RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 022557
(295 letters)
>3ew8_A HD8, histone deacetylase 8; hydrolase, HDAC, metalloenzyme,
arginase fold, HDAC8, histon deacetylase, hydroxamate
inhibitor, unliganded; HET: B3N; 1.80A {Homo sapiens}
PDB: 3f06_A* 3ezp_A* 3ezt_A* 3f0r_A* 3f07_A* 2v5w_A*
2v5x_A* 3ewf_A* 3mz4_A* 3mz6_A* 3mz7_A* 3rqd_A* 3mz3_A*
1t64_A* 1t67_A* 1t69_A* 1vkg_A* 1w22_A* 3sff_A* 3sfh_A*
Length = 388
Score = 142 bits (359), Expect = 7e-40
Identities = 69/268 (25%), Positives = 109/268 (40%), Gaps = 19/268 (7%)
Query: 37 LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE 96
IYSP+Y + + + + + + + IV+P AS E++ H++
Sbjct: 18 YIYSPEY----VSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTD 73
Query: 97 SYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAK--LAKERGW 152
+YL+ LQ S + L C + G TI AA+ +
Sbjct: 74 AYLQHLQKVSQEGDDDHPDSIEYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKV 133
Query: 153 AINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSS 212
AIN GG+HH DE GFC D L I + R++ +DLD H G+G E FS
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSF 191
Query: 213 DSRVYILD--MFNPGIYP-----RDYEARRFIDQKVEV--VSGTTTNEYLKKLDEALEVA 263
S+V + F+PG +P D + V V G +Y + + L+
Sbjct: 192 TSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEV 251
Query: 264 GHTFDPELVIYNAGTDILEGDPLGMLKV 291
F+P+ V+ G D + GDP+ +
Sbjct: 252 YQAFNPKAVVLQLGADTIAGDPMCSFNM 279
>1c3p_A Protein (HDLP (histone deacetylase-like protein) ); alpha/beta
fold, lyase; 1.80A {Aquifex aeolicus} SCOP: c.42.1.2
PDB: 1c3r_A* 1c3s_A*
Length = 375
Score = 139 bits (351), Expect = 8e-39
Identities = 62/277 (22%), Positives = 112/277 (40%), Gaps = 34/277 (12%)
Query: 37 LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE 96
LI + DY HP + + +F + +D+ +++ A+KE+LL+ H+E
Sbjct: 6 LIGTLDYGKYRYPKN--HPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTE 63
Query: 97 SYLKSLQSSPNVSIIIEVP-----------PVALFPNCLVQRKVLYPF-RKQVGGTILAA 144
Y+ +L + + + PV ++ G T+ A
Sbjct: 64 DYINTLMEAERCQCVPKGAREKYNIGGYENPV--SYA-------MFTGSSLATGSTVQAI 114
Query: 145 KLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGN 204
+ + A N GG HH GFC + ++ I Y + R++ IDLDAH +
Sbjct: 115 EEFLKGNVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYL-RKKGFKRILYIDLDAHHCD 173
Query: 205 GHEKDFSSDSRVYILD--MFNPGIYPRDYEARRFIDQK--------VEVVSGTTTNEYLK 254
G ++ F +V++L +P + I + + + G NE+L
Sbjct: 174 GVQEAFYDTDQVFVLSLHQSPEYAFPFEKGFLEEIGEGKGKGYNLNIPLPKGLNDNEFLF 233
Query: 255 KLDEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKV 291
L+++LE+ F+PE+ + GTD L D L +
Sbjct: 234 ALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNL 270
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 130 bits (329), Expect = 1e-35
Identities = 63/268 (23%), Positives = 102/268 (38%), Gaps = 17/268 (6%)
Query: 37 LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE 96
Y D + G + HP + L + G K I P +A+ E++ HS+
Sbjct: 7 YYYDGDIGNYYYG--QGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMTKYHSD 64
