives = 54/165 (32%), Gaps = 2/165 (1%)
Query: 108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPM 167
+ + NQ + K + PF E VD LP+Y++++ PM
Sbjct: 147 LHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDK--DELPEYYEIVHSPM 204
Query: 168 DLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
L +K+ LE Y + I D +F N +++N P + A L F I
Sbjct: 205 ALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEF 264
Query: 228 SEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATS 272
E+ + + + L P SA
Sbjct: 265 FPELQDLNERGEINLEFDKFEFENYLAIGGGGPAAAGALAISALD 309
Score = 99.4 bits (247), Expect = 6e-23
Identities = 24/139 (17%), Positives = 44/139 (31%), Gaps = 11/139 (7%)
Query: 90 VEPPPRDEPR-LEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEP 148
++P D L P + PK + + + ++ F +
Sbjct: 2 IDPFTVDYNAPLNPKSELFLDDWHIPKFN-----RFISFTLDVLIDK--YKDIFKDFIKL 54
Query: 149 VDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDV 208
P Y+ I QPM + IK R + Y + D + NC YN+ +
Sbjct: 55 PSR--KFHPQYYYKIQQPMSINEIKSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLI 111
Query: 209 VLMAQNLEQLFLTKITGMP 227
V + + L ++
Sbjct: 112 VKNSMQVVMLIEFEVLKAK 130
Score = 97.8 bits (243), Expect = 2e-22
Identities = 23/143 (16%), Positives = 50/143 (34%), Gaps = 4/143 (2%)
Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
P + ++ S + L K+++ F + Y+ I++PM + ++ +
Sbjct: 25 HIPKFNRFISFTLDVLI-DKYKDIFKDFIKLPS--RKFHPQYYYKIQQPMSINEIKSR-D 80
Query: 429 NRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLASRAA 488
F DV L+ NC YN D +V + Q+ + E K + +
Sbjct: 81 YEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVLKAKNLKRNYLINS 140
Query: 489 ASVSSDDDSEDERQNQLKYLQEQ 511
+ ++ + + Q
Sbjct: 141 EVKAKLLHYLNKLVDATEKKINQ 163
>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 = 111 bits (279), Expect = 3e-28
Identities = 41/177 (23%), Positives = 65/177 (36%), Gaps = 23/177 (12%)
Query: 328 LHPTPVKSAKQLNTRRESGSITKKPQRISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHK 387
PT + I K + S G + L + L +
Sbjct: 34 HVPTLLSFPSGDWICTFCRDIGKPEVEYDCDNLQHSKKGKTAQGLSPVDQRKCERLLLYL 93
Query: 388 KHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRT---YKTAKEFADDVRL 444
+ F PV + +Y+ IIKKPMDL TV+KK++ + Y+ +F DVRL
Sbjct: 94 YCHELSIEFQEPVP---ASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRL 150
Query: 445 IFSNCYKYNPP-----------------DHNVVTMARQLSAVFEDRFAKMPDESNLA 484
IF NC ++N D V + ++ FED+ ++ + A
Sbjct: 151 IFKNCERFNEMMKVVQVYADTQEINLKADSEVAQAGKAVALYFEDKLTEIYSDRTFA 207
Score = 103 bits (257), Expect = 2e-25
Identities = 30/136 (22%), Positives = 57/136 (41%), Gaps = 6/136 (4%)
Query: 90 VEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPV 149
+ RD + E + Q + ++ ++ H + F EPV
Sbjct: 47 ICTFCRDIGKPEVEYDCDNLQHSKKGKTAQGLSPVDQRKCERLLLYLYCHELSIEFQEPV 106
Query: 150 DAINLNLPDYHKVITQPMDLGTIKKRLE---NNYYWSGKEAIQDFTTMFTNCYVYNKPGE 206
++P+Y+K+I +PMDL T+KK+L+ + +Y + + D +F NC +N+ +
Sbjct: 107 P---ASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERFNEMMK 163
Query: 207 DVVLMAQNLEQLFLTK 222
V + A E
Sbjct: 164 VVQVYADTQEINLKAD 179
>2jns_A Bromodomain-containing protein 4; ET-domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Mus musculus}
Length = 90
Score = 106 bits (267), Expect = 6e-28
Identities = 66/86 (76%), Positives = 77/86 (89%)
Query: 608 RTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDF 667
+ +SE+ED KPMSY+EKRQLSLDINKLPG+KLG+VVHIIQSREPSL+ NPDEIEIDF
Sbjct: 5 SSGESEEEDKCKPMSYEEKRQLSLDINKLPGEKLGRVVHIIQSREPSLKNSNPDEIEIDF 64
Query: 668 ETLKPSTLRELEQYVSSCLRKRTYKK 693
ETLKPSTLRELE+YV+SCLRK+ +
Sbjct: 65 ETLKPSTLRELERYVTSCLRKKRKPQ 90
>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 = 111 bits (279), Expect = 8e-27
Identities = 28/132 (21%), Positives = 50/132 (37%), Gaps = 4/132 (3%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
+ + + PF VD K L +Y++I+ PM L V++ + Y
Sbjct: 211 INQALLGASSPKNLDDKVKLSEPFMELVD--KDELPEYYEIVHSPMALSIVKQNLEIGQY 268
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM--PDESNLASRAAAS 490
+F D+ L+F N + +N P + A L+ F K P+ +L R +
