RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16701
(272 letters)
>1rm1_A Tata-box binding protein; yeast TFIIA, TBP protein, ATA-box DNA,
transcription/DNA complex; 2.50A {Saccharomyces
cerevisiae} SCOP: d.129.1.1 d.129.1.1
Length = 240
Score = 185 bits (470), Expect = 3e-58
Identities = 87/186 (46%), Positives = 121/186 (65%), Gaps = 3/186 (1%)
Query: 87 FQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPEIIFFFFRNMVGTISVGCPLDLNQIN 146
+ G + E D K A+ + K +N+V T+++GC LDL +
Sbjct: 30 NRDGTKPATTFQSEEDIKRAAPESEKDTSATSGIVPTL---QNIVATVTLGCRLDLKTVA 86
Query: 147 SRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL 206
R +EYNP +F +IM+I P+TT L F SGK+++ GAK E D KLASRK+A+I++++
Sbjct: 87 LHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKSEDDSKLASRKYARIIQKI 146
Query: 207 GHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLI 266
G K+ FKI NIV +CDV+FP++L+ L H FSSYEPELFPGLIYRMVKP++VLLI
Sbjct: 147 GFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPELFPGLIYRMVKPKIVLLI 206
Query: 267 FVNGRI 272
FV+G+I
Sbjct: 207 FVSGKI 212
Score = 153 bits (388), Expect = 5e-46
Identities = 64/169 (37%), Positives = 99/169 (58%), Gaps = 2/169 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GAK
Sbjct: 69 NIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKS 128
Query: 100 EHDCKLASRKFAKILKQLGHPEIIF-FFFRNMVGTISVGCPLDLNQINSR-VRYSEYNPG 157
E D KLASRK+A+I++++G F +N+VG+ V P+ L + +S Y P
Sbjct: 129 EDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPE 188
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL 206
F GLI +++ P+ L F SGK+++ GAK + A +L +
Sbjct: 189 LFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEF 237
>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus,
transcription; 1.90A {Encephalitozoon cuniculi} PDB:
3oci_A 3oc3_C
Length = 218
Score = 168 bits (426), Expect = 5e-52
Identities = 75/145 (51%), Positives = 108/145 (74%)
Query: 128 RNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 187
+N+V T+++ C LDL I R R +EYNP +F +IM+I P+TT L F SGK++I GAK
Sbjct: 46 QNVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGAK 105
Query: 188 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 247
E ++A++++AKI+ +LG + FKI NIV +CD++F ++L+ L + HS + SYEP
Sbjct: 106 SEKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYEP 165
Query: 248 ELFPGLIYRMVKPRVVLLIFVNGRI 272
ELFPGLIYRMVKP++VLLIFV+G+I
Sbjct: 166 ELFPGLIYRMVKPKIVLLIFVSGKI 190
Score = 152 bits (385), Expect = 8e-46
Identities = 60/168 (35%), Positives = 95/168 (56%), Gaps = 2/168 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++ C LDL I R R +EYNP +F +IM+I P+TT L F SGK++I GAK
Sbjct: 47 NVVATVNLSCKLDLKNIALRARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVITGAKS 106
Query: 100 EHDCKLASRKFAKILKQL-GHPEIIFFFFRNMVGTISVGCPLDLNQIN-SRVRYSEYNPG 157
E ++A++++AKI+ +L + F +N+V + + + L + + Y Y P
Sbjct: 107 EKSSRMAAQRYAKIIHKLGFNATFDDFKIQNIVSSCDIKFSIRLEGLAYAHSNYCSYEPE 166
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQ 205