Query: 97 SYLKSLQS-SPN--VSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAK--LAKERG 151
Y+K L+S P+ ++ + +C V + + GG++ A ++
Sbjct: 65 EYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNRQQTD 124
Query: 152 WAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFS 211
A+N GG HH E GFC DI L I RV+ ID+D H G+G E+ F
Sbjct: 125 MAVNWAGGLHHAKKSEASGFCYVNDIVLAILEL--LKYHQRVLYIDIDIHHGDGVEEAFY 182
Query: 212 SDSRVYIL-----DMFNPG---IYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEVA 263
+ RV + + PG + ++ + G Y + +
Sbjct: 183 TTDRVMTVSFHKYGEYFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIISKV 242
Query: 264 GHTFDPELVIYNAGTDILEGDPLGMLKV 291
+ P V+ G D L GD LG +
Sbjct: 243 MEMYQPSAVVLQCGADSLSGDRLGCFNL 270
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 129 bits (327), Expect = 3e-35
Identities = 60/273 (21%), Positives = 93/273 (34%), Gaps = 26/273 (9%)
Query: 37 LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE 96
Y PD G HP + + G K + +P +AS+ D+ HSE
Sbjct: 7 YFYDPDVGNFHYG--AGHPMKPHRLALTHSLVLHYGLYKKMIVFKPYQASQHDMCRFHSE 64
Query: 97 SYLKSLQSSPNVSIIIEVPPVALF---PNCLVQRKVLYPFRKQVGGTILAAK--LAKERG 151
Y+ LQ ++ + F +C V + + G ++ A K
Sbjct: 65 DYIDFLQRVSPTNMQGFTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQGATQLNNKICD 124
Query: 152 WAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFS 211
AIN GG HH E GFC DI + I RV+ ID+D H G+G ++ F
Sbjct: 125 IAINWAGGLHHAKKFEASGFCYVNDIVIGILEL--LKYHPRVLYIDIDIHHGDGVQEAFY 182
Query: 212 SDSRVYILDM--FNPGIYPRDYEARRFIDQK-----------VEVVSGTTTNEYLKKLDE 258
RV + + +P + + V + G Y
Sbjct: 183 LTDRVMTVSFHKYGNYFFPGT----GDMYEVGAESGRYYCLNVPLRDGIDDQSYKHLFQP 238
Query: 259 ALEVAGHTFDPELVIYNAGTDILEGDPLGMLKV 291
+ + P ++ G D L D LG +
Sbjct: 239 VINQVVDFYQPTCIVLQCGADSLGCDRLGCFNL 271
>3q9b_A Acetylpolyamine amidohydrolase; HDAC, polyamines, arginase fold,
deacetylase, hydrolase-HYDR inhibitor complex; HET: B3N;
2.25A {Mycoplana ramosa} PDB: 3q9f_A* 3q9c_A* 3q9e_A*
Length = 341
Score = 103 bits (259), Expect = 8e-26
Identities = 52/270 (19%), Positives = 91/270 (33%), Gaps = 47/270 (17%)
Query: 63 RICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPN 122
I + GF D +V P E +L VH YL L+++ + A+ +
Sbjct: 35 WILAAVKEAGFDD---VVAPARHGLETVLKVHDAGYLNFLETAWDRWKAAGYKGEAIATS 91
Query: 123 CLVQRKVLYPFRKQVG---------------GTILAAKLAKERGWAIN----VGGGF--- 160
V+R G GT AA + AI+ + G
Sbjct: 92 FPVRRTSPRIPTDIEGQIGYYCNAAETAISPGTWEAALSSM--ASAIDGADLIAAGHKAA 149
Query: 161 --------HHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSS 212
HH D GG+C + ++ + ++ I+D+D H GNG + F
Sbjct: 150 FSLCRPPGHHAGIDMFGGYCFINNAAVAAQRL-LDKGAKKIAILDVDFHHGNGTQDIFYE 208
Query: 213 DSRVYILDMF--NPGIYPRDYEARRFIDQK--------VEVVSGTTTNEYLKKLDEALEV 262
V+ + +P + + GT + + + L ++L+
Sbjct: 209 RGDVFFASLHGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVWGEALTDSLKR 268
Query: 263 AGHTFDPELVIYNAGTDILEGDPLGMLKVK 292
F E ++ + G D E DP+ K+
Sbjct: 269 I-AAFGAEAIVVSLGVDTFEQDPISFFKLT 297
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 100 bits (250), Expect = 2e-24