Sbjct: 269 SKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFFPELQDLNERGEIN 328
Query: 491 VSSDDDSEDERQ 502
+ D +
Sbjct: 329 LEFDKFEFENYL 340
Score = 106 bits (265), Expect = 6e-25
Identities = 33/166 (19%), Positives = 54/166 (32%), Gaps = 2/166 (1%)
Query: 108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPM 167
+ + NQ + K + PF E VD LP+Y++++ PM
Sbjct: 197 LHYLNKLVDATEKKINQALLGASSPKNLDDKVKLSEPFMELVDK--DELPEYYEIVHSPM 254
Query: 168 DLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMP 227
L +K+ LE Y + I D +F N +++N P + A L F I
Sbjct: 255 ALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEF 314
Query: 228 SEEVVLDAPQPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATST 273
E+ + + + L P SA
Sbjct: 315 FPELQDLNERGEINLEFDKFEFENYLAIGGGGPAAAGALAISALDN 360
Score = 94.5 bits (234), Expect = 6e-21
Identities = 24/172 (13%), Positives = 50/172 (29%), Gaps = 7/172 (4%)
Query: 48 PPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESNSGNSTKAASVEPPPRDEPRLEPVDGIV 107
P ++ + K+P + E+ + P+++ + VD
Sbjct: 4 PFTTARKSTGGKAPRKGGMVVKKRKLA--TEAGGSDERPKYLPGKHPKNQEKTPHVDYNA 61
Query: 108 QPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKH--PHAWPFHEPVDAINLNLPDYHKVITQ 165
+ + + + + F + P Y+ I Q
Sbjct: 62 PLNPKSELFLDDWHIPKFNRFISFTLDVLIDKYKDIFKDFIKLPSR--KFHPQYYYKIQQ 119
Query: 166 PMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQ 217
PM + IK R + Y + D + NC YN+ +V + +
Sbjct: 120 PMSINEIKSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVVM 170
Score = 89.5 bits (221), Expect = 2e-19
Identities = 30/178 (16%), Positives = 60/178 (33%), Gaps = 14/178 (7%)
Query: 289 TTTAPKVNHLNSMNAPDTPDMKKAIKRKADGSIDHTPSSLHPTPVKSAKQLNTRRESGSI 348
TTA K + K+ + +A GS + P K + +
Sbjct: 5 FTTARKSTGGKAPRKGGMVVKKRKLATEAGGSDERPKYLPGKHPKNQEKTPHVDYNAPLN 64
Query: 349 TKKPQRISEEGGGGSGLGGSKTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLT 408
K + + P + ++ S + ++ K+++ F +
Sbjct: 65 PKSELFLDD----------WHIPKFNRFISFTL-DVLIDKYKDIFKDFIKLPS--RKFHP 111
Query: 409 DYFDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQL 466
Y+ I++PM + ++ + F DV L+ NC YN D +V + Q+
Sbjct: 112 QYYYKIQQPMSINEIKSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQV 168
>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 = 96.5 bits (239), Expect = 4e-23
Identities = 20/120 (16%), Positives = 36/120 (30%), Gaps = 8/120 (6%)
Query: 369 KTPLWYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMR 428
L + L P + D +DL +R +++
Sbjct: 70 VAKLSPANQRKCERVLLALFCHEPCRPLHQLATDST----FSLDQPGGTLDLTLIRARLQ 125
Query: 429 NRT---YKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKMPDESNLAS 485
+ Y + +EFA DV +F K V L FE R + ++ ++
Sbjct: 126 EKLSPPYSSPQEFAQDVGRMFKQFNKLTEDKA-DVQSIIGLQRFFETRMNEAFGDTKFSA 184
Score = 75.7 bits (185), Expect = 7e-16
Identities = 23/117 (19%), Positives = 42/117 (35%), Gaps = 9/117 (7%)
Query: 126 QYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLE---NNYYW 182
Q + V+ A++ H P H+ + +DL I+ RL+ + Y
Sbjct: 78 QRKCERVLLALFCHEPCRPLHQLAT----DSTFSLDQPGGTLDLTLIRARLQEKLSPPYS 133
Query: 183 SGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGM-PSEEVVLDAPQP 238
S +E QD MF + + V L++ F T++ + +P
Sbjct: 134 SPQEFAQDVGRMFKQFNKLTED-KADVQSIIGLQRFFETRMNEAFGDTKFSAVLVEP 189
>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 = 92.6 bits (230), Expect = 3e-22
Identities = 21/144 (14%), Positives = 47/144 (32%), Gaps = 10/144 (6%)
Query: 371 PLWYKYCSEIIAELFHKKHQN---YAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKM 427
L + + + + Y+ D K P+ +RK +
Sbjct: 6 LLIQELIHNLFVSVMSHQDDEGRCYSDSLAEIPA------VDPNFPNKPPLTFDIIRKNV 59
Query: 428 RNRTYKTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM-PDESNLASR 486
N Y+ F + + + + N D + A +L F ++ + L S
Sbjct: 60 ENNRYRRLDLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDELCKNGEILLSP 119
Query: 487 AAASVSSDDDSEDERQNQLKYLQE 510
A + + ++ E++ + K +E
Sbjct: 120 ALSYTTKHLHNDVEKERKEKLPKE 143
Score = 83.8 bits (207), Expect = 4e-19
Identities = 21/122 (17%), Positives = 45/122 (36%), Gaps = 4/122 (3%)
