RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 018685
(352 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 = 162 bits (413), Expect = 5e-47
Identities = 77/299 (25%), Positives = 123/299 (41%), Gaps = 23/299 (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 GHTFDPELVIYNAGTDILEGDPLGMLKISPDGIAARDEKTFRFARSRNIPIVMLTSGGY 322
F+P+ V+ G D + GDP+ ++P GI K ++ + ++L GGY
Sbjct: 252 YQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIG----KCLKYILQWQLATLILGGGGY 306
>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 = 159 bits (403), Expect = 1e-45
Identities = 71/308 (23%), Positives = 121/308 (39%), Gaps = 38/308 (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 KLDEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISPDGIAARDEKTFRFARSRNIPI 314
L+++LE+ F+PE+ + GTD L D L +S K F R
Sbjct: 234 ALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLSNVAFL----KAFNIVREVFGEG 289
Query: 315 VMLTSGGY 322
V L GGY
Sbjct: 290 VYLGGGGY 297
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 150 bits (382), Expect = 1e-42
Identities = 75/310 (24%), Positives = 122/310 (39%), Gaps = 24/310 (7%)
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 GHTFDPELVIYNAGTDILEGDPLGMLKISPDGIAARDEKTFRFARSRNIPIVMLTSGGYM 323
+ P V+ G D L GD LG ++ G A K ++ N+P++ML GGY
Sbjct: 243 MEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHA----KCVEVVKTFNLPLLMLGGGGY- 297
Query: 324 KSSARVIANS 333
+ R +A
Sbjct: 298 --TIRNVARC 305
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 150 bits (380), Expect = 3e-42
Identities = 70/304 (23%), Positives = 109/304 (35%), Gaps = 30/304 (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 ALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISPDGIAARDEKTFRFARSRNIPIVMLT 318
+ + P ++ G D L D LG +S G + + +S NIP+++L
Sbjct: 239 VINQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHG----ECVEYVKSFNIPLLVLG 294
Query: 319 SGGY 322
GGY
Sbjct: 295 GGGY 298
>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 = 111 bits (280), Expect = 2e-28
Identities = 61/314 (19%), Positives = 107/314 (34%), Gaps = 54/314 (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 AGHTFDPELVIYNAGTDILEGDPLGMLKISPDGIAARDEKTFRFARSRNIPIVMLTSGGY 322
F E ++ + G D E DP+ K++ A S +P++++ GGY
Sbjct: 269 I-AAFGAEAIVVSLGVDTFEQDPISFFKLTSPDYI---TMGRTIAAS-GVPLLVVMEGGY 323
Query: 323 MKSSARVIANSVEN 336
I +V N
Sbjct: 324 ---GVPEIGLNVAN 334
>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 = 110 bits (276), Expect = 3e-27
Identities = 73/381 (19%), Positives = 125/381 (32%), Gaps = 61/381 (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--PLGMLKISPDGIAARDEKTFRFARSRNIPI 314
+ F P+LV+ +AG D EG PLG +S ++ A +
Sbjct: 297 RIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGA---V 353
Query: 315 VMLTSGGYMKSSARVIANSVE 335
V+ GG+ I ++ E
Sbjct: 354 VLALEGGH---DLTAICDASE 371
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 109 bits (273), Expect = 4e-27
Identities = 60/347 (17%), Positives = 115/347 (33%), Gaps = 67/347 (19%)
Query: 38 IYSPDY------DISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLL 91
+ PD G ++ + R+ + GF + EP + +
Sbjct: 25 YFHPDQSLHHPRTYFSRGRMRMPQEVPERAARLVAAAFAMGFP----VREPDDFGIAPIA 80