Identities = 52/303 (17%), Positives = 98/303 (32%), Gaps = 60/303 (19%)
Query: 38 IYSPDY------DISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLL 91
+ PD G ++ + R+ + GF + EP + +
Sbjct: 25 YFHPDQSLHHPRTYFSRGRMRMPQEVPERAARLVAAAFAMGFP----VREPDDFGIAPIA 80
Query: 92 VVHSESYLKSLQS-SPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGG----------- 139
VH YL+ L++ + E N V+
Sbjct: 81 AVHDTHYLRFLETVHREWKAMPEDWGDEAMSNIFVREPNALRGVLAQAARHLADGSCPVG 140
Query: 140 --TILAAKLAKERGWAI--------NVGGGF-------HHCSADEGGGFCAYADISLCIH 182
T AA + A+ + HH D GGFC + ++
Sbjct: 141 EHTWRAAYWSA--QSALAAAAAVRDGAPAAYALCRPPGHHARVDAAGGFCYLNNAAIAAQ 198
Query: 183 YAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRV-YI-LDMFNPGIYPRDYEARRFIDQK 240
+ +RV ++D D H G G ++ F + V Y+ + YP F D++
Sbjct: 199 AL--RARHARVAVLDTDMHHGQGIQEIFYARRDVLYVSIHGDPTNFYPAVAG---FDDER 253
Query: 241 -----------VEVVSGTTTNEYLKKLDEALEVAGHTFDPELVIYNAGTDILEGDPLGML 289
+ + G++ + +++D+AL F P+ ++ + G D+ DP +
Sbjct: 254 GAGEGLGYNVNLPMPHGSSEAAFFERVDDALREL-RRFAPDALVLSLGFDVYRDDPQSQV 312
Query: 290 KVK 292
V
Sbjct: 313 AVT 315
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 100 bits (250), Expect = 2e-24
Identities = 51/244 (20%), Positives = 95/244 (38%), Gaps = 23/244 (9%)
Query: 63 RICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPN 122
R + + + G ++ + + A+ D+L HS ++L++++ N +
Sbjct: 45 RFHELVCASGQIEHLTPIAAVAATDADILRAHSAAHLENMKRVSN----LPTGGDTGDGI 100
Query: 123 CLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGF-------HHCSADEGGGFCAYA 175
++ L R GG + + + G+ HH + GFC +
Sbjct: 101 TMMGNGGLEIARLSAGGAVELTRRVATG----ELSAGYALVNPPGHHAPHNAAMGFCIFN 156
Query: 176 DISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARR 235
+ S+ YA L + RV I+D D H GNG + + +D V + + +P D
Sbjct: 157 NTSVAAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTISLHQHLCFPPDSGYST 216
Query: 236 FIDQK--------VEVVSGTTTNEYLKKLDEALEVAGHTFDPELVIYNAGTDILEGDPLG 287
V + G+ YL +D+ + A + P+L+I +G D DPL
Sbjct: 217 ERGAGNGHGYNINVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLA 276
Query: 288 MLKV 291
+ V
Sbjct: 277 RMMV 280
>2pqp_A HD7A, histone deacetylase 7A; HDAC, structural genomics, structural
genomics consortium, SGC; HET: TSN; 1.80A {Homo sapiens}
PDB: 2pqo_A* 2nvr_A 3c0y_A 3c0z_A 3c10_A* 2vqm_A*
2vqj_A* 2vqw_G 2vqq_A* 2vqo_A* 2vqv_A*
Length = 421
Score = 99.5 bits (248), Expect = 6e-24
Identities = 67/337 (19%), Positives = 111/337 (32%), Gaps = 55/337 (16%)
Query: 2 SSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYD--ISFLGIEKLHPFDSS 59
S ++ S++ + + SS+ F LIY G HP +
Sbjct: 5 SPAAPASLSAPEPASQARVLSSSETPARTLPFTTGLIYDSVMLKHQCSCGDNSRHPEHAG 64
Query: 60 KWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVAL 119
+ I L G + + +AS E+L VHSE ++ ++P + ++ +A
Sbjct: 65 RIQSIWSRLQERGLRSQCECLRGRKASLEELQSVHSERHVLLYGTNPLSRLKLDNGKLAG 124
Query: 120 FPNCLVQRKVLYPFRKQVGGTIL-------AAKLAKERGWAINVGG-------------- 158
+ + TI AA+ A G
Sbjct: 125 LLAQRMFVMLPCGGVGVDTDTIWNELHSSNAARWA--------AGSVTDLAFKVASRELK 176