F GLI +++ P+ L F SGK+++ GAK D A +L Q
Sbjct: 167 LFPGLIYRMVKPKIVLLIFVSGKIVLTGAKVRDDIYQAFNNIYPVLIQ 214
Score = 61.7 bits (149), Expect = 1e-11
Identities = 14/57 (24%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Query: 216 KIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI 272
+ N+V T ++ + L + ++ + Y P+ F +I R+ +P+ LIF +G++
Sbjct: 44 TLQNVVATVNLSCKLDLKNIAL-RARNAEYNPKRFAAVIMRIREPKTTALIFASGKM 99
>1mp9_A Tata-binding protein; transcription regulation, DNA-binding
protein, transcription factor, DNA binding protein;
2.00A {Sulfolobus acidocaldarius} SCOP: d.129.1.1
d.129.1.1
Length = 198
Score = 165 bits (419), Expect = 3e-51
Identities = 58/154 (37%), Positives = 89/154 (57%), Gaps = 2/154 (1%)
Query: 120 PEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSG 179
P N+V T+++ LDL + V EY+P +F GLI ++ +P+ T L F+SG
Sbjct: 8 PYKAVVNIENIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSG 67
Query: 180 KLLILGAKHEHDCKLASRKFAKILKQLGHPIKY-QGFKIHNIVCTCDVRFPVKLDALHHV 238
K+++ GAK + A ++ K LK+ G + +I NIV + ++ V LD +
Sbjct: 68 KMVVTGAKSTDELIKAVKRIIKTLKKYGMQLTGKPKIQIQNIVASANLHVIVNLDKAAFL 127
Query: 239 HSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI 272
+ + YEPE FPGLIYRM +PRVVLLIF +G++
Sbjct: 128 L-ENNMYEPEQFPGLIYRMDEPRVVLLIFSSGKM 160
Score = 163 bits (414), Expect = 2e-50
Identities = 54/170 (31%), Positives = 92/170 (54%), Gaps = 2/170 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++ LDL + V EY+P +F GLI ++ +P+ T L F+SGK+++ GAK
Sbjct: 17 NIVATVTLDQTLDLYAMERSVPNVEYDPDQFPGLIFRLESPKITSLIFKSGKMVVTGAKS 76
Query: 100 EHDCKLASRKFAKILKQLGHPEIIFFFFR--NMVGTISVGCPLDLNQINSRVRYSEYNPG 157
+ A ++ K LK+ G + N+V + ++ ++L++ + + Y P
Sbjct: 77 TDELIKAVKRIIKTLKKYGMQLTGKPKIQIQNIVASANLHVIVNLDKAAFLLENNMYEPE 136
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLG 207
+F GLI ++ PR L F SGK++I GAK E + A +K L +L
Sbjct: 137 QFPGLIYRMDEPRVVLLIFSSGKMVITGAKREDEVHKAVKKIFDKLVELD 186
>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome
binding, complex (ribosome binding/ DNA); HET: DNA 5IU;
2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB:
1d3u_A* 1pcz_A
Length = 182
Score = 162 bits (411), Expect = 3e-50
Identities = 55/168 (32%), Positives = 88/168 (52%), Gaps = 2/168 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++ GAK
Sbjct: 13 NIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAKS 72
Query: 100 EHDCKLASRKFAKILKQLGHPEIIFFFFR--NMVGTISVGCPLDLNQINSRVRYSEYNPG 157
D + A K A+ LK +G NMV + +G +L+ + + EY P
Sbjct: 73 VQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTLPNCEYEPE 132
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQ 205
+F G+I ++ P++ L F SGK++ GAK E D A RK + L +
Sbjct: 133 QFPGVIYRVKEPKSVILLFSSGKIVCSGAKSEADAWEAVRKLLRELDK 180
Score = 161 bits (409), Expect = 6e-50
Identities = 51/146 (34%), Positives = 81/146 (55%), Gaps = 2/146 (1%)
Query: 128 RNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 187
N+V ++ + LDL ++ S+YNP +F G+I + +P+ L F SGKL++ GAK