Query: 125 LQYIVKNVMKAVWKHPHAW--PFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYW 182
+Q ++ N+ +V H + + + I P++ P+ I+K +ENN Y
Sbjct: 8 IQELIHNLFVSVMSHQDDEGRCYSDSLAEIPAVDPNFPNK--PPLTFDIIRKNVENNRYR 65
Query: 183 SGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSK 242
+ + N+ ++ A L+Q F+ + +L +P +
Sbjct: 66 RLDLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDELCKNGEILLSPALSYTT 125
Query: 243 KK 244
K
Sbjct: 126 KH 127
>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 = 74.2 bits (181), Expect = 2e-15
Identities = 15/105 (14%), Positives = 33/105 (31%), Gaps = 9/105 (8%)
Query: 373 WYKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGTVRKKMRNRTY 432
E+ L + + ++P+DL V++KM Y
Sbjct: 69 RLALEKELQISLKQVLTALLNSRTTSHL---------LRYRQQQPLDLEGVKRKMDQGNY 119
Query: 433 KTAKEFADDVRLIFSNCYKYNPPDHNVVTMARQLSAVFEDRFAKM 477
+ EF+DD+ I + + + + F + ++
Sbjct: 120 TSVLEFSDDIVKIIQAAINSDGGQPEIKKANSMVKSFFIRQMERV 164
Score = 62.3 bits (150), Expect = 2e-11
Identities = 11/104 (10%), Positives = 35/104 (33%), Gaps = 1/104 (0%)
Query: 120 RNTNQLQYIVKNVMKAVWKHPHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENN 179
T + + ++ + +++ + QP+DL +K++++
Sbjct: 59 NCTERHPAEWRLALEKELQISLKQVLTALLNSRTTS-HLLRYRQQQPLDLEGVKRKMDQG 117
Query: 180 YYWSGKEAIQDFTTMFTNCYVYNKPGEDVVLMAQNLEQLFLTKI 223
Y S E D + + ++ ++ F+ ++
Sbjct: 118 NYTSVLEFSDDIVKIIQAAINSDGGQPEIKKANSMVKSFFIRQM 161
>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 = 68.9 bits (168), Expect = 6e-12
Identities = 102/630 (16%), Positives = 164/630 (26%), Gaps = 271/630 (43%)
Query: 319 GSIDHT---PSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGGGGSGLGGSKTPLWYK 375
GS++H P++ A QL + + I +P + + L K
Sbjct: 14 GSLEHVLLVPTASFFI----ASQL--QEQFNKILPEPTEGFAADDEPT----TPAELVGK 63
Query: 376 YCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYF--------DI------IKKPMDLG 421
+ ++ L V L L F DI + + D
Sbjct: 64 FLG-YVSSLVEPSKVG------QFDQVLNLCL-TEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 422 TVRKKMRNRTYKTAKEFAD------------------DVRL--IF-----SNCY------ 450
V+ K + Y TA+ A + +L IF ++ Y
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
Query: 451 ---KYNPPDHNVVTMARQL-----------SAVFEDRF---------AKMPDESNLAS-- 485
Y+ +++ + + VF + PD+ L S
Sbjct: 176 LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIP 235
Query: 486 ----------------------------R--------------AAASVSSDDDSEDERQN 503
R A +++ D E +
Sbjct: 236 ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVS 295
Query: 504 QLKYL----------QEQ--LKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKMPM----G 547
K + E SL I +EDS + N P S PM
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSI---LEDSLEN------NEGVP-S--PMLSISN 343
Query: 548 QNSAMMNDHVNKMNK-APAP------LNNGQK-------PKSL----NNVRKPQASNPQQ 589
+ D+VNK N PA L NG K P+SL +RK +A
Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP---- 399
Query: 590 AKKPKPNNANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLP------GDKLGK 643
+ Q R P S +R+L LP L
Sbjct: 400 ------------SGLDQSRI----------PFS---ERKLKFSNRFLPVASPFHSHLLVP 434
Query: 644 VVHIIQSREPSLREPNPDEIEIDFETLK-P-------STLRELEQYVSSCLRKRTYKKTP 695
+I + + + + ++ P S LR L
Sbjct: 435 ASDLINKDLVK------NNVSFNAKDIQIPVYDTFDGSDLRVLSG--------------- 473
Query: 696 KPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKKPKPTTSAA------GPTGASRLSASS 749
+ +R+ D I +K T A GP GAS L
Sbjct: 474 ------------SISERIVD---CI--IRLPVKWETTTQFKATHILDFGPGGASGL--GV 514
Query: 750 SSSSDSDSSGQSTSSSSS--ESSDSE-GEK 776
+ + D +G + + + D + G K
Sbjct: 515 LTHRNKDGTGVRVIVAGTLDINPDDDYGFK 544
Score = 56.2 bits (135), Expect = 4e-08
Identities = 82/487 (16%), Positives = 149/487 (30%), Gaps = 145/487 (29%)
Query: 147 EPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKEAIQDFTTMFTNCYVYNKPGE 206
EP L + + LG + +E + + + T F NCY+ G
Sbjct: 53 EPTTPAEL-VGKF---------LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLE---GN 99
Query: 207 DVVLMAQNLEQLFLTKITGMPSEEVVLDAPQPRSSKKKPPVSASPS-LNPVIKTPVIPL- 264
D+ +A L Q T + ++E++ + R K+P S S L + L