Query: 159 -GF-------HHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDF 210
GF HH GFC + +++ Q S+++I+D D H GNG ++ F
Sbjct: 177 NGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTF 236
Query: 211 SSDSRVYILDMF---NPGIYPR--------DYEARRF---IDQKVEVVSGTTTNEYLKKL 256
D V + + + +P F + + EYL
Sbjct: 237 YQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAF 296
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGD--PLGMLKV 291
+ F P+LV+ +AG D EG PLG V
Sbjct: 297 RIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHV 333
>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 = 49.5 bits (117), Expect = 9e-07
Identities = 47/391 (12%), Positives = 111/391 (28%), Gaps = 141/391 (36%)
Query: 8 SVTTDAET----LKRNRILSSKLYFDIPIFKLPLIY--------SPDYDISFLGIEKLHP 55
S+ + E + ++ + + F + K + +Y FL + +
Sbjct: 44 SILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK--FL-MSPIKT 100
Query: 56 FDSSKWGRICQFLSSEGFL-DKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEV 114
++ L + N + S+ + ++ L L+ + NV
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA-LLELRPAKNV------ 153
Query: 115 PPVALFPNCLVQRKVLYPFRKQVGG---TILAAKLAKERG----------WAINVGGGFH 161
++ V G T +A + W +N+
Sbjct: 154 --------------LID----GVLGSGKTWVALDVCLSYKVQCKMDFKIFW-LNLK---- 190
Query: 162 HCSADEG-------------GGFCAYADISLCIHYAF--VQLNISRVM--------IIDL 198
+C++ E + + +D S I +Q + R++ ++ L
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250
Query: 199 DAHQGNGHEKDFSSDSRVYI--------------------LDMFNPGIYPRDYEA--RRF 236
Q F+ ++ + LD + + P + ++ ++
Sbjct: 251 LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY 310
Query: 237 IDQKVE------------VVS--------GTTTNEYLK-----KLDEALEVAGHTFDP-- 269
+D + + +S G T + K KL +E + + +P
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE 370
Query: 270 ------ELVIYNAGTDILEGDPLGMLKVKWG 294
L ++ I P +L + W
Sbjct: 371 YRKMFDRLSVFPPSAHI----PTILLSLIWF 397
Score = 35.2 bits (80), Expect = 0.029
Identities = 53/335 (15%), Positives = 102/335 (30%), Gaps = 109/335 (32%)
Query: 2 SSSSSPSVTTDAETLKRNRILSSKLY------------------FDI--PIFKLPLIYSP 41
SS+ + + + R+L SK Y F++ I L+ +
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI----LLTTR 273
Query: 42 DYDIS-FL-GIEKLHPF-DSSKWGRICQFLSSE--GFLDK--NCIVE--PLEASKEDLLV 92
++ FL H D E L K +C + P E +
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMT----LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 93 V------------HSESYLKSLQSSPNVSIIIEV------PP--------VALFP-NCLV 125
+ +++ + ++ IIE P +++FP + +
Sbjct: 330 LSIIAESIRDGLATWDNWKHV--NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI 387
Query: 126 QRKVL----YPFRKQVGGTI--------LAAKLAKERGWAINVGGGFHHCSADEGGGFCA 173
+L + K + L K KE +I +
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI------PSIYLE----LKV 437
Query: 174 YADISLCIHYAFV-QLNISR------VMIIDLD----AHQGNGHEKDFSSDSRVYILDMF 222
+ +H + V NI + ++ LD +H G+ H K+ R+ +F
Sbjct: 438 KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH-HLKNIEHPERM---TLF 493
Query: 223 NPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLD 257
++ D+ RF++QK+ T N L+
Sbjct: 494 -RMVF-LDF---RFLEQKIR-HDSTAWNASGSILN 522
Score = 34.4 bits (78), Expect = 0.041
Identities = 16/84 (19%), Positives = 27/84 (32%), Gaps = 25/84 (29%)
Query: 83 LEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVA-----LF------PNCLVQR---K 128
+A ++ + KS+ S + II LF +VQ+ +
Sbjct: 26 EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEE 85
Query: 129 VL---YPFRKQVGGTILAAKLAKE 149
VL Y F L + + E
Sbjct: 86 VLRINYKF--------LMSPIKTE 101
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 37.3 bits (86), Expect = 0.006
Identities = 45/256 (17%), Positives = 72/256 (28%), Gaps = 80/256 (31%)
Query: 43 YDISFLGIEKLHP------FDSSKWGRICQ---FLSSEGFLDKNCIVEPL-EASKEDLLV 92
Y S L I +P F K RI + + E +D E + + E
Sbjct: 1657 YGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTS 1716
Query: 93 V---HSESYLKSLQSS-P---NVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGG------ 139
+ L + Q + P + A F ++ K L P G
Sbjct: 1717 YTFRSEKGLLSATQFTQPALTLME-------KAAF--EDLKSKGLIPADATFAGHSLGEY 1767
Query: 140 TILAA-----------KLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL 188
LA+ ++ RG + DE G +Y + +
Sbjct: 1768 AALASLADVMSIESLVEVVFYRGMTMQ-----VAVPRDELGR----------SNYGMIAI 1812
Query: 189 NISRV-MIIDLDAHQGNGHEKDFSSDSRVYILDMFN-PGIYPRDYEARRFIDQKVEVVSG 246
N RV +A Q + V I++ +N Q+ V +G
Sbjct: 1813 NPGRVAASFSQEALQYVVERVGKRTGWLVEIVN-YNVEN-------------QQY-VAAG 1857
Query: 247 TTTNEYLKKLDEALEV 262
L+ LD V
Sbjct: 1858 D-----LRALDTVTNV 1868
Score = 33.9 bits (77), Expect = 0.072
Identities = 50/339 (14%), Positives = 96/339 (28%), Gaps = 154/339 (45%)
Query: 95 SESYLKSLQS-----SPNVSIIIE-----------------------------------V 114
++ Y + L+ V +I+
Sbjct: 166 TDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNT 225
Query: 115 P--------PVALFP-NCLVQ-------RKVL--YP--FRKQVGGT-------ILAAKLA 147
P P++ P ++Q K+L P R + G + A +A
Sbjct: 226 PDKDYLLSIPIS-CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIA 284
Query: 148 KERGWAINVGGGFHHCSADEG-------GGFC--AYADISLCIHYAFVQ----------- 187
+ W F S + G C AY + SL + ++
Sbjct: 285 ETDSWE-----SF-FVSVRKAITVLFFIGVRCYEAYPNTSLPP--SILEDSLENNEGVPS 336
Query: 188 --LNISRVMIIDLDAH--QGNGHEKDFSSDSRVYI-----------------LDMFNPGI 226
L+IS + + + + N H + +V I L N +
Sbjct: 337 PMLSISNLTQEQVQDYVNKTNSH---LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 227 YPRDYEARRFIDQ--------KVEVVSG---TTT---NEYLK----KLDEALEVAGHTFD 268
R +A +DQ K++ + + + L +++ L +F+
Sbjct: 394 --RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFN 451
Query: 269 P-ELVI--YNA--GTDI--LEGDPLGML-------KVKW 293
++ I Y+ G+D+ L G + VKW
Sbjct: 452 AKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKW 490
Score = 28.9 bits (64), Expect = 3.0
Identities = 46/314 (14%), Positives = 93/314 (29%), Gaps = 121/314 (38%)
Query: 66 QFLSSEGFLDKNCIVEPLEASKED----LLVVHSES-YLKSLQSSPNV-SIIIEVPPVAL 119
+FL G++ VEP + + D L + E+ YL+ ++ ++ ++
Sbjct: 63 KFL---GYVSSL--VEPSKVGQFDQVLNLCLTEFENCYLEG----NDIHALAAKLLQEN- 112