Sbjct: 12 ENIVASVDLFAQLDLEKVLDLCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKLVVTGAK 71
Query: 188 HEHDCKLASRKFAKILKQLGHPIKY-QGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYE 246
D + A K A+ LK +G K + N+V + D+ LD + YE
Sbjct: 72 SVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSGDIGREFNLDVVALTL-PNCEYE 130
Query: 247 PELFPGLIYRMVKPRVVLLIFVNGRI 272
PE FPG+IYR+ +P+ V+L+F +G+I
Sbjct: 131 PEQFPGVIYRVKEPKSVILLFSSGKI 156
Score = 61.6 bits (149), Expect = 8e-12
Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 215 FKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI 272
+I NIV + D+ + L+ + S Y PE FPG+I + P+V LLIF +G++
Sbjct: 9 LRIENIVASVDLFAQLDLEKVLD-LCPNSKYNPEEFPGIICHLDDPKVALLIFSSGKL 65
>2z8u_A Tata-box-binding protein; transcription, DNA-binding protein,
transcription factor, transcription regulation; 1.90A
{Methanococcus jannaschii}
Length = 188
Score = 161 bits (409), Expect = 7e-50
Identities = 56/169 (33%), Positives = 93/169 (55%), Gaps = 2/169 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V + +G +DL ++ + +EY P +F GL+ ++ P+ L F+SGK+ GAK
Sbjct: 17 NVVVSTKIGDNIDLEEVAMILENAEYEPEQFPGLVCRLSVPKVALLIFRSGKVNCTGAKS 76
Query: 100 EHDCKLASRKFAKILKQLGHPEIIF--FFFRNMVGTISVGCPLDLNQINSRVRYSEYNPG 157
+ + ++A +K K LK G I +NMV T +G +L+ I V +EY P
Sbjct: 77 KEEAEIAIKKIIKELKDAGIDVIENPEIKIQNMVATADLGIEPNLDDIALMVEGTEYEPE 136
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL 206
+F GL+ ++ +P+ L F SGK++I G K E D K A +K +K++
Sbjct: 137 QFPGLVYRLDDPKVVVLIFGSGKVVITGLKSEEDAKRALKKILDTIKEV 185
Score = 157 bits (398), Expect = 3e-48
Identities = 54/155 (34%), Positives = 88/155 (56%), Gaps = 2/155 (1%)
Query: 119 HPEIIFFFFRNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQS 178
HP N+V + +G +DL ++ + +EY P +F GL+ ++ P+ L F+S
Sbjct: 7 HPMEPEIKIVNVVVSTKIGDNIDLEEVAMILENAEYEPEQFPGLVCRLSVPKVALLIFRS 66
Query: 179 GKLLILGAKHEHDCKLASRKFAKILKQLGHP-IKYQGFKIHNIVCTCDVRFPVKLDALHH 237
GK+ GAK + + ++A +K K LK G I+ KI N+V T D+ LD +
Sbjct: 67 GKVNCTGAKSKEEAEIAIKKIIKELKDAGIDVIENPEIKIQNMVATADLGIEPNLDDIAL 126
Query: 238 VHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI 272
+ + + YEPE FPGL+YR+ P+VV+LIF +G++
Sbjct: 127 MV-EGTEYEPEQFPGLVYRLDDPKVVVLIFGSGKV 160
Score = 81.6 bits (201), Expect = 5e-19
Identities = 30/87 (34%), Positives = 47/87 (54%)
Query: 31 QKNRRGTNLNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSG 90
+N NMV T +G +L+ I V +EY P +F GL+ ++ +P+ L F SG
Sbjct: 99 IENPEIKIQNMVATADLGIEPNLDDIALMVEGTEYEPEQFPGLVYRLDDPKVVVLIFGSG 158
Query: 91 KLLILGAKHEHDCKLASRKFAKILKQL 117
K++I G K E D K A +K +K++
Sbjct: 159 KVVITGLKSEEDAKRALKKILDTIKEV 185
>1ytb_A Protein (tata binding protein (TBP)); protein-DNA complex,
transcription/DNA complex; HET: DNA; 1.80A
{Saccharomyces cerevisiae} SCOP: d.129.1.1 d.129.1.1
PDB: 1ngm_A* 1tba_B 1nh2_A* 1ytf_A* 1tbp_A 1qna_A*
1qn3_A* 1qn5_A* 1qn6_A* 1qn7_A* 1qn8_A* 1qn9_A* 1qn4_A*
1qnb_A* 1qnc_A* 1qne_A* 1vok_A 1vol_B* 1vto_A* 1vtl_E*
...