Query: 92 VVHSESYLKSLQS-SPNVSIIIEVPPVALFPNCLVQR-KVLYPFRKQVG----------- 138
VH YL+ L++ + E N V+ L Q
Sbjct: 81 AVHDTHYLRFLETVHREWKAMPEDWGDEAMSNIFVREPNALRGVLAQAARHLADGSCPVG 140
Query: 139 -GTILAAKLAKERGWAI--------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 KISPDGIAARDEKTFRFARSRNIPIVMLTSGGYMKSSARVIANSVEN 336
++ DG + +P V++ GGY + + +
Sbjct: 313 AVTTDGFGRLGHLI----GALRLPTVIVQEGGY---HIESLEANARS 352
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 108 bits (272), Expect = 5e-27
Identities = 60/289 (20%), Positives = 110/289 (38%), Gaps = 27/289 (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 MLKISPDGIAARDEKTFRFARSR-NIPIVMLTSGGYMKSSARVIANSVE 335
+ ++ DG +T A + IV + GGY S +
Sbjct: 277 RMMVTADGFRQMARRTIDCAADICDGRIVFVQEGGY---SPHYLPFCGL 322
>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 = 55.2 bits (132), Expect = 2e-08
Identities = 50/392 (12%), Positives = 114/392 (29%), Gaps = 129/392 (32%)
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 DAHQGNGHEKDFSSDSRVYILDMFNPG----IYPRDYEARRFIDQKVEVVSGTTTNEYLK 254
+ +++ + FN + R ++ D + + TTT+ L
Sbjct: 251 L---------NV-QNAK--AWNAFNLSCKILLTTRF---KQVTDF---LSAATTTHISLD 292
Query: 255 KLDEALEVAGHTFDPE---LVIYNAGTDILEGDPLGMLKISP---DGIAA--RDEKTFRF 306
L E L++ + P +L +P IA RD +
Sbjct: 293 HHSMTLT------PDEVKSLLLKYLDCRP-QDLPREVLTTNPRRLSIIAESIRDGLA-TW 344
Query: 307 ARSRNIPIVMLTSGGYMKSSARVIANSVENLS 338
+++ K + +I +S+ L
Sbjct: 345 DNWKHV--------NCDKLT-TIIESSLNVLE 367
Score = 40.2 bits (93), Expect = 0.001
Identities = 63/416 (15%), Positives = 127/416 (30%), Gaps = 131/416 (31%)
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 NPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEV---AGHTFD----PELVIYN 275
++ D+ RF++QK+ T N L+ ++ + D E ++
Sbjct: 494 -RMVF-LDF---RFLEQKIR-HDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVN- 546
Query: 276 AGTDILEGDPLGMLKISPDGIAARDEKTFRFARSRNIPIVMLTSGGYMKSSARVIA 331
IL+ + KI + I ++ R A +M + + + +
Sbjct: 547 ---AILD----FLPKIEENLICSKYTDLLRIA-------LMAEDEAIFEEAHKQVQ 588
Score = 35.6 bits (81), Expect = 0.026
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
>3h5i_A Response regulator/sensory box protein/ggdef domain protein;
structural genomics, transcription, PSI-2; 1.90A
{Carboxydothermus hydrogenoformans z-2901}
Length = 140
Score = 37.6 bits (88), Expect = 0.001
Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 17/63 (26%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISPDGI-AARDEKTFRFARSRNIPIV 315
+ A+E + P+L++ DI L DG+ A + +P+V
Sbjct: 39 EAAVEKVSGGWYPDLIL----MDI-------ELGEGMDGVQTAL-----AIQQISELPVV 82
Query: 316 MLT 318
LT
Sbjct: 83 FLT 85
>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 = 38.1 bits (88), Expect = 0.004
Identities = 51/279 (18%), Positives = 82/279 (29%), Gaps = 93/279 (33%)
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 TT------TN--EYLK-------KLDEAL---EVAGHTF 267
TN ++K +L ++L EV GH F
Sbjct: 1858 DLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHLF 1896
Score = 37.3 bits (86), Expect = 0.008
Identities = 61/370 (16%), Positives = 103/370 (27%), Gaps = 161/370 (43%)
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--QGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEV 243
L+IS + + + + N H + +V I + N G A+ V