Query: 120 FPNCLVQRKVL---Y---------PFRKQVGGTIL-AAKLAKERGWAINVGGGFHHCSAD 166
LV+ K L Y PF K+ + A + AI F
Sbjct: 113 -DTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI-----F------ 160
Query: 167 EGG-G------------FCAYAD-ISLCIHYAFVQL-NISRVMI---------IDLDA-- 200
GG G + Y + I ++ L + R + +++
Sbjct: 161 -GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 201 -HQGNGHEKDFSSDSRV------------YILDMFNPGIYPRDYEARRFIDQKVEVVSGT 247
+ N +KD+ + Y++ G P + + + G
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSY---------LKGA 270
Query: 248 TT-----------------NEYLKKLDEALE------VAGH------TFDPELVIYNAGT 278
T + + +A+ V + + P ++ +
Sbjct: 271 TGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLEN 330
Query: 279 DILEGDPLGMLKVK 292
+ EG P ML +
Sbjct: 331 N--EGVPSPMLSIS 342
Score = 27.7 bits (61), Expect = 6.2
Identities = 27/140 (19%), Positives = 44/140 (31%), Gaps = 56/140 (40%)
Query: 43 YDISFLGIEKLHPFDSSKW-GRICQFLSSEGFLDKNCIVEP--LEASKED-------LLV 92
+ I L F + G C E + N + P LE S E+ +L
Sbjct: 293 FVSVRKAITVL--F----FIGVRCY----EAY--PNTSLPPSILEDSLENNEGVPSPMLS 340
Query: 93 V------HSESYL----KSLQSSPNVSI---------IIEVPPVALF-----------PN 122
+ + Y+ L + V I ++ PP +L+ P+
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPS 400
Query: 123 CLVQRKVLYPF--RKQVGGT 140
L Q ++ PF RK
Sbjct: 401 GLDQSRI--PFSERKLKFSN 418
>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 = 31.8 bits (71), Expect = 0.12
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 5/26 (19%)
Query: 253 LKKLDEALEVAGHTFD--PELVIYNA 276
LKKL +L++ + D P L I A
Sbjct: 22 LKKLQASLKL--YADDSAPALAI-KA 44
Score = 31.5 bits (70), Expect = 0.17
Identities = 8/31 (25%), Positives = 13/31 (41%), Gaps = 13/31 (41%)
Query: 12 DAETLKRNRILSSKLYFDIPIFKLPLIYSPD 42
+ + LK+ L + L KL Y+ D
Sbjct: 18 EKQALKK---LQASL-------KL---YADD 35
Score = 28.4 bits (62), Expect = 1.6
Identities = 7/33 (21%), Positives = 13/33 (39%), Gaps = 12/33 (36%)
Query: 99 LKSLQSS-----PNVSIIIEVPPVALFPNCLVQ 126
LK LQ+S + P +A+ ++
Sbjct: 22 LKKLQASLKLYADD-----SAPALAI--KATME 47
Score = 28.0 bits (61), Expect = 2.6
Identities = 10/43 (23%), Positives = 19/43 (44%), Gaps = 17/43 (39%)
Query: 75 DKNCIVEPLEASKEDLLVVHSESYLK--SLQSSPNVSI--IIE 113
+K + + L+AS LK + S+P ++I +E
Sbjct: 18 EKQAL-KKLQAS------------LKLYADDSAPALAIKATME 47
>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter
vibrioides} PDB: 2xj9_A* 2xit_A
Length = 286
Score = 29.0 bits (65), Expect = 1.8
Identities = 14/82 (17%), Positives = 23/82 (28%), Gaps = 16/82 (19%)
Query: 192 RVMIIDLDAHQGN-----GHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSG 246
+V +IDLD + + D++ L P D V +
Sbjct: 35 KVAVIDLD-LRQRTSARFFENRRAWLDNKKIEL------PEPLALN---LSDNDVALAE- 83
Query: 247 TTTNEYLKKLDEALEVAGHTFD 268
E + + A A D
Sbjct: 84 RPEEEQVAGFEAAFARAMAECD 105
>2xoa_A Ryanodine receptor 1; metal transport, calcium channel, ION
channel, membrane PROT malignant hyperthermia, cardiac
arrhythmia; 2.50A {Oryctolagus cuniculus}
Length = 559
Score = 27.5 bits (60), Expect = 6.0
Identities = 7/16 (43%), Positives = 12/16 (75%)