Length = 180
Score = 160 bits (407), Expect = 1e-49
Identities = 81/145 (55%), Positives = 111/145 (76%)
Query: 128 RNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAK 187
+N+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GAK
Sbjct: 8 QNIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAK 67
Query: 188 HEHDCKLASRKFAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVKLDALHHVHSQFSSYEP 247
E D KLASRK+A+I++++G K+ FKI NIV +CDV+FP++L+ L H FSSYEP
Sbjct: 68 SEDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEP 127
Query: 248 ELFPGLIYRMVKPRVVLLIFVNGRI 272
ELFPGLIYRMVKP++VLLIFV+G+I
Sbjct: 128 ELFPGLIYRMVKPKIVLLIFVSGKI 152
Score = 148 bits (374), Expect = 1e-44
Identities = 64/169 (37%), Positives = 99/169 (58%), Gaps = 2/169 (1%)
Query: 40 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLLILGAKH 99
N+V T+++GC LDL + R +EYNP +F +IM+I P+TT L F SGK+++ GAK
Sbjct: 9 NIVATVTLGCRLDLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKS 68
Query: 100 EHDCKLASRKFAKILKQLGHPEIIF-FFFRNMVGTISVGCPLDLNQINSR-VRYSEYNPG 157
E D KLASRK+A+I++++G F +N+VG+ V P+ L + +S Y P
Sbjct: 69 EDDSKLASRKYARIIQKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPE 128
Query: 158 KFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQL 206
F GLI +++ P+ L F SGK+++ GAK + A +L +
Sbjct: 129 LFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEF 177
Score = 60.4 bits (146), Expect = 2e-11
Identities = 16/57 (28%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 216 KIHNIVCTCDVRFPVKLDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLLIFVNGRI 272
+ NIV T + + L + +H++ + Y P+ F +I R+ +P+ LIF +G++
Sbjct: 6 TLQNIVATVTLGCRLDLKTV-ALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKM 61
>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 = 38.5 bits (89), Expect = 0.002
Identities = 36/199 (18%), Positives = 58/199 (29%), Gaps = 54/199 (27%)
Query: 20 GQACFCLIRGGQKNRRGTNLNMVGTISVGCPLD-LNQINSRVRYSEYNPGKFHGLIMKIL 78
G A I GGQ G + + L R Y Y+ ++
Sbjct: 152 GNAQLVAIFGGQ----GNTDD---------YFEEL-----RDLYQTYHV---------LV 184
Query: 79 NPRTTCLAFQSGKLLILGAKHEHDC-KLASRKFAKILKQLGHPEII----FFFFRNMVGT 133
L S + L + D K+ ++ IL+ L +P + +
Sbjct: 185 GD----LIKFSAETLSELIRTTLDAEKVFTQGL-NILEWLENPSNTPDKDYL------LS 233
Query: 134 ISVGCPL-DLNQINSRVRYSEYNPGKFHGLIMKILNPRTTCLAFQSGKLL----ILGAKH 188
I + CPL + Q+ Y K G L S L+ I
Sbjct: 234 IPISCPLIGVIQL---AHY--VVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS 288
Query: 189 EHDCKLASRKFAKILKQLG 207
++ RK +L +G
Sbjct: 289 WESFFVSVRKAITVLFFIG 307
Score = 34.6 bits (79), Expect = 0.038
Identities = 37/180 (20%), Positives = 57/180 (31%), Gaps = 68/180 (37%)
Query: 128 RNMVGTISVGCPLDL----------------NQINSRVRYSEYNPGKFHGLIMKILNPRT 171
+N+V +S G P L +Q SR+ +SE KF + + +P
Sbjct: 375 KNLV--VS-GPPQSLYGLNLTLRKAKAPSGLDQ--SRIPFSERKL-KFSNRFLPVASP-- 426
Query: 172 TCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPI----------KYQGFKIHNIV 221
F S LL+ A + L + K + P+ G I
Sbjct: 427 ----FHS-HLLV-PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERI- 479
Query: 222 CTCDVRFPV------KLDALHHVHSQFSSYEPELF-PG-------LIYRMVK---PRVVL 264
C +R PV + A H + F PG L +R RV++
Sbjct: 480 VDCIIRLPVKWETTTQFKATHIL----------DFGPGGASGLGVLTHRNKDGTGVRVIV 529
>3ss6_A Acetyl-COA acetyltransferase; structural genomics, csgid, center
for structural genomics O infectious diseases, alpha
beta; HET: CSO; 1.70A {Bacillus anthracis}
Length = 394
Score = 37.8 bits (89), Expect = 0.003
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 4 KRKNLKYGIGSACIGGGQ 21
KR+ L+ GI S C+GGG
Sbjct: 368 KRRGLEKGIASLCVGGGI 385
>4dd5_A Acetyl-COA acetyltransferase; structural genomics, center for
structural genomics of infec diseases, csgid, thiolase;
1.25A {Clostridium difficile}
Length = 396
Score = 35.9 bits (84), Expect = 0.010
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 4 KRKNLKYGIGSACIGGGQAC 23
KR++ K G+ + CIGGG
Sbjct: 371 KRRDAKTGLATLCIGGGMGT 390
>1wl4_A Acetyl-coenzyme A acetyltransferase 2; thiolase fold; HET: COA;
1.55A {Homo sapiens} PDB: 1wl5_A
Length = 397
Score = 35.9 bits (84), Expect = 0.012
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 4 KRKNLKYGIGSACIGGGQAC 23
+R G+ + CIGGG
Sbjct: 371 ERMGRSRGVAALCIGGGMGI 390
>2vu1_A Acetyl-COA acetyltransferase; acyltransferase, PHB biosynthesis,
thiolase FOL; HET: CSO OPI; 1.51A {Zoogloea ramigera}
PDB: 1nl7_A* 1ou6_A* 2vu0_A* 1m4s_A* 2vu2_A* 2wkv_A*
2wku_A* 1m1t_A 1m3k_A 1m1o_A 1m3z_A* 2vtz_A* 2wl5_A*
2wkt_A* 2wl4_A* 1m4t_A* 2wl6_A 1qfl_A* 1dlv_A* 1dlu_A*
...