Sbjct: 100 DIHALAAKLLQENDTTLV--KTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV 157
Query: 265 -------------NKLPSATSTPKPRPPNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKK 311
+L T L +A ++ L T D +K
Sbjct: 158 AIFGGQGNTDDYFEELRDLYQTYHV------LVGDLIKFSAETLSEL----IRTTLDAEK 207
Query: 312 AIKRKADGSID-----HTPSSLHPT------PVKSAK-----QL----NTRRESGSITKK 351
+ ++ PS+ P+ S QL T + G
Sbjct: 208 VFTQ----GLNILEWLENPSNTPDKDYLLSIPI-SCPLIGVIQLAHYVVTAKLLG---FT 259
Query: 352 PQRISEEGGGGSGLGG--------SKTPLW---YKYCSEIIAELFH---KKHQNYAWPFY 397
P + G +G ++T W + + I LF + ++ A+P
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYE--AYP-- 315
Query: 398 TPVDVEKLGLTDYFDIIKK---PMDL---GTVRKKMRNRTYKTAKEFADDVRLIFSNCYK 451
+ L D + + PM L ++++++ KT ++ S
Sbjct: 316 -NTSLPPSILEDSLENNEGVPSPM-LSISNLTQEQVQDYVNKTNSHLPAGKQVEISL--- 370
Query: 452 YNPPDHNVVT-----------MARQLSA----------------VFEDRFAKM--PDESN 482
N + VV+ R+ A F +RF + P S+
Sbjct: 371 VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSH 430
Query: 483 LASRAAASVSSDDDSEDE--RQNQLK---Y-------LQEQ----LKSLTDQI-RLLV-- 523
L A+ ++ D + ++ Y L+ + + D I RL V
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKW 490
Query: 524 EDSTKPK 530
E +T+ K
Sbjct: 491 ETTTQFK 497
Score = 34.6 bits (79), Expect = 0.17
Identities = 29/153 (18%), Positives = 50/153 (32%), Gaps = 54/153 (35%)
Query: 82 GNSTKAASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKHPH 141
G + + A PRDE G++ + P + + LQY+V+ V K
Sbjct: 1790 GMTMQVA----VPRDELGRSNY-GMIA--INPGRVAASFSQEALQYVVERVGKRT----- 1837
Query: 142 AWPFHEPVDAINLNLPD--YHKVITQPMDLGTIKKRLENNYYWSG-KEAIQDFTTMFTNC 198
V+ +N N+ + Y V +G A+ T +
Sbjct: 1838 ----GWLVEIVNYNVENQQY--VA-------------------AGDLRALDTVTNVLN-- 1870
Query: 199 YVYNKPGEDVVLMAQNLEQLFLTKITGMPSEEV 231
+ K Q ++ + L K + EEV
Sbjct: 1871 --FIK--------LQKIDIIELQK--SLSLEEV 1891
Score = 33.5 bits (76), Expect = 0.38
Identities = 41/210 (19%), Positives = 81/210 (38%), Gaps = 56/210 (26%)
Query: 40 DSTSSSSPPPSSTE--VTPVKKSPAPPSSSSSAPAP---SHHNESNSG------------ 82
++ ++S PPS E + + P+P S S+ + N++NS
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV 371
Query: 83 NSTKAASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQYIVKNVMKAVWKH--- 139
N K V PP+ L ++ ++ K + +Q + I + K + +
Sbjct: 372 NGAKNLVVSGPPQS---LYGLNLTLR------KAKAPSGLDQSR-IPFSERKLKFSNRFL 421
Query: 140 PHAWPFHEPVDAINLNLPDYHKVITQPMDLGTIKKRLENNYYWSGKE-AIQDFTTMFTNC 198
P A PFH + L +I + DL ++NN ++ K+ I
Sbjct: 422 PVASPFHSHL------LVPASDLINK--DL------VKNNVSFNAKDIQIP--------- 458
Query: 199 YVYN-KPGEDVVLMAQNLEQLFLTKITGMP 227
VY+ G D+ +++ ++ + + I +P
Sbjct: 459 -VYDTFDGSDLRVLSGSISERIVDCIIRLP 487
Score = 31.6 bits (71), Expect = 1.4
Identities = 18/99 (18%), Positives = 27/99 (27%), Gaps = 37/99 (37%)
Query: 184 GKEAIQDFTTMF---TNCYV----YNKPGEDVVLMAQNLEQLFLTKITGMPSEEVVLDAP 236
+EA+Q T V YN + V G + LD
Sbjct: 1822 SQEALQYVVERVGKRTGWLVEIVNYNVENQQYV-------------AAG---DLRALDT- 1864
Query: 237 QPRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPK 275
+ LN IK I + +L + S +
Sbjct: 1865 ------------VTNVLN-FIKLQKIDIIELQKSLSLEE 1890
Score = 30.4 bits (68), Expect = 3.3
Identities = 20/108 (18%), Positives = 33/108 (30%), Gaps = 29/108 (26%)
Query: 639 DKLG-KVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKKTPKP 697
D G ++ I+ + NP + I F K +RE Y + ++
Sbjct: 1655 DTYGFSILDIVIN--------NPVNLTIHFGGEKGKRIREN--YSAM-----IFETIV-- 1697
Query: 698 KDEKFAEKK--HELEKRLQDVTSQIDSTNKKLKKPK---P---TTSAA 737
D K +K E+ + T S L + P A
Sbjct: 1698 -DGKLKTEKIFKEINEHSTSYT--FRSEKGLLSATQFTQPALTLMEKA 1742
>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 = 53.3 bits (127), Expect = 3e-07
Identities = 69/479 (14%), Positives = 139/479 (29%), Gaps = 144/479 (30%)
Query: 324 TPSSLHPTPVKSAKQLNTRRESGSITKKPQRISEEGGGGSGLGGSKTPL----------- 372
V + R++ + + + +G GSG KT +
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG----KTWVALDVCLSYKVQ 177
Query: 373 --------W--YKYCSEIIAELFHKKHQNYAWPFYTPVDVEKLGLTDYFDIIKKPMDLGT 422
W K C+ L + Q +D +D+ IK +
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVL--EMLQK----LLYQIDPNWTSRSDHSSNIKLRIHSIQ 231
Query: 423 VRKK--MRNRTYKTAKEFADDV---RLI--FS-NCYKYNPPDHNVVTMARQLSAVFEDRF 474
+ ++++ Y+ +V + F+ +C K ++T RF
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC-KI------LLTT----------RF 274
Query: 475 AKMPDESNLASRAAASVSSDDDS----EDERQNQL-KYLQEQLKSLTDQIRLLVEDSTKP 529
++ D L++ +S D S DE ++ L KYL + + L P
Sbjct: 275 KQVTDF--LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL-------------P 319
Query: 530 KKKKKKNRDQPKSKMPMGQNSAMMNDHVN------KMNKAPAPLNNGQKPKSLNNVRKPQ 583
++ N P + + + D + +N L + SLN +
Sbjct: 320 REVLTTN---P---RRLSIIAESIRDGLATWDNWKHVNC--DKLTTIIE-SSLNVL---- 366
Query: 584 ASNPQQAKK--------PKPNNANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINK 635
P + +K P +A+ + FD DV ++ K L + K
Sbjct: 367 --EPAEYRKMFDRLSVFPP--SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL---VEK 419
Query: 636 LPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLREL-EQYVSSCLRKRTYKKT 694
P + + I L+ +E + R + + Y + +
Sbjct: 420 QP-KESTISIPSIYLE---LKVKLENEYALH---------RSIVDHY--NIPKTFDSDDL 464
Query: 695 PKPKDEKF--------------AEKKHELEKRLQDVTSQIDSTNKKLKKPKPTTSAAGP 739
P +++ E+ D +K++ +A+G
Sbjct: 465 IPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD----FRFLEQKIRHDSTAWNASGS 519
>1x9d_A Endoplasmic reticulum mannosyl-oligosaccharide 1,
2-alpha-mannosidase; substrate analogue, glycosyl
hydrolase; HET: SMD; 1.41A {Homo sapiens} SCOP:
a.102.2.1 PDB: 1fo3_A* 1fo2_A* 1fmi_A
Length = 538
Score = 39.2 bits (91), Expect = 0.005
Identities = 20/103 (19%), Positives = 35/103 (33%), Gaps = 3/103 (2%)
Query: 48 PPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESNSGNSTKAASVEPPPRDEPRLEPVDGIV 107
P S ++ + A + + + S + A +EP E +
Sbjct: 10 DPPSQDLKDGTQEEATKRQEAPVDPRPEGDPQRTVISWRGAVIEPEQGTELPSRRAEVPT 69
Query: 108 QPPVVPPKHRPGR-NTNQLQYIVKNVMKAVWKH--PHAWPFHE 147
+PP+ P + + + N Q V +V WK AW E
Sbjct: 70 KPPLPPARTQGTPVHLNYRQKGVIDVFLHAWKGYRKFAWGHDE 112
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.1 bits (85), Expect = 0.011
Identities = 13/70 (18%), Positives = 26/70 (37%), Gaps = 7/70 (10%)
Query: 671 KPSTLRELEQYVSSCLRK--RTYKKTPKPKDEKFAEKKHEL-EKRLQDVTSQIDSTNKKL 727
+ L + E +RK +K + D + E EK +D+ ++++
Sbjct: 76 QADRLTQ-E---PESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQV 131
Query: 728 KKPKPTTSAA 737
+K K A
Sbjct: 132 EKNKINNRIA 141
Score = 31.3 bits (70), Expect = 0.69
Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 13/59 (22%)
Query: 483 LASRAAASVSSDDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPK 541
L AAS ++ R+ K L+E + ++Q+ K K NR K
Sbjct: 98 LQELDAAS---KVMEQEWREKAKKDLEEWNQRQSEQVE----------KNKINNRIADK 143
Score = 28.2 bits (62), Expect = 7.9
Identities = 19/108 (17%), Positives = 37/108 (34%), Gaps = 30/108 (27%)
Query: 601 VAAKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNP 660
+A ++ E E + K + E+++ L D K E RE
Sbjct: 74 IAQADRLT---QEPESIRK---WREEQRKRLQEL----DAASK------VMEQEWREKAK 117
Query: 661 DEIEIDFETLKPSTLRELEQYVSSCLRKRTYKKTPKPKDEKFAEKKHE 708
++E ++ R+ EQ + K K + D+ F ++
Sbjct: 118 KDLE-EWNQ------RQSEQ-----VEKN--KINNRIADKAFYQQPDA 151
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor,
chromophore, glycoprotein, lipoprotein, membrane,
palmitate phosphorylation; HET: BOG RET PLM TWT PC1;
2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*
Length = 448
Score = 34.9 bits (80), Expect = 0.095
Identities = 17/96 (17%), Positives = 25/96 (26%), Gaps = 1/96 (1%)
Query: 24 PVKAEQDVKVNNNNTSDSTSSSSPPPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESNSGN 83
++ + T SS S + +K+ A A
Sbjct: 338 QFDDKETEDDKDAETEIPAGESSDAAPSADAAQMKEMMAMMQKMQQQQAAYPPQGYAPPP 397
Query: 84 STKAASVEPPPRDEPRLEPVDGIVQPPVV-PPKHRP 118
PP P+ P G PP PP+ P
Sbjct: 398 QGYPPQGYPPQGYPPQGYPPQGYPPPPQGAPPQGAP 433
Score = 30.3 bits (68), Expect = 2.6
Identities = 16/116 (13%), Positives = 29/116 (25%)
Query: 12 PVVNQNGTGDPDPVKAEQDVKVNNNNTSDSTSSSSPPPSSTEVTPVKKSPAPPSSSSSAP 71
P V D + ++D + S ++ S + + ++ P
Sbjct: 331 PWVLTCCQFDDKETEDDKDAETEIPAGESSDAAPSADAAQMKEMMAMMQKMQQQQAAYPP 390
Query: 72 APSHHNESNSGNSTKAASVEPPPRDEPRLEPVDGIVQPPVVPPKHRPGRNTNQLQY 127