Sbjct: 337 PMLSISNLTQEQVQDYVNKTNSH---LPAGKQVEI-SLVN-G-------AKNL------V 378
Query: 244 VSGTTTNEYLKKLDEALE--------------------VAGHTFDPELVIYNAGTDILEG 283
VSG + L L+ L + F P ++ + +L
Sbjct: 379 VSGPP--QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFH--SHLLVP 434
Query: 284 DPLGMLKISPDGIAARD-EKTFRFARSR-NIPIVMLTSGGYMKSSARVIANSV-ENLSRK 340
+ D I + F IP V T G S RV++ S+ E +
Sbjct: 435 --------ASDLINKDLVKNNVSFNAKDIQIP-VYDTFDG---SDLRVLSGSISERIVD- 481
Query: 341 GLINMGRSPV 350
I R PV
Sbjct: 482 -CII--RLPV 488
Score = 30.8 bits (69), Expect = 0.77
Identities = 55/373 (14%), Positives = 112/373 (30%), Gaps = 145/373 (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 DILEGDPLGMLKISPDGIAARDEKTFRFARSRNIPIVMLTSGGYMKSSARV-IANSVENL 337
+ EG P ML IS + E+ + N ++ + +V I+
Sbjct: 331 N--EGVPSPMLSIS--NL--TQEQVQDYVNKTN---------SHLPAGKQVEIS------ 369
Query: 338 SRKGLINMGRSPV 350
L+N ++ V
Sbjct: 370 ----LVNGAKNLV 378
Score = 28.1 bits (62), Expect = 5.3
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
>3n0r_A Response regulator; sigma factor, receiver, two-component SI
transduction, signaling protein; HET: MSE GOL; 1.25A
{Caulobacter vibrioides} PDB: 3t0y_A
Length = 286
Score = 34.8 bits (80), Expect = 0.029
Identities = 15/64 (23%), Positives = 23/64 (35%), Gaps = 18/64 (28%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISPDGI-AARDEKTFRFARSRNIPIV 315
EALE P LV+ DI L GI A + ++P++
Sbjct: 195 GEALEAV-TRRTPGLVL----ADI-------QLADGSSGIDAVK-----DILGRMDVPVI 237
Query: 316 MLTS 319
+T+
Sbjct: 238 FITA 241
>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC
sensor; signal receiver domain, diguanylate cyclase;
2.15A {Desulfovibrio desulfuricans subsp}
Length = 140
Score = 32.9 bits (76), Expect = 0.063
Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 18/64 (28%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISPDGI-AARDEKTFRFARSRNIPIV 315
+EA+ A P++ + DI ML + DG+ A R A N+PI+
Sbjct: 44 EEAVRCA-PDLRPDIAL----VDI-------MLCGALDGVETAA-----RLAAGCNLPII 86
Query: 316 MLTS 319
+TS
Sbjct: 87 FITS 90
>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 = 0.14
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 = 0.20
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 = 28.8 bits (63), Expect = 1.9
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 = 3.1
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
>3h1g_A Chemotaxis protein CHEY homolog; sulfate-bound CHEY, cytoplasm,
flagellar rotatio magnesium, metal-binding,
phosphoprotein; 1.70A {Helicobacter pylori} PDB: 3gwg_A
3h1e_A 3h1f_A
Length = 129
Score = 29.8 bits (68), Expect = 0.52
Identities = 15/69 (21%), Positives = 25/69 (36%), Gaps = 27/69 (39%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGIAA-----RDEKTFRFARS 309
EA E D +++I TD + P +G+ D +
Sbjct: 40 VEAWEKLDANADTKVLI----TDW-------NM---PEMNGLDLVKKVRSDSRF------ 79
Query: 310 RNIPIVMLT 318
+ IPI+M+T
Sbjct: 80 KEIPIIMIT 88
>3lua_A Response regulator receiver protein; two-component signal
transduction system, histidine kinase, phosphorelay,
receiver domain, nysgxrc; 2.40A {Clostridium
thermocellum}
Length = 140
Score = 29.9 bits (68), Expect = 0.53
Identities = 10/67 (14%), Positives = 21/67 (31%), Gaps = 22/67 (32%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISPDGIAA-----RDEKTFRFARSRN 311