Length = 392
Score = 35.5 bits (83), Expect = 0.013
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 4 KRKNLKYGIGSACIGGGQAC 23
KR+ + G+ + CIGGG
Sbjct: 366 KRRGARKGLATLCIGGGMGV 385
>4e1l_A Acetoacetyl-COA thiolase 2; 3-layer(ABA) sandwich, transferase;
2.00A {Clostridium difficile}
Length = 395
Score = 35.1 bits (82), Expect = 0.018
Identities = 7/20 (35%), Positives = 14/20 (70%)
Query: 4 KRKNLKYGIGSACIGGGQAC 23
+++ ++ G+ + CIGGGQ
Sbjct: 370 QKRKVETGLATLCIGGGQGI 389
>1wdk_C 3-ketoacyl-COA thiolase; alpha2BETA2 heterotetrameric complex,
lyase, oxidoreductase/transferase complex, lyase; HET:
ACO NAD N8E; 2.50A {Pseudomonas fragi} SCOP: c.95.1.1
c.95.1.1 PDB: 1wdl_C* 1wdm_C* 2d3t_C*
Length = 390
Score = 33.2 bits (77), Expect = 0.080
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 4 KRKNLKYGIGSACIGGGQA 22
K+ +G+ + CIG GQ
Sbjct: 364 KQNGGTFGLSTMCIGLGQG 382
>3goa_A 3-ketoacyl-COA thiolase; metabolism, fatty acid, phospholipid,
IDP01071, acyltransferase, cytoplasm, fatty acid
metabolism; 1.70A {Salmonella typhimurium}
Length = 387
Score = 32.8 bits (76), Expect = 0.087
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 4 KRKNLKYGIGSACIGGGQA 22
+RK+ ++G+ + CIG GQ
Sbjct: 361 ERKDAQFGLATMCIGLGQG 379
>1ulq_A Putative acetyl-COA acetyltransferase; structural genomics, riken
structural genomics/proteomics initiative, RSGI; 3.00A
{Thermus thermophilus} SCOP: c.95.1.1 c.95.1.1
Length = 401
Score = 32.5 bits (75), Expect = 0.14
Identities = 7/18 (38%), Positives = 14/18 (77%)
Query: 4 KRKNLKYGIGSACIGGGQ 21
+R+ +++G+ + CIG GQ
Sbjct: 374 RRRKVQFGLATMCIGVGQ 391
>3ef4_A Pseudoazurin, blue copper protein; electron transfer, electron
transport; HET: PO4; 1.18A {Hyphomicrobium
denitrificans}
Length = 124
Score = 31.2 bits (70), Expect = 0.15
Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 38 NLNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKIL 78
+ MV + VG P++L+QI + + + G I K++
Sbjct: 84 GMGMVVLVQVGKPVNLDQIKE-YKATGLAKKRLDGEIAKVV 123
Score = 30.4 bits (68), Expect = 0.27
Identities = 11/38 (28%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 130 MVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKIL 167
MV + VG P++L+QI + + + G I K++
Sbjct: 87 MVVLVQVGKPVNLDQIKE-YKATGLAKKRLDGEIAKVV 123
>2ib8_A Acetyl-COA acetyltransferase; thiolase fold, potassium ION,
chloride, beta-alpha-beta-ALPH alpha-beta-BETA topology;
HET: MES; 1.85A {Homo sapiens} PDB: 2ib7_A* 2ib9_A*
2ibu_A* 2ibw_A* 2iby_A* 2f2s_A*
Length = 395
Score = 31.3 bits (72), Expect = 0.33
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 6 KNLKYGIGSACIGGGQA 22
K +YG+ S C GGG A
Sbjct: 371 KQGEYGLASICNGGGGA 387
>2wu9_A 3-ketoacyl-COA thiolase 2, peroxisomal; cysteine oxidation, fatty
acid metabolism, oxylipin biosynthesis, plant lipid
metabolism; 1.50A {Arabidopsis thaliana} PDB: 2c7y_A
2c7z_A 2wua_A
Length = 442
Score = 30.2 bits (69), Expect = 0.71
Identities = 9/20 (45%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 4 KR--KNLKYGIGSACIGGGQ 21
