RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 027427
(223 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 = 119 bits (301), Expect = 2e-32
Identities = 51/188 (27%), Positives = 77/188 (40%), Gaps = 10/188 (5%)
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 DSRSCLYS 220
S+ S
Sbjct: 192 TSKVMTVS 199
>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 = 114 bits (288), Expect = 2e-30
Identities = 43/196 (21%), Positives = 78/196 (39%), Gaps = 24/196 (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 GHEKDFSSDSRSCLYS 220
G ++ F + + S
Sbjct: 174 GVQEAFYDTDQVFVLS 189
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 112 bits (281), Expect = 1e-29
Identities = 50/189 (26%), Positives = 78/189 (41%), Gaps = 9/189 (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 SDSRSCLYS 220
+ R S
Sbjct: 183 TTDRVMTVS 191
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 107 bits (268), Expect = 1e-27
Identities = 49/189 (25%), Positives = 71/189 (37%), Gaps = 9/189 (4%)
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 SDSRSCLYS 220
R S
Sbjct: 183 LTDRVMTVS 191
>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 = 82.9 bits (205), Expect = 9e-19
Identities = 48/245 (19%), Positives = 82/245 (33%), Gaps = 39/245 (15%)
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 SSDSR 215
D
Sbjct: 237 YQDPS 241
>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 = 76.7 bits (189), Expect = 9e-17
Identities = 38/183 (20%), Positives = 61/183 (33%), Gaps = 36/183 (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 DSR 215
Sbjct: 209 RGD 211
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 73.9 bits (182), Expect = 9e-16
Identities = 33/160 (20%), Positives = 64/160 (40%), Gaps = 15/160 (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 DISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSR 215
+ S+ YA L + RV I+D D H GNG + + +D
Sbjct: 157 NTSVAAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPS 196
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 71.7 bits (176), Expect = 5e-15
Identities = 37/213 (17%), Positives = 64/213 (30%), Gaps = 43/213 (20%)
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 YAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSR 215
+ +RV ++D D H G G ++ F +
Sbjct: 199 AL--RARHARVAVLDTDMHHGQGIQEIFYARRD 229
>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 = 37.7 bits (87), Expect = 0.002
Identities = 29/198 (14%), Positives = 65/198 (32%), Gaps = 52/198 (26%)
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-------ILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQ 187
+ G + A +A+ W F S + + I + + A+
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDSWE-----SF-FVSVRKAITVLFF--IGVRCYEAYPN 316
Query: 188 LNISRVMIIDLDAHQGNG 205
++ ++ D + G
Sbjct: 317 TSLPPSILEDSLEN-NEG 333
Score = 31.6 bits (71), Expect = 0.23
Identities = 34/193 (17%), Positives = 54/193 (27%), Gaps = 59/193 (30%)
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-MIIDLDA 200
N RV +A
Sbjct: 1813 NPGRVAASFSQEA 1825
Score = 27.7 bits (61), Expect = 4.0
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
>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 = 34.8 bits (79), Expect = 0.020
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 = 32.1 bits (72), Expect = 0.16
Identities = 22/186 (11%), Positives = 53/186 (28%), Gaps = 59/186 (31%)
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 HCSADE 167
+C++ E
Sbjct: 191 NCNSPE 196
Score = 29.4 bits (65), Expect = 1.2
Identities = 27/185 (14%), Positives = 54/185 (29%), Gaps = 66/185 (35%)
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 130
+L
Sbjct: 388 PTILL 392
>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 = 0.098
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 = 0.95
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 = 1.5
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
>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein;
2.80A {Salmonella enterica subsp} PDB: 3ezf_A
Length = 403
Score = 30.1 bits (68), Expect = 0.58
Identities = 8/36 (22%), Positives = 14/36 (38%), Gaps = 6/36 (16%)
Query: 192 RVMIIDLDAHQGN-----GHEKDFSSDSRSCLYSGY 222
R+++IDLD Q + H S + +
Sbjct: 148 RILVIDLDP-QASSTMFLDHTHSIGSILETAAQAML 182
>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA
bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB:
3ez6_A* 3ez7_A
Length = 398
Score = 28.2 bits (63), Expect = 2.5
Identities = 7/36 (19%), Positives = 15/36 (41%), Gaps = 6/36 (16%)
Query: 192 RVMIIDLDAHQGN-----GHEKDFSSDSRSCLYSGY 222
R+++IDLD Q + H+ + + +
Sbjct: 145 RILVIDLDP-QSSATMFLSHKHSIGIVNATSAQAML 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 = 26.9 bits (60), Expect = 4.8
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
>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 = 4.8
Identities = 7/16 (43%), Positives = 12/16 (75%)
Query: 67 FLSSEGFLDKNCIVEP 82
L++EGF ++ C +EP
Sbjct: 36 CLAAEGFGNRLCFLEP 51
>2bue_A AAC(6')-IB; GNAT, transferase, aminoglycoside, fluoroquinolone,
acetyltransferase, antibiotic resistance; HET: COA RIO;
1.7A {Escherichia coli} PDB: 1v0c_A* 2vqy_A* 2prb_A*
2qir_A* 2pr8_A*
Length = 202
Score = 26.7 bits (59), Expect = 5.7
Identities = 14/103 (13%), Positives = 26/103 (25%), Gaps = 17/103 (16%)
Query: 96 ESYLKSLQSSPNV-SIIIEVP--PVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGW 152
E YL S+ + +V I + P+ Y G RG
Sbjct: 66 EQYLPSVLAQESVTPYIAMLNGEPIGYA--------QSYVALGSGDGWWEEETDPGVRGI 117
Query: 153 AINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMI 195
+ G G + + F ++++
Sbjct: 118 DQLLANASQL-----GKGLGTKL-VRALVELLFNDPEVTKIQT 154
>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 = 26.7 bits (58), Expect = 6.5
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 62 GRICQFLSSEGFLDKNCIVEPLEASKED 89
G F+S+ G +D C+V+P +
Sbjct: 36 GSTNGFISTLGLVDDRCVVQPEAGDLNN 63
>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 = 26.9 bits (58), Expect = 6.6
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 62 GRICQFLSSEGFLDKNCIVEPLEASKED 89
G F+S+ G +D +V+P +
Sbjct: 21 GSTNGFISTLGLVDDRAVVQPEAGDLNN 48
>2e5f_A Hypothetical protein PH0510; structural genomics, sugar binding
protein, NPPSFA, national on protein structural and
functional analyses; 1.35A {Pyrococcus horikoshii} PDB:
2dec_A* 2df8_A 2cb0_A*
Length = 325
Score = 26.7 bits (60), Expect = 7.2
Identities = 3/19 (15%), Positives = 6/19 (31%)
Query: 140 TILAAKLAKERGWAINVGG 158
+LA + + I
Sbjct: 95 ILLALEKINVKKLGITTRE 113
>3igr_A Ribosomal-protein-S5-alanine N-acetyltransferase; fisch MCSG,
structural genomics, midwest center for structural GE
protein structure initiative; HET: MSE; 2.00A {Vibrio
fischeri}
Length = 184
Score = 26.1 bits (58), Expect = 8.6
Identities = 5/19 (26%), Positives = 11/19 (57%)
Query: 177 ISLCIHYAFVQLNISRVMI 195
+++ I + F N+ R+M
Sbjct: 117 VNVTIDWMFKAQNLHRIMA 135
>3im6_A Cardiac Ca2+ release channel; ryanodine receptor 2, calcium
release channel, ION channel, arrhythmia, CPVT, ARVD2,
ARVC2, disease mutation; 1.70A {Mus musculus} PDB:
3im5_A 3im7_A 3qr5_A 3ila_A 3hsm_A
Length = 217
Score = 26.3 bits (57), Expect = 8.8
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 44 DISFLGIE---KLHPFDSSKWGRICQFLSSEGFLDKNCIVEP 82
+I FL + L + + L++EGF ++ C +E
Sbjct: 10 EIQFLRTDDEVVLQCTATIHKEQQKLCLAAEGFGNRLCFLES 51
>1s7k_A Acetyl transferase; GNAT; 1.80A {Salmonella typhimurium} SCOP:
d.108.1.1 PDB: 1s7l_A* 1s7n_A* 1s7f_A 1z9u_A
Length = 182
Score = 26.1 bits (58), Expect = 9.0
Identities = 3/19 (15%), Positives = 9/19 (47%)
Query: 177 ISLCIHYAFVQLNISRVMI 195
+ + + + +I R +I
Sbjct: 117 LQALMTHYARRGDIRRFVI 135
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
0.321 0.138 0.418
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: 3,398,936
Number of extensions: 199635
Number of successful extensions: 465
Number of sequences better than 10.0: 1
Number of HSP's gapped: 452
Number of HSP's successfully gapped: 32
Length of query: 223
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 133
Effective length of database: 4,188,903
Effective search space: 557124099
Effective search space used: 557124099
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: 55 (25.0 bits)