PP P+ P PP P P + + Y
Sbjct: 391 QGYAPPPQGYPPQGYPPQGYPPQGYPPQGYPPPPQGAPPQGAPPAAPPQGVDNQAY 446
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 34.3 bits (79), Expect = 0.15
Identities = 18/153 (11%), Positives = 41/153 (26%), Gaps = 15/153 (9%)
Query: 494 DDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKK---------------NRD 538
+ D E + + +E+ +S +R + +K+
Sbjct: 16 ELDEEPGEEELTEEQEEEFRSAVATVRETLLGVPISEKEIADTVWYYYFDVEKSVNYLLQ 75
Query: 539 QPKSKMPMGQNSAMMNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNA 598
+ SK + + K NK+ L + + P ++ S + + N
Sbjct: 76 KASSKAGAKEKQNTDSQKEKKQNKSKEALADAKDPLDESSNGIKNLSLNKNDEPAFQTNG 135
Query: 599 NTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSL 631
E + + K D +
Sbjct: 136 EVKMKNSSESDNQPEKKKIKKQNPTDLVSVPEI 168
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid
cyclase fold, DDXXXXD motif, NDXXSXXXE MOT
methylisoborneol biosynthesis; HET: GST; 1.80A
{Streptomyces coelicolor} PDB: 3v1x_A*
Length = 433
Score = 34.3 bits (78), Expect = 0.16
Identities = 16/139 (11%), Positives = 26/139 (18%), Gaps = 7/139 (5%)
Query: 2 SAAETETATDPVVNQNGTGDPDPVKAEQDVKVNNNNTSDSTSSSSPPPSSTEVTPVKKSP 61
S ++ V + P T PP
Sbjct: 4 SHHHHHHSSGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNPPD 63
Query: 62 APP---SSSSSAPAPSHHNESNSGNSTKAASVEPPPRDEPRLEPVDGIVQPPVVPPKHRP 118
P+ ++ + + +P P P G P H
Sbjct: 64 TVTGDSVLQRILRGPTGPGTTSLAPAVRYGR-QPGPEAPASAPPAAGRAVPG--LYHHPV 120
Query: 119 GRNTNQLQYIVKNVMKAVW 137
V +K W
Sbjct: 121 PEPDPVRVEEVSRRIKR-W 138
Score = 29.3 bits (65), Expect = 4.8
Identities = 15/77 (19%), Positives = 24/77 (31%), Gaps = 2/77 (2%)
Query: 43 SSSSPPPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESNSGNSTKAASVEPPPRDEPRLEP 102
SS S+ + P PS+S ++ A + + + PPP P
Sbjct: 3 SSHHHHHHSSGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPA--PPPPPAPAAGN 60
Query: 103 VDGIVQPPVVPPKHRPG 119
V V + G
Sbjct: 61 PPDTVTGDSVLQRILRG 77
>3cqx_C BAG family molecular chaperone regulator 2; protein-protein
complex, ATP-binding, cytoplasm, nucleotide-binding,
nucleus, phosphoprotein; 2.30A {Mus musculus} PDB:
3d0t_A
Length = 88
Score = 30.3 bits (68), Expect = 0.44
Identities = 21/89 (23%), Positives = 39/89 (43%), Gaps = 14/89 (15%)
Query: 650 SREPSLREPNP--DEIEIDFETLKPSTLRELEQYVSSCLRKRTYKKTPKPKDEKF----- 702
E SL+ DE+ F + L S+C + + P P D+KF
Sbjct: 4 GSEESLKHATRIIDEVVSKFLDDLGNAKSHLMSLYSAC----SSEVPPGPVDQKFQSIVI 59
Query: 703 ---AEKKHELEKRLQDVTSQIDSTNKKLK 728
E + ++++RL+ + ID+++K +K
Sbjct: 60 GCALEDQKKIKRRLETLLRNIDNSDKAIK 88
>2jg0_A Periplasmic trehalase; family 37, hydrolase, inhibitor, glycoside
hydrolase, glycosidase, 1-thiatrehazolin; HET: TTZ;
1.50A {Escherichia coli} SCOP: a.102.1.9 PDB: 2jf4_A*
2jjb_A* 2wyn_A*
Length = 535
Score = 32.5 bits (73), Expect = 0.52
Identities = 14/82 (17%), Positives = 27/82 (32%), Gaps = 1/82 (1%)
Query: 659 NPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKKTPKPKD-EKFAEKKHELEKRLQDVT 717
+P I D+ + + +L +V+ + P + + E L L T
Sbjct: 41 DPLMILADYRMQQNQSGFDLRHFVNVNFTLPKEGEKYVPPEGQSLREHIDGLWPVLTRST 100
Query: 718 SQIDSTNKKLKKPKPTTSAAGP 739
+ + L P+P G
Sbjct: 101 ENTEKWDSLLPLPEPYVVPGGR 122
>1pk8_A RAT synapsin I; ATP binding, ATP grAsp, calcium (II) ION, membrane
protein; HET: ATP; 2.10A {Rattus norvegicus} SCOP:
c.30.1.5 d.142.1.3 PDB: 1px2_A*
Length = 422
Score = 31.7 bits (71), Expect = 0.97
Identities = 14/78 (17%), Positives = 22/78 (28%)
Query: 41 STSSSSPPPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESNSGNSTKAASVEPPPRDEPRL 100
S +S P S + + S A P +S +AP+P +S A +
Sbjct: 37 SAASPGATPGSAAASAERASTAAPVASPAAPSPGSSGGGGFFSSLSNAVKQTTAAAAATF 96
Query: 101 EPVDGIVQPPVVPPKHRP 118
G
Sbjct: 97 SEQVGGGSGGAGRGGAAA 114
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 31.6 bits (71), Expect = 1.2
Identities = 20/62 (32%), Positives = 26/62 (41%), Gaps = 4/62 (6%)
Query: 38 TSDSTSSSSPPPSST----EVTPVKKSPAPPSSSSSAPAPSHHNESNSGNSTKAASVEPP 93
TS S S +SP S T T SP PS S ++P+ S + S S S + P
Sbjct: 1623 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1682
Query: 94 PR 95
Sbjct: 1683 YS 1684
>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 = 30.3 bits (67), Expect = 1.4
Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 9/30 (30%)
Query: 500 ERQNQLKYLQEQLKSLTDQIRLLVEDSTKP 529
E+Q LK L ++L +DS P
Sbjct: 18 EKQ--------ALKKLQASLKLYADDSA-P 38
>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 = 31.3 bits (71), Expect = 1.6
Identities = 36/230 (15%), Positives = 79/230 (34%), Gaps = 40/230 (17%)
Query: 500 ERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQNSAMMNDHVNK 559
++K +++ + + DQ L TK +K ++ + + A +
Sbjct: 980 TADGKIKKMEDDILIMEDQNNKL----TKERKLLEERVSDLTTNL------AEEEEKAKN 1029
Query: 560 MNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTVAAKKQVRTFDSEDEDVAK 619
+ K L ++ +K + +K R + E D+ +
Sbjct: 1030 LTKLKNKHE--SMISELE-------VRLKKEEKSR------QELEKIKRKLEGESSDLHE 1074
Query: 620 PMSYDEKRQLSLDINKLPGDKLGKVVHIIQSREPSLREPNPDEIEIDFETLKPSTLRELE 679
++ + + L +L K +Q + DE LK +RELE
Sbjct: 1075 QIAELQAQIAELK------AQLAKKEEELQ----AALARLEDETSQKNNALK--KIRELE 1122
Query: 680 QYVSSCLRKRTYKKTPKPKDEKFAEKKHELEKRLQDVTSQIDSTNKKLKK 729
++S +K + K EK +K +L + L+ + ++++ T
Sbjct: 1123 SHISDLQEDLESEKAARNKAEK---QKRDLSEELEALKTELEDTLDTTAT 1169
>3cux_A Malate synthase; TIM barrel, glyoxylate bypass, transferase,
tricarboxylic acid cycle; 1.70A {Bacillus anthracis}
Length = 528
Score = 30.6 bits (69), Expect = 2.4
Identities = 21/130 (16%), Positives = 39/130 (30%), Gaps = 16/130 (12%)
Query: 406 GLTDY-FDIIKKPMDLGTVRKKMRNRTYKTAKEFADDVRLIFSNCYK-----------YN 453
G DY F +K + R + TA + C++
Sbjct: 271 GRWDYIFSFLKAFRNHNEFLLPDRAQVTMTAPFMRAYSLKVIQTCHRRNAPAIGGMAAQI 330
Query: 454 PPDHNVVTMARQLSAVFED--RFAKM-PDESNLASRAAASVSSDD-DSEDERQNQLKYLQ 509
P +N V D R A D + +A V+ + + + NQ+ +
Sbjct: 331 PIKNNPEANEAAFEKVRADKEREALDGHDGTWVAHPGLVPVAMEVFNHIMKTPNQIFRKR 390
Query: 510 EQLKSLTDQI 519
E++ +
Sbjct: 391 EEIHVTEKDL 400
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 30.5 bits (68), Expect = 2.8
Identities = 12/55 (21%), Positives = 18/55 (32%)
Query: 41 STSSSSPPPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESNSGNSTKAASVEPPPR 95
ST +S S T + PS +P + S S+ + PP
Sbjct: 17 STQVNSSLTSPTGRGSMAAPSLHPSLGPGIGSPGQLHSPISTLSSPINGMGPPFS 71
>1eys_C Photosynthetic reaction center; membrane protein complex, electron
transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A
{Thermochromatium tepidum} SCOP: a.138.1.2
Length = 382
Score = 29.8 bits (66), Expect = 3.4
Identities = 16/76 (21%), Positives = 24/76 (31%), Gaps = 1/76 (1%)
Query: 29 QDVKVNNNNTSDSTSSSSPPPSSTEVTPVKKSPAPPSSSSSAPAPSHHNE-SNSGNSTKA 87
+D + P+S AP + + PA + G + A
Sbjct: 303 KDYPGLYKTAVTQEALPGSAPASEAAPAAATEAAPEAPAQEVPAAEAVPAAAEPGAAEAA 362
Query: 88 ASVEPPPRDEPRLEPV 103
SVEP P +E P
Sbjct: 363 GSVEPAPVEEVAPAPA 378
Score = 29.5 bits (65), Expect = 4.1
Identities = 13/72 (18%), Positives = 19/72 (26%), Gaps = 1/72 (1%)
Query: 48 PPSSTEVTPVKKSPAPPSSSSSAPAPSHH-NESNSGNSTKAASVEPPPRDEPRLEPVDGI 106
P + P +S +APA + AA P + E +
Sbjct: 306 PGLYKTAVTQEALPGSAPASEAAPAAATEAAPEAPAQEVPAAEAVPAAAEPGAAEAAGSV 365
Query: 107 VQPPVVPPKHRP 118
PV P
Sbjct: 366 EPAPVEEVAPAP 377
>1jey_B KU80; double-strand DNA break repair, non-homologous END-joining,
protein/nucleic acid complex, alpha/beta domain, beta
barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.2
c.62.1.4 PDB: 1jeq_B*
Length = 565
Score = 29.8 bits (66), Expect = 4.1
Identities = 16/134 (11%), Positives = 42/134 (31%), Gaps = 9/134 (6%)
Query: 579 VRKPQASNPQQAKKPKPNNANTVAAKKQVRTFDSEDEDVAKPMSYDEKRQLSLDINKLPG 638
+R+ S+ + +KK P A A + + +D + + K+P
Sbjct: 430 LRQYMFSSLKNSKKYAPTEAQLNAVDALIDSMSLAKKD-----EKTDTLEDLFPTTKIPN 484
Query: 639 DKLGKVVHIIQSR--EPSLREPNPDEIEIDFETLKPSTLRELEQYVSSCLRKRTYKKTPK 696
+ ++ + R P P + + + + +S K +
Sbjct: 485 PRFQRLFQCLLHRALHPREPLPPIQQHIWNMLNPPAEVTTKSQIPLSKI--KTLFPLIEA 542
Query: 697 PKDEKFAEKKHELE 710
K ++ ++ +
Sbjct: 543 KKKDQVTAQEIFQD 556
>1aoz_A Ascorbate oxidase; oxidoreductase(oxygen acceptor); HET: NAG; 1.90A
{Cucurbita pepo var} SCOP: b.6.1.3 b.6.1.3 b.6.1.3 PDB:
1aso_A* 1asp_A* 1asq_A*