KR K+ ++G+ S CIG G
Sbjct: 391 KRRGKDCRFGVVSMCIGTGM 410
>3tu6_A Pseudoazurin (blue copper protein); cupredoxins, beta barrel,
electron transfer, redox, electron transport; 2.00A
{Sinorhizobium meliloti}
Length = 127
Score = 28.9 bits (64), Expect = 0.78
Identities = 9/40 (22%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 38 NLNMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKI 77
+ M+G I VG P +L + ++Y + + +I
Sbjct: 85 GMGMIGAIVVGEPANLEAVKG-IKYPGKSKAAAEKIFAEI 123
Score = 28.1 bits (62), Expect = 1.5
Identities = 9/38 (23%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 129 NMVGTISVGCPLDLNQINSRVRYSEYNPGKFHGLIMKI 166
M+G I VG P +L + ++Y + + +I
Sbjct: 87 GMIGAIVVGEPANLEAVKG-IKYPGKSKAAAEKIFAEI 123
>2iik_A 3-ketoacyl-COA thiolase, peroxisomal; fatty acid metabolism,
structural genomics, structural genom consortium, SGC,
transferase; 2.55A {Homo sapiens}
Length = 418
Score = 29.8 bits (68), Expect = 0.97
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 4 KRKNLKYGIGSACIGGGQ 21
+R YG+ S CIG G
Sbjct: 390 RRGKRAYGVVSMCIGTGM 407
>3svk_A Acetyl-COA acetyltransferase; ssgcid, NIH, niaid, SBRI, UW, emerald
biostructures, structu genomics; 2.20A {Mycobacterium
avium}
Length = 407
Score = 29.8 bits (68), Expect = 1.0
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 4 KRKNLKYGIGSACIGGGQA 22
+R+N + + + CIGGG
Sbjct: 381 ERRNARRALITLCIGGGMG 399
>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition,
kinase-INH complex, rubredoxin fold, TPR domain,
transferase; HET: AXX; 2.40A {Mycobacterium
tuberculosis}
Length = 681
Score = 29.8 bits (67), Expect = 1.0
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 10/34 (29%)
Query: 232 LDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLL 265
L AL ++HS GL+Y +KP ++L
Sbjct: 192 LPALSYLHSI----------GLVYNDLKPENIML 215
>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 = 28.8 bits (63), Expect = 1.1
Identities = 5/20 (25%), Positives = 8/20 (40%)
Query: 234 ALHHVHSQFSSYEPELFPGL 253
AL + + Y + P L
Sbjct: 21 ALKKLQASLKLYADDSAPAL 40
>2w1i_A JAK2; chromosomal rearrangement, nucleotide-binding,
tyrosine-protein kinase, proto-oncogene, phosphoprotein,
disease mutation, SH2 domain; HET: PTR L0I; 2.60A {Homo
sapiens}
Length = 326
Score = 29.3 bits (66), Expect = 1.2
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 8/35 (22%)
Query: 200 AKILKQLGHP--IKYQGFKIHNIVCTCDVRFPVKL 232
+ILK L H +KY+G VC R +KL
Sbjct: 93 IEILKSLQHDNIVKYKG------VCYSAGRRNLKL 121
>1afw_A 3-ketoacetyl-COA thiolase; fatty acid metabolism; 1.80A
{Saccharomyces cerevisiae} SCOP: c.95.1.1 c.95.1.1 PDB:
1pxt_A
Length = 393
Score = 29.4 bits (67), Expect = 1.3
Identities = 7/18 (38%), Positives = 10/18 (55%), Gaps = 2/18 (11%)
Query: 4 KRKNLKYGIGSACIGGGQ 21
K+ + G+ S CIG G
Sbjct: 369 KKD--QIGVVSMCIGTGM 384
>3ugc_A Tyrosine-protein kinase JAK2; small molecule inhibitor, ATP
binding, transferase-transfera inhibitor complex; HET:
046; 1.34A {} PDB: 3krr_A* 3lpb_A* 4aqc_A* 3q32_A*
3rvg_A* 3tjc_A* 3tjd_A* 2b7a_A* 3fup_A* 3e64_A* 3e62_A*
3e63_A* 2xa4_A* 3iok_A* 3io7_A* 3kck_A* 3jy9_A*
Length = 295
Score = 29.2 bits (66), Expect = 1.3
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 8/35 (22%)
Query: 200 AKILKQLGHP--IKYQGFKIHNIVCTCDVRFPVKL 232
+ILK L H +KY+G VC R +KL
Sbjct: 62 IEILKSLQHDNIVKYKG------VCYSAGRRNLKL 90
>3drf_A Oligopeptide-binding protein OPPA; oligo-peptide binding,
voluminous binding cavity, venus FLY- trap, peptide
binding protein; 1.30A {Lactococcus lactis} PDB: 3drg_A
3drh_A 3dri_A 3drj_A 3drk_A 3fto_A 3rya_A 3ryb_A
Length = 590
Score = 29.4 bits (66), Expect = 1.5
Identities = 14/93 (15%), Positives = 33/93 (35%), Gaps = 8/93 (8%)
Query: 146 NSRVRYSEYNPG------KFHGLIMKILNPRTTCLAFQSGKL-LILGAKHEHDCKLASRK 198
++Y NP K + + ++++ + A S K +I G ++ + K
Sbjct: 232 GESIKY-VPNPYYWGEKPKLNSITYEVVSTAKSVAALSSSKYDIINGMVSSQYKQVKNLK 290
Query: 199 FAKILKQLGHPIKYQGFKIHNIVCTCDVRFPVK 231
K+L Q I + + + + +
Sbjct: 291 GYKVLGQQAMYISLMYYNLGHYDAKNSINVQDR 323
>3dzo_A Rhoptry kinase domain; parasitic disease, transferase, structural
genomics, structural genomics consortium, SGC; 1.80A
{Toxoplasma gondii}
Length = 413
Score = 28.9 bits (64), Expect = 2.1
Identities = 6/34 (17%), Positives = 14/34 (41%), Gaps = 10/34 (29%)
Query: 232 LDALHHVHSQFSSYEPELFPGLIYRMVKPRVVLL 265
+ L +H GL++ ++P ++L
Sbjct: 221 IRLLASLHHY----------GLVHTYLRPVDIVL 244
>1s99_A YKOF; thiamin-binding protein, ACT-domain family, ligand binding
protein; 1.65A {Bacillus subtilis} SCOP: d.58.48.2 PDB:
1sbr_A* 1s7h_A
Length = 200
Score = 28.1 bits (62), Expect = 2.3
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 34 RRGTNLNMVGTISVGCPLD 52
++ M GT S+GCP D
Sbjct: 71 NSEQHIVMNGTFSIGCPGD 89
>4e5w_A Tyrosine-protein kinase JAK1; kinase domain,
transferase-transferase inhibit complex; HET: PTR 0NT;
1.86A {Homo sapiens} PDB: 4e4l_A* 4e4n_A* 3eyg_A*
3eyh_A*
Length = 302
Score = 28.4 bits (64), Expect = 2.3
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 8/35 (22%)
Query: 200 AKILKQLGHP--IKYQGFKIHNIVCTCDVRFPVKL 232
+IL+ L H +KY+G +CT D +KL
Sbjct: 74 IEILRNLYHENIVKYKG------ICTEDGGNGIKL 102
>3lxl_A Tyrosine-protein kinase JAK3; TYK2, inflammation, cancer, PAN
inhibitor, ATP-binding mutation, membrane,
nucleotide-binding, phosphoprot SCID; HET: IZA; 1.74A
{Homo sapiens} PDB: 3lxk_A* 3pjc_A* 1yvj_A*
Length = 327
Score = 28.1 bits (63), Expect = 3.5
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 8/35 (22%)
Query: 200 AKILKQLGHP--IKYQGFKIHNIVCTCDVRFPVKL 232
+ILK L +KY+G V R ++L
Sbjct: 75 IQILKALHSDFIVKYRG------VSYGPGRQSLRL 103
>2d1p_A TUSD, hypothetical UPF0163 protein YHEN; tRNA modification, sulfur
transfer, structural genomics, translation; 2.15A
{Escherichia coli} SCOP: c.114.1.1
Length = 140
Score = 26.8 bits (59), Expect = 4.6
Identities = 12/64 (18%), Positives = 22/64 (34%), Gaps = 13/64 (20%)
