RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7191
(413 letters)
>3tka_A Ribosomal RNA small subunit methyltransferase H; HET: SAM CTN PG4;
2.25A {Escherichia coli}
Length = 347
Score = 183 bits (467), Expect = 1e-54
Identities = 95/334 (28%), Positives = 156/334 (46%), Gaps = 65/334 (19%)
Query: 90 IDMTYGDGNHTRLILENIG-NVKVICLDRDKESFEKAKTLAANDPRLVPVYGKFSDLPNI 148
ID T+G G H+RLIL +G +++ +DRD ++ AKT+ DPR ++G FS L
Sbjct: 62 IDGTFGRGGHSRLILSQLGEEGRLLAIDRDPQAIAVAKTID--DPRFSIIHGPFSALGEY 119
Query: 149 LKNMNNNFNSIDGIIMDVGISDSQ-ANSTRGFKPDSNSLLDMRMSQE-GITGYQVLSAID 206
+ + IDGI++D+G+S Q ++ RGF + LDMRM G + + L +
Sbjct: 120 VAERDL-IGKIDGILLDLGVSSPQLDDAERGFSFMRDGPLDMRMDPTRGQSAAEWLQTAE 178
Query: 207 EVSLAKILKTYGEEKRSRQIARAIIETRYTFKKLERTRDLNELVASVSRPSQTWKRACRT 266
E +A +LKTYGEE+ +++IARAI+E + + RT++L E+VA+ +
Sbjct: 179 EADIAWVLKTYGEERFAKRIARAIVERNRE-QPMTRTKELAEVVAAAT------------ 225
Query: 267 ESLQWIATASVVGTEVRVDPRKHGSEHVAQKVYNGLRRFVNNELNELNYAMIIAEKYLKP 326
P K +H A + + +R +VN+EL E+ A+ + L P
Sbjct: 226 -------------------PVKDKFKHPATRTFQAVRIWVNSELEEIEQALKSSLNVLAP 266
Query: 327 EGLLLTKCNSIV-----EDKIVKRHLTGNVIEHCANDLALKFVNHNLTVNPLDMSSLTSS 381
G L SI+ ED+IVKR + + V L + + L
Sbjct: 267 GGRL-----SIISFHSLEDRIVKR-----FMRENSRG---PQVPAGLPMTEEQLKKLGGR 313
Query: 382 PWTILDKIIPSDSDL---------KLRVAMKKES 406
L K++P + ++ LR+A + +
Sbjct: 314 QLRALGKLMPGEEEVAENPRARSSVLRIAERTNA 347
>1wg8_A Predicted S-adenosylmethionine-dependent methyltransferase;
S-adenosyl-methyltransferase, MRAW; HET: SAM; 2.00A
{Thermus thermophilus} SCOP: a.60.13.1 c.66.1.23
Length = 285
Score = 175 bits (447), Expect = 2e-52
Identities = 81/262 (30%), Positives = 118/262 (45%), Gaps = 50/262 (19%)
Query: 90 IDMTYGDGNHTRLILENIGNVKVICLDRDKESFEKAKTLAANDPRLVPVYGKFSDLPNIL 149
+D T G H R ILE G +VI LD+D E+ +AK L P L V G F L L
Sbjct: 27 VDATLGGAGHARGILERGG--RVIGLDQDPEAVARAKGLH--LPGLTVVQGNFRHLKRHL 82
Query: 150 KNMNNNFNSIDGIIMDVGISDSQ-ANSTRGFKPDSNSLLDMRMSQEGITGYQVLSAIDEV 208
+ +DGI+ D+G+S + +RGF LDMRM EG T +V++ +
Sbjct: 83 AALG--VERVDGILADLGVSSFHLDDPSRGFSYQKEGPLDMRMGLEGPTAKEVVNRLPLE 140
Query: 209 SLAKILKTYGEEKRSRQIARAIIETRYTFKKLERTRDLNELVASVSRPSQTWKRACRTES 268
+LA++L+ GEE ++ +IARAI+ R +E T L E+V
Sbjct: 141 ALARLLRELGEEPQAYRIARAIVAAREK-APIETTTQLAEIVRKAV-------------- 185
Query: 269 LQWIATASVVGTEVRVDPRKHGSEHVAQKVYNGLRRFVNNELNELNYAMIIAEKYLKPEG 328
+ H A+K + LR +VN+ELN L + A + L P G
Sbjct: 186 -----------------GFRRAG-HPARKTFQALRIYVNDELNALKEFLEQAAEVLAPGG 227
Query: 329 LLLTKCNSIV-----EDKIVKR 345
L ++ ED++VKR
Sbjct: 228 RL-----VVIAFHSLEDRVVKR 244
>1m6y_A S-adenosyl-methyltransferase MRAW; SAM-dependent methyltransferase