Length = 552
Score = 29.2 bits (66), Expect = 5.4
Identities = 16/96 (16%), Positives = 27/96 (28%), Gaps = 11/96 (11%)
Query: 238 PRSSKKKPPVSASPSLNPVIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNH 297
S P +P+ + ++ + P+PP T +N
Sbjct: 302 SVSKLPTSPPPQTPAWDDFDRSKNFTYRITAAM---GSPKPPVKFNRRIFLLNTQNVING 358
Query: 298 LN-------SMNAPDTPDMKKAIKRKADGSIDHTPS 326
S+ P TP A+K + D P
Sbjct: 359 YVKWAINDVSLALPPTP-YLGAMKYNLLHAFDQNPP 393
>3nwa_A GB, GB-1, GB1, envelope glycoprotein B; coiled-coil, membrane
fusion, viral P glycoprotein B, HSV-1, membrane; HET:
NAG; 2.26A {Human herpesvirus 1} PDB: 3nwf_A* 3nw8_A*
3nwd_A*
Length = 703
Score = 29.2 bits (65), Expect = 6.3
Identities = 12/78 (15%), Positives = 23/78 (29%)
Query: 21 DPDPVKAEQDVKVNNNNTSDSTSSSSPPPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESN 80
DP + V + + ++P P + P + P P N
Sbjct: 1 DPAAPTSPGTPGVAAATQAANGGPATPAPPALGAAPTGDPKPKKNKKPKNPTPPRPAGDN 60
Query: 81 SGNSTKAASVEPPPRDEP 98
+ + A++ RD
Sbjct: 61 ATVAAGHATLREHLRDIK 78
>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3
(6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...;
bifunctional enzyme, EDTA complex; HET: F6P EDT ADP;
2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B*
3qpu_A* 3qpv_A* 3qpw_A*
Length = 520
Score = 28.9 bits (64), Expect = 7.0
Identities = 23/134 (17%), Positives = 44/134 (32%), Gaps = 15/134 (11%)
Query: 198 CYVYNKPGEDVVLMAQNLEQLFLTKIT----GMPSEEVVLDAPQPRSSKKKPPVSASPSL 253
Y +K E++ + L + K+T G E + L+ + +++ +
Sbjct: 397 AYFLDKSAEEMPYLKCPLHTVL--KLTPVAYGCRVESIYLNVESVCTHRERSEDAKKGPN 454
Query: 254 NPVIKTPVIPLNKLPSATSTPKPRPPNPVLGSTATTTTAPKVNHLNSMNAPDTPDMKKAI 313
+ + V PL A+ P +P +T+A L S P+ P
Sbjct: 455 PLMRRNSVTPL-----ASPEPTKKPRINSFEEHVASTSAA----LPSCLPPEVPTQLPGQ 505
Query: 314 KRKADGSIDHTPSS 327
K S +
Sbjct: 506 NMKGSRSSADSSRK 519
>3kw0_A Cysteine peptidase; structural genomics, joint center for ST
genomics, JCSG, protein structure initiative, PSI-2,
hydrol; HET: LYS; 2.50A {Bacillus cereus}
Length = 214
Score = 28.2 bits (62), Expect = 7.5
Identities = 8/29 (27%), Positives = 11/29 (37%), Gaps = 3/29 (10%)
Query: 376 YCSEIIAELFHK---KHQNYAWPFYTPVD 401
CSE + E F K + + F P
Sbjct: 172 ICSEFVNECFKKIGVEFLTDSEGFIFPEH 200
>1y8q_B Anthracycline-, ubiquitin-like 2 activating enzyme E1B; SUMO,
heterodimer, UBL, ligase; HET: ATP; 2.25A {Homo sapiens}
PDB: 1y8r_B* 3kyc_B* 3kyd_B* 2px9_A
Length = 640
Score = 28.9 bits (64), Expect = 8.2
Identities = 14/125 (11%), Positives = 39/125 (31%), Gaps = 8/125 (6%)
Query: 493 SDDDSEDERQNQLKYLQEQLKSLTDQIRLLVEDSTKPKKKKKKNRDQPKSKMPMGQNSAM 552
D + + + ++ K + ++ + PK+ + + Q S
Sbjct: 520 DDFLQDYTLLINILHSEDLGKDVEFEVVGDAPEKVGPKQAEDAAKSITNGSDDGAQPSTS 579
Query: 553 MNDHVNKMNKAPAPLNNGQKPKSLNNVRKPQASNPQQAKKPKPNNANTVAAKKQVRTFDS 612
+ + ++ S ++++K K + ++AK+
Sbjct: 580 TAQEQDDVLIVD--------SDEEDSSNNADVSEEERSRKRKLDEKENLSAKRSRIEQKE 631
Query: 613 EDEDV 617
E +DV
Sbjct: 632 ELDDV 636
>1scf_A Stem cell factor; steel factor, KIT ligand, MAST cell growth
factor, hormone/growth factor complex; HET: 1PE; 2.20A
{Homo sapiens} SCOP: a.26.1.2 PDB: 1exz_A 2e9w_C* 2o27_A
2o26_A
Length = 273
Score = 28.4 bits (62), Expect = 9.5
Identities = 14/63 (22%), Positives = 26/63 (41%)
Query: 29 QDVKVNNNNTSDSTSSSSPPPSSTEVTPVKKSPAPPSSSSSAPAPSHHNESNSGNSTKAA 88
+D V + + SS+ P + V+ K PP ++SS S + + N +
Sbjct: 152 KDFVVASETSDCVVSSTLSPEKDSRVSVTKPFMLPPVAASSLRNDSSSSNRKAKNPPGDS 211
Query: 89 SVE 91
S+
Sbjct: 212 SLH 214
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
0.306 0.124 0.354
Gapped
Lambda K H
0.267 0.0436 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 11,271,239
Number of extensions: 677474
Number of successful extensions: 1821
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1639
Number of HSP's successfully gapped: 177
Length of query: 779
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 678
Effective length of database: 3,881,772
Effective search space: 2631841416
Effective search space used: 2631841416
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 61 (28.0 bits)