Query: 68 GKFHGLIMKILNPRTTCLAFQSGKLLILGAKHEHDCKLASRKFAKILKQLGHPEIIFFFF 127
H M+ +++ G + ++ +FA+ L GH FF+
Sbjct: 6 HHHHHGSMRFA-------------IVVTGPAYGTQQASSAFQFAQALIADGHELSSVFFY 52
Query: 128 RNMV 131
R V
Sbjct: 53 REGV 56
>3lxp_A Non-receptor tyrosine-protein kinase TYK2; JAK3, inflammation,
cancer, PAN inhibitor, ATP-binding nucleotide-binding,
phosphoprotein, SH2 domain; HET: PTR IZA; 1.65A {Homo
sapiens} PDB: 3lxn_A* 3nz0_A* 3nyx_A*
Length = 318
Score = 27.3 bits (61), Expect = 5.2
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 8/35 (22%)
Query: 200 AKILKQLGHP--IKYQGFKIHNIVCTCDVRFPVKL 232
IL+ L H IKY+G C ++L
Sbjct: 84 IDILRTLYHEHIIKYKG------CCEDAGAASLQL 112
>4aw2_A Serine/threonine-protein kinase MRCK alpha; transferase, CDC42BPA;
HET: 22E; 1.70A {Rattus norvegicus} PDB: 3tku_A* 3qfv_A*
Length = 437
Score = 27.4 bits (61), Expect = 5.6
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 10/32 (31%)
Query: 234 ALHHVHSQFSSYEPELFPGLIYRMVKPRVVLL 265
A+ VH ++R +KP +L+
Sbjct: 187 AIDSVHQL----------HYVHRDIKPDNILM 208
>2ivs_A Proto-oncogene tyrosine-protein kinase receptor RET;
nucleotide-binding, hirschsprung disease,
phosphorylation, disease mutation; HET: ACK; 2.00A {Homo
sapiens} PDB: 2ivt_A* 2ivu_A* 2x2k_A* 2x2l_A* 2x2m_A*
2ivv_A*
Length = 314
Score = 26.8 bits (60), Expect = 8.8
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 5/30 (16%)
Query: 111 AKILKQLGHPEIIFFFFRNMVGTISVGCPL 140
+LKQ+ HP +I + G S PL
Sbjct: 77 FNVLKQVNHPHVI-----KLYGACSQDGPL 101
>3v8s_A RHO-associated protein kinase 1; dimerization, myosin, transferase,
inhibitor, transf transferase inhibitor complex; HET:
0HD; 2.29A {Homo sapiens} PDB: 3tv7_A* 2etr_A* 2esm_A*
2eto_A* 2etk_A* 3d9v_A* 3ncz_A* 3ndm_A* 2v55_A* 2f2u_A*
2h9v_A*
Length = 410
Score = 26.6 bits (59), Expect = 9.3
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 10/32 (31%)
Query: 234 ALHHVHSQFSSYEPELFPGLIYRMVKPRVVLL 265
AL +HS G I+R VKP +LL
Sbjct: 180 ALDAIHSM----------GFIHRDVKPDNMLL 201
>2vd5_A DMPK protein; serine/threonine-protein kinase, kinase, transferase,
ATP-BI nucleotide-binding, cardiac contractility, muscle
different; HET: BI8; 2.80A {Homo sapiens}
Length = 412
Score = 26.6 bits (59), Expect = 9.4
Identities = 9/32 (28%), Positives = 14/32 (43%), Gaps = 10/32 (31%)
Query: 234 ALHHVHSQFSSYEPELFPGLIYRMVKPRVVLL 265
A+ VH G ++R +KP +LL
Sbjct: 174 AIDSVHRL----------GYVHRDIKPDNILL 195
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
0.327 0.144 0.447
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,173,106
Number of extensions: 241566
Number of successful extensions: 959
Number of sequences better than 10.0: 1
Number of HSP's gapped: 924
Number of HSP's successfully gapped: 52
Length of query: 272
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 180
Effective length of database: 4,133,061
Effective search space: 743950980
Effective search space used: 743950980
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.4 bits)