fold, protein-cofactor product complex, structural
genomics, PSI; HET: SAH; 1.90A {Thermotoga maritima}
SCOP: a.60.13.1 c.66.1.23 PDB: 1n2x_A*
Length = 301
Score = 174 bits (444), Expect = 1e-51
Identities = 79/267 (29%), Positives = 118/267 (44%), Gaps = 48/267 (17%)
Query: 88 TMIDMTYGDGNHTRLILENIGNVKVICLDRDKESFEKAKT-LAANDPRLVPVYGKFSDLP 146
++D T G+G H+R ILE+ ++I +D D E A+ L R+ + +
Sbjct: 29 IILDCTVGEGGHSRAILEHCPGCRIIGIDVDSEVLRIAEEKLKEFSDRVSLFKVSYREAD 88
Query: 147 NILKNMNNNFNSIDGIIMDVGISDSQ-ANSTRGFKPDSNSLLDMRMSQE-GITGYQVLSA 204
+LK + +DGI+MD+G+S Q RGF + LDMRM E +T +VL+
Sbjct: 89 FLLKTL--GIEKVDGILMDLGVSTYQLKGENRGFTFEREEPLDMRMDLESEVTAQKVLNE 146
Query: 205 IDEVSLAKILKTYGEEKR-SRQIARAIIETRYTFKKLERTRDLNELVASVSRPSQTWKRA 263
+ E LA+I+ YGEEKR +R+IAR I+E R L T DL + V
Sbjct: 147 LPEEELARIIFEYGEEKRFARRIARKIVENR----PLNTTLDLVKAVREA---------- 192
Query: 264 CRTESLQWIATASVVGTEVRVDPRKHGSEHVAQKVYNGLRRFVNNELNELNYAMIIAEKY 323
+ + H A K + +R +VN EL L + AE
Sbjct: 193 ------------------LPSYEIRRRKRHFATKTFQAIRIYVNRELENLKEFLKKAEDL 234
Query: 324 LKPEGLLLTKCNSIV-----EDKIVKR 345
L P G + ++ ED+IVK
Sbjct: 235 LNPGGRI-----VVISFHSLEDRIVKE 256
>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 = 54.5 bits (130), Expect = 5e-08
Identities = 75/479 (15%), Positives = 137/479 (28%), Gaps = 140/479 (29%)
Query: 4 SVLPGPSSTQFGLEEHMS-----LDFAEY------LRELTR--AQFVSNNKFTIEEEETL 50
+ + + ++ M L+ L L + Q N + +
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 51 KKNLASLK-RLSEDIYNKKYPRTFQTSASGLNDSSDDVTMIDMTYGDGNHTRLILENIGN 109
K + S++ L + +K Y L L+L N+ N
Sbjct: 224 KLRIHSIQAELRRLLKSKPYEN-------CL---------------------LVLLNVQN 255
Query: 110 VKVICLDRDKESFE-KAKTLAANDPRLVPVYGKFSDLPNILKNMNNNFNSIDGIIMDVGI 168
K +F K L + +F + + L S+D
Sbjct: 256 AKAW------NAFNLSCKIL---------LTTRFKQVTDFLSAATTTHISLD-------- 292
Query: 169 SDSQANSTRGFKPD-SNSL----LDMRMSQ---EGITGY-QVLSAI-----DEVSLAKIL 214
+ + PD SL LD R E +T + LS I D ++
Sbjct: 293 -----HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW 347
Query: 215 KTYGEEKRSRQIARAI-----IETRYTFKKLERTRDLNELVASVSRPSQT----WKRA-- 263
K +K + I ++ E R F +L S P+ W
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP------SAHIPTILLSLIWFDVIK 401
Query: 264 ---------CRTESL--QWIATASVVGTEVRVDPRKHGSE----HVAQKV---YNGLRRF 305
SL + +++ + ++ + H + + YN + F
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH--RSIVDHYNIPKTF 459
Query: 306 VNNEL----------NELNYAMIIAEKYLKPEGLLLTKCN-SIVEDKIVKRHLTGNVIEH 354
+++L + + + + E + + + +E KI N
Sbjct: 460 DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGS 519
Query: 355 CