RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 022642
(294 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 = 123 bits (311), Expect = 6e-33
Identities = 55/198 (27%), Positives = 84/198 (42%), Gaps = 12/198 (6%)
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 228
S+V + F+PG +P
Sbjct: 192 TSKVMTVSLHKFSPGFFP 209
>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 = 115 bits (291), Expect = 3e-30
Identities = 45/206 (21%), Positives = 82/206 (39%), Gaps = 26/206 (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--MFNPGIYP 228
G ++ F +V++L +P
Sbjct: 174 GVQEAFYDTDQVFVLSLHQSPEYAFP 199
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 113 bits (285), Expect = 3e-29
Identities = 50/185 (27%), Positives = 78/185 (42%), Gaps = 9/185 (4%)
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 SDSRV 216
+ RV
Sbjct: 183 TTDRV 187
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 110 bits (278), Expect = 2e-28
Identities = 50/199 (25%), Positives = 75/199 (37%), Gaps = 11/199 (5%)
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--FNPGIYP 228
RV + + +P
Sbjct: 183 LTDRVMTVSFHKYGNYFFP 201
>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 = 85.6 bits (212), Expect = 4e-19
Identities = 51/249 (20%), Positives = 85/249 (34%), Gaps = 40/249 (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 SSDSRV-YI 218
D V YI
Sbjct: 237 YQDPSVLYI 245
>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 = 79.0 bits (195), Expect = 6e-17
Identities = 39/185 (21%), Positives = 63/185 (34%), Gaps = 36/185 (19%)
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 DSRVY 217
V+
Sbjct: 209 RGDVF 213
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 78.9 bits (195), Expect = 7e-17
Identities = 35/173 (20%), Positives = 69/173 (39%), Gaps = 15/173 (8%)
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 DISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYP 228
+ S+ YA L + RV I+D D H GNG + + +D V + + +P
Sbjct: 157 NTSVAAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTISLHQHLCFP 209
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 74.0 bits (182), Expect = 3e-15
Identities = 37/217 (17%), Positives = 65/217 (29%), Gaps = 44/217 (20%)
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 218
+ +RV ++D D H G G ++ F + V Y+
Sbjct: 199 AL--RARHARVAVLDTDMHHGQGIQEIFYARRDVLYV 233
>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 = 51.6 bits (123), Expect = 2e-07
Identities = 56/315 (17%), Positives = 100/315 (31%), Gaps = 108/315 (34%)
Query: 27 YFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEAS 86
YF+ +L +Y Y H + + I L+A
Sbjct: 169 YFE----ELRDLYQ-TY----------HVL-------VGDLIKFSAETLSELIRTTLDAE 206
Query: 87 KEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFP-NCLVQ-------RKVL--YP--FR 134
K ++ +L++ ++P+ ++ +P ++ P ++Q K+L P R
Sbjct: 207 KVFTQGLNILEWLENPSNTPDKDYLLSIP-IS-CPLIGVIQLAHYVVTAKLLGFTPGELR 264
Query: 135 KQVGGT-------ILAAKLAKERGWAINVGGGFHHCSADEG-------GGFC--AYADIS 178
+ G + A +A+ W F S + G C AY + S
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDSWE-----SF-FVSVRKAITVLFFIGVRCYEAYPNTS 318
Query: 179 LCIHYAFVQ-------------LNISRVMIIDLDAH--QGNGHEKDFSSDSRVYILDMFN 223
L + ++ L+IS + + + + N H + +V I + N
Sbjct: 319 LPP--SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH---LPAGKQVEI-SLVN 372
Query: 224 PGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEVYMFKT--------FSVH--VF 273
G A+ VVSG + L L+ L + FS F
Sbjct: 373 -G-------AKNL------VVSGPP--QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKF 416
Query: 274 HLLFFPKS--FH-HY 285
F P + FH H
Sbjct: 417 SNRFLPVASPFHSHL 431
Score = 39.3 bits (91), Expect = 0.001
Identities = 47/277 (16%), Positives = 76/277 (27%), Gaps = 82/277 (29%)
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 TTTNEYLKKLDEALEVYMFKTFSVHVFHLLFFPKSFH 283
L + L K + + L KS
Sbjct: 1858 DLRA--LDTVTNVLNF--IKLQKIDIIEL---QKSLS 1887
Score = 29.6 bits (66), Expect = 1.4
Identities = 33/253 (13%), Positives = 65/253 (25%), Gaps = 99/253 (39%)
Query: 99 LKSLQ-SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTI--------------LA 143
+ L S ++ ++ VP A F ++ F K + L
Sbjct: 6 TRPLTLSHGSLEHVLLVPT-ASFFIASQLQE---QFNKILPEPTEGFAADDEPTTPAELV 61
Query: 144 AK-LAKERGWAINVGGGF--HHCSADEGGGFCAYADISLC-IHYAFVQLNISRVMIIDLD 199
K L G+ + G F ++ L +++ N D
Sbjct: 62 GKFL------------GYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGN---------D 100
Query: 200 AHQGNGHEKDFSSDSRVYILDMFNPGIYPRD-------YEARRFIDQKVE---------- 242
H + L N + AR + +
Sbjct: 101 IH------------ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA 148
Query: 243 VVSGT-----------TTNEYLKKLDEALEVY------MFKTFSVHVFHLL--------F 277
V G T++Y ++L + + Y + K + + L+
Sbjct: 149 VGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKV 208
Query: 278 FPKSFH-HYWKED 289
F + + W E+
Sbjct: 209 FTQGLNILEWLEN 221
Score = 28.1 bits (62), Expect = 4.7
Identities = 16/92 (17%), Positives = 31/92 (33%), Gaps = 20/92 (21%)
Query: 175 ADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEAR 234
AD Y F L+I ++L H F + I + ++ I+ + +
Sbjct: 1649 ADNHFKDTYGFSILDIVINNPVNLTIH--------FGGEKGKRIRENYSAMIFETIVDGK 1700
Query: 235 RFIDQKVEVVSGTTTNEYLKKLDEALEVYMFK 266
T + K+++E Y F+
Sbjct: 1701 ------------LKTEKIFKEINEHSTSYTFR 1720
>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 = 38.7 bits (89), Expect = 0.002
Identities = 60/381 (15%), Positives = 115/381 (30%), Gaps = 118/381 (30%)
Query: 2 SSSSSPSVTTDAETLKRNRILSSKLY------------------FDI--PIFKLPLIYSP 41
SS+ + + + R+L SK Y F++ I L+ +
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI----LLTTR 273
Query: 42 DYDIS-FLG--IEKLHPFDSSKWGRICQFLSSE--GFLDK--NCIVE--PLEASKEDLLV 92
++ FL 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-----YMFK---TFSVHVFH 274
++ D+ RF++QK+ T N L+ ++ Y+ + V
Sbjct: 494 -RMVF-LDF---RFLEQKIR-HDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNA 547
Query: 275 LL-FFPKSFHHYWKEDCGCLL 294
+L F PK + LL
Sbjct: 548 ILDFLPKIEENLICSKYTDLL 568
Score = 38.3 bits (88), Expect = 0.003
Identities = 40/350 (11%), Positives = 94/350 (26%), Gaps = 115/350 (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----IYPRDYEARRFIDQK-------VEVVSGT 247
+ +++ + FN + R + F+
Sbjct: 251 L---------NV-QNAK--AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTL 298
Query: 248 TTNEYLKKLDEALEVYMFK----TFSVHVFHLLFFPKSFHH------YWK 287
T +E L + L+ + + L +S WK
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK 348
Score = 33.7 bits (76), Expect = 0.081
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
Score = 28.3 bits (62), Expect = 4.1
Identities = 12/68 (17%), Positives = 23/68 (33%), Gaps = 6/68 (8%)
Query: 206 HEKDFSSDSRVY----ILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALE 261
H DF + Y IL +F +++ + D ++S + + D
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFV-DNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 262 VY-MFKTF 268
+F T
Sbjct: 64 TLRLFWTL 71
>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 = 0.13
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 = 30.3 bits (67), Expect = 0.44
Identities = 6/11 (54%), Positives = 9/11 (81%)
Query: 253 LKKLDEALEVY 263
LKKL +L++Y
Sbjct: 22 LKKLQASLKLY 32
Score = 28.8 bits (63), Expect = 1.3
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 = 28.4 bits (62), Expect = 2.0
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
>1o7q_A N-acetyllactosaminide alpha-1,3- galactosyltransferase;
3-galactosyltransferase-UDP complex,
glycosyltransferase, glycoprotein, transmembrane; HET:
GAL NAG UDP; 1.3A {Bos taurus} SCOP: c.68.1.9 PDB:
1gwv_A* 1gx0_A* 1gww_A* 1k4v_A* 1gx4_A* 2jco_A 1g8o_A*
1fg5_N* 1g93_A* 2wgz_A* 1o7o_A* 2vs4_A* 2jck_A* 2jcl_A
2vfz_A* 2vs3_A* 1vzu_A* 1vzx_A* 1vzt_A* 2jcj_A* ...
Length = 289
Score = 27.3 bits (60), Expect = 6.3
Identities = 6/54 (11%), Positives = 15/54 (27%)
Query: 220 DMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEVYMFKTFSVHVF 273
+N + Y ++ G YL++ + + V +
Sbjct: 32 GTYNRAVLDNYYAKQKITVGLTVFAVGRYIEHYLEEFLTSANKHFMVGHPVIFY 85
>2xoa_A Ryanodine receptor 1; metal transport, calcium channel, ION
channel, membrane PROT malignant hyperthermia, cardiac
arrhythmia; 2.50A {Oryctolagus cuniculus}
Length = 559
Score = 27.2 bits (59), Expect = 8.2
Identities = 7/16 (43%), Positives = 12/16 (75%)
Query: 67 FLSSEGFLDKNCIVEP 82
L++EGF ++ C +EP
Sbjct: 36 CLAAEGFGNRLCFLEP 51
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
0.323 0.140 0.429
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: 4,673,413
Number of extensions: 283067
Number of successful extensions: 786
Number of sequences better than 10.0: 1
Number of HSP's gapped: 770
Number of HSP's successfully gapped: 34
Length of query: 294
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 201
Effective length of database: 4,105,140
Effective search space: 825133140
Effective search space used: 825133140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.8 bits)