+ + L+I DI P+ +G+ + +T N
Sbjct: 39 KKFYSIFKDLDSITLII----MDIAF--PVEK-----EGLEVLSAIRNNSRT------AN 81
Query: 312 IPIVMLT 318
P+++ T
Sbjct: 82 TPVIIAT 88
>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II),
NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas
SP}
Length = 140
Score = 28.3 bits (64), Expect = 2.1
Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 28/69 (40%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGIAA-----RDEKTFRFARS 309
+ALE + D+ L P DG++ RD +T
Sbjct: 40 AQALEQV-ARRPYAAMT----VDL-------NL---PDQDGVSLIRALRRDSRT------ 78
Query: 310 RNIPIVMLT 318
R++ IV+++
Sbjct: 79 RDLAIVVVS 87
>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC,
target 11006U, protein structure initiative; 2.00A
{Desulfuromonas acetoxidans}
Length = 147
Score = 27.9 bits (63), Expect = 2.6
Identities = 14/69 (20%), Positives = 26/69 (37%), Gaps = 28/69 (40%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGIAA-----RDEKTFRFARS 309
EA+ VA P L+I T+ + P G+ ++ +T
Sbjct: 42 IEAVPVA-VKTHPHLII----TEA-------NM---PKISGMDLFNSLKKNPQT------ 80
Query: 310 RNIPIVMLT 318
+IP++ L+
Sbjct: 81 ASIPVIALS 89
>1vjg_A Putative lipase from the G-D-S-L family; structural genomics center
for structural genomics, JCSG, protein structure INI
PSI, hydrolase; 2.01A {Nostoc SP} SCOP: c.23.10.6 PDB:
1z8h_A
Length = 218
Score = 28.3 bits (63), Expect = 3.3
Identities = 12/76 (15%), Positives = 31/76 (40%), Gaps = 4/76 (5%)
Query: 244 VSGTTTNEYLKKLDEALEVAGHTFDPELVIYNAGT-DILEGDPLGMLKISPDGIAARDEK 302
+ T+++ K+ + + + H LV+++ G D G ++S +
Sbjct: 64 IRRDTSSDIAKRWLQEVSLRLHKEYNSLVVFSFGLNDTTL--ENGKPRVSIAETIKNTRE 121
Query: 303 TFRFARSRNIPIVMLT 318
A+ P++M++
Sbjct: 122 ILTQAKKLY-PVLMIS 136
>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter
vibrioides} PDB: 2xj9_A* 2xit_A
Length = 286
Score = 28.2 bits (63), Expect = 3.7
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
>2gkg_A Response regulator homolog; social motility, receiver domain,
signalling, high resolutio signaling protein; 1.00A
{Myxococcus xanthus} PDB: 2i6f_A 2nt4_A 2nt3_A
Length = 127
Score = 27.5 bits (62), Expect = 3.7
Identities = 11/67 (16%), Positives = 23/67 (34%), Gaps = 23/67 (34%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISPDGIAA-----RDEKTFRFARSRN 311
++E P+LV+ + L +G +D+ +N
Sbjct: 39 KGSVEQI-RRDRPDLVVL----AV-------DLSAGQNGYLICGKLKKDDDL------KN 80
Query: 312 IPIVMLT 318
+PIV++
Sbjct: 81 VPIVIIG 87
>3lte_A Response regulator; structural genomics, PSI, protein structure
initiative, NYSG YORK structural genomix research
consortium, nysgxrc; 2.00A {Bermanella marisrubri}
Length = 132
Score = 27.1 bits (61), Expect = 4.4
Identities = 13/68 (19%), Positives = 27/68 (39%), Gaps = 23/68 (33%)
Query: 258 EALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGIAARDE--KTFRFARSRNIP 313
+A TF+P ++ D+ + P DG+ + ++ R + N P
Sbjct: 41 DAGIKL-STFEPAIMT----LDL-------SM---PKLDGL----DVIRSLRQNKVANQP 81
Query: 314 IVMLTSGG 321
+++ SG
Sbjct: 82 KILVVSGL 89
>3n53_A Response regulator receiver modulated diguanylate; diguanylate
cyclase, protein structure I II(PSI II), NYSGXRC,
structural genomics; 2.20A {Pelobacter carbinolicus}
Length = 140
Score = 26.8 bits (60), Expect = 6.3