Query: 67 FLSSEGFLDKNCIVEP 82
L++EGF ++ C +EP
Sbjct: 36 CLAAEGFGNRLCFLEP 51
>3qk7_A Transcriptional regulators; structural genomics, NEW YORK
structural genomix research CO NYSGXRC, PSI-2, protein
structur initiative; 2.70A {Yersinia pestis}
Length = 294
Score = 27.2 bits (61), Expect = 6.8
Identities = 5/37 (13%), Positives = 11/37 (29%), Gaps = 9/37 (24%)
Query: 258 EALEVAGHTFDPELVI---------YNAGTDILEGDP 285
+ + AG + Y A + +L +
Sbjct: 150 QTMSEAGLMPLAGYLQKADPTRPGGYLAASRLLALEV 186
>1xzz_A Inositol 1,4,5-trisphosphate receptor type 1; IP3 receptor, IP3
receptor suppressor domain, calcium channe trefoil
fold, membrane protein; 1.80A {Mus musculus} PDB:
3jrr_A
Length = 246
Score = 27.1 bits (59), Expect = 7.1
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 62 GRICQFLSSEGFLDKNCIVEPLEASKED 89
G F+S+ G +D C+V+P +
Sbjct: 36 GSTNGFISTLGLVDDRCVVQPEAGDLNN 63
>2ioy_A Periplasmic sugar-binding protein; ribose binding protein,
thermophilic proteins; HET: RIP; 1.90A
{Thermoanaerobacter tengcongensis}
Length = 283
Score = 26.9 bits (60), Expect = 8.0
Identities = 6/42 (14%), Positives = 16/42 (38%)
Query: 239 QKVEVVSGTTTNEYLKKLDEALEVAGHTFDPELVIYNAGTDI 280
+ + +V T N + L E ++++ ++ D
Sbjct: 2 KTIGLVISTLNNPFFVTLKNGAEEKAKELGYKIIVEDSQNDS 43
>3uj4_A Inositol 1,4,5-trisphosphate receptor type 1; APO-state,
suppressor domain, binding core domain, signaling
protein; 3.00A {Rattus norvegicus} PDB: 3uj0_A 3t8s_A*
Length = 604
Score = 27.2 bits (59), Expect = 8.0
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 62 GRICQFLSSEGFLDKNCIVEPLEASKED 89
G F+S+ G +D +V+P +
Sbjct: 21 GSTNGFISTLGLVDDRAVVQPEAGDLNN 48
>2h0a_A TTHA0807, transcriptional regulator; repressor, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 2.80A {Thermus thermophilus}
Length = 276
Score = 26.7 bits (60), Expect = 8.1
Identities = 10/37 (27%), Positives = 13/37 (35%), Gaps = 9/37 (24%)
Query: 258 EALEVAGHTFDPELVI---------YNAGTDILEGDP 285
EAL+ AG F P+ + A LE
Sbjct: 143 EALKEAGRPFSPDRLYITRHSQEGGRLALRHFLEKAS 179
>1nsl_A Probable acetyltransferase; structural genomics, hexamer,
alpha-beta, PSI, protein struc initiative, midwest
center for structural genomics; 2.70A {Bacillus
subtilis} SCOP: d.108.1.1
Length = 184
Score = 26.5 bits (59), Expect = 9.8
Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 168 GGGFCAYADISLCIHYAFVQLNISRVMI 195
G G A I YAF +L ++RV I
Sbjct: 107 GKGIITAA-CRKLITYAFEELELNRVAI 133
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
0.320 0.139 0.417
Gapped
Lambda K H
0.267 0.0705 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,705,580
Number of extensions: 292371
Number of successful extensions: 762
Number of sequences better than 10.0: 1
Number of HSP's gapped: 742
Number of HSP's successfully gapped: 44
Length of query: 295
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 202
Effective length of database: 4,105,140
Effective search space: 829238280
Effective search space used: 829238280
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.8 bits)