Identities = 13/69 (18%), Positives = 23/69 (33%), Gaps = 28/69 (40%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGIAA-----RDEKTFRFARS 309
EALE P+LVI D+ + + R +
Sbjct: 36 KEALEQI-DHHHPDLVI----LDM-------DI---IGENSPNLCLKLKRSKGL------ 74
Query: 310 RNIPIVMLT 318
+N+P+++L
Sbjct: 75 KNVPLILLF 83
>3luf_A Two-component system response regulator/ggdef domain protein;
structural genomics, ASA_2441, PSI-2, protein structure
initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB:
3mf4_A*
Length = 259
Score = 27.3 bits (61), Expect = 6.8
Identities = 12/81 (14%), Positives = 24/81 (29%), Gaps = 32/81 (39%)
Query: 241 VEVVSGTTTNEYLKKLDEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISPD--GIAA 298
++ L+ A G + + + D L + PD
Sbjct: 32 IDAFDT---------LEGARHCQGDEYV--VAL----VD------LTL----PDAPSGE- 65
Query: 299 RDEKTFRFARSRNIPIVMLTS 319
+ R +P+V+LT+
Sbjct: 66 ----AVKVLLERGLPVVILTA 82
Score = 26.9 bits (60), Expect = 8.7
Identities = 16/81 (19%), Positives = 25/81 (30%), Gaps = 25/81 (30%)
Query: 258 EALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGIAA----RDEKTFRFARSRN 311
EAL LV+ D M P DGI+ R+ +
Sbjct: 159 EALATLEQHPAIRLVL----VDYY------M----PEIDGISLVRMLRERY-----SKQQ 199
Query: 312 IPIVMLTSGGYMKSSARVIAN 332
+ I+ ++ SAR +
Sbjct: 200 LAIIGISVSDKRGLSARYLKQ 220
>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein
structure initiative II (PSI II), structural genomics;
1.95A {Thermotoga maritima}
Length = 142
Score = 26.8 bits (60), Expect = 6.9
Identities = 8/62 (12%), Positives = 17/62 (27%), Gaps = 17/62 (27%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISPDGIAARDEKTFRFARSRNIPIVM 316
EA +LV D+ G + + + R + + +
Sbjct: 38 QEAFTFL-RREKIDLVF----VDVF----EGE-----ESLNLI--RRIR-EEFPDTKVAV 80
Query: 317 LT 318
L+
Sbjct: 81 LS 82
>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 = 7.1
Identities = 7/16 (43%), Positives = 12/16 (75%)
Query: 67 FLSSEGFLDKNCIVEP 82
L++EGF ++ C +EP
Sbjct: 36 CLAAEGFGNRLCFLEP 51
>2h0a_A TTHA0807, transcriptional regulator; repressor, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 2.80A {Thermus thermophilus}
Length = 276
Score = 27.1 bits (61), Expect = 7.8
Identities = 13/54 (24%), Positives = 18/54 (33%), Gaps = 16/54 (29%)
Query: 258 EALEVAGHTFDPELVI---------YNAGTDILEGDPLGMLKISPDGI-AARDE 301
EAL+ AG F P+ + A LE P + A D+
Sbjct: 143 EALKEAGRPFSPDRLYITRHSQEGGRLALRHFLEKASP------PLNVFAGADQ 190
>3c3m_A Response regulator receiver protein; structural genomics, unknown
function, PSI-2, protein struct initiative; HET: MSE;
1.70A {Methanoculleus marisnigri JR1}
Length = 138
Score = 26.4 bits (59), Expect = 7.8
Identities = 19/69 (27%), Positives = 27/69 (39%), Gaps = 28/69 (40%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGIAA-----RDEKTFRFARS 309
+E LE + P+LV+ DI M+ DG D T
Sbjct: 37 EECLEAL-NATPPDLVLL----DI-------MM---EPMDGWETLERIKTDPAT------ 75
Query: 310 RNIPIVMLT 318
R+IP++MLT
Sbjct: 76 RDIPVLMLT 84
>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 = 8.4
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 62 GRICQFLSSEGFLDKNCIVEPLEASKED 89
G F+S+ G +D C+V+P +
Sbjct: 36 GSTNGFISTLGLVDDRCVVQPEAGDLNN 63
>3cg4_A Response regulator receiver domain protein (CHEY-; structural
genomics, unknown function; HET: MSE; 1.61A
{Methanospirillum hungatei jf-1}
Length = 142
Score = 26.4 bits (59), Expect = 8.9
Identities = 14/65 (21%), Positives = 23/65 (35%), Gaps = 20/65 (30%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGI-AARDEKTFRFARSRNIP 313
+ +++ +V+ DI M+ P DG R + + I
Sbjct: 41 GQCIDLL-KKGFSGVVLL----DI-------MM---PGMDGWDTIRAIL--DNSLEQGIA 83
Query: 314 IVMLT 318
IVMLT
Sbjct: 84 IVMLT 88
>3nhm_A Response regulator; protein structure initiative II(PSI II),
NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus}
Length = 133
Score = 26.4 bits (59), Expect = 9.1
Identities = 10/68 (14%), Positives = 24/68 (35%), Gaps = 28/68 (41%)
Query: 258 EALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGIAA-----RDEKTFRFARSR 310
L+ A P+++I +D+ + DG A + +
Sbjct: 38 SGLQQA-LAHPPDVLI----SDV-------NM---DGMDGYALCGHFRSEPTL------K 76
Query: 311 NIPIVMLT 318
+IP++ ++
Sbjct: 77 HIPVIFVS 84
>3kke_A LACI family transcriptional regulator; structural genomics,
DNA-binding, transcription regulation, PSI-2; 2.20A
{Mycobacterium smegmatis str}
Length = 303
Score = 27.1 bits (61), Expect = 9.2
Identities = 11/54 (20%), Positives = 15/54 (27%), Gaps = 11/54 (20%)
Query: 258 EALEVAGHTFDPELVI---------YNAGTDILEGDPLGMLKISPDGI-AARDE 301
E L AG + V+ A + G LG P + A
Sbjct: 155 ETLASAGLRSEAAWVVDAGWEADAGSAALNTLYRGANLG-KPDGPTAVVVASVN 207
>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 = 9.2
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 62 GRICQFLSSEGFLDKNCIVEPLEASKED 89
G F+S+ G +D +V+P +
Sbjct: 21 GSTNGFISTLGLVDDRAVVQPEAGDLNN 48
>3cnb_A DNA-binding response regulator, MERR family; signal receiver
domain, DNA binding protein, protein structu initiative,
PSI-2; 2.00A {Colwellia psychrerythraea}
Length = 143
Score = 26.4 bits (59), Expect = 9.5
Identities = 13/68 (19%), Positives = 25/68 (36%), Gaps = 28/68 (41%)
Query: 258 EALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGIAA-----RDEKTFRFARSR 310
+A ++ HT P++V+ D+ M+ DG + T
Sbjct: 45 DAGDLL-HTVKPDVVM----LDL-------MM---VGMDGFSICHRIKSTPAT------A 83
Query: 311 NIPIVMLT 318
NI ++ +T
Sbjct: 84 NIIVIAMT 91
>1p6q_A CHEY2; chemotaxis, signal transduction, response regulator,
structural proteomics in europe, spine, structural
genomics; NMR {Sinorhizobium meliloti} SCOP: c.23.1.1
PDB: 1p6u_A
Length = 129
Score = 26.3 bits (59), Expect = 9.6
Identities = 10/69 (14%), Positives = 22/69 (31%), Gaps = 28/69 (40%)
Query: 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKISP--DGIAA-----RDEKTFRFARS 309
++ +++ LVI +D + P DG+ + T
Sbjct: 41 EQGMKIMAQN-PHHLVI----SDF-------NM---PKMDGLGLLQAVRANPAT------ 79
Query: 310 RNIPIVMLT 318
+ ++LT
Sbjct: 80 KKAAFIILT 88
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 0.138 0.405
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: 5,543,846
Number of extensions: 352513
Number of successful extensions: 1067
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1041
Number of HSP's successfully gapped: 74
Length of query: 352
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 257
Effective length of database: 4,049,298
Effective search space: 1040669586
Effective search space used: 1040669586
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: 58 (26.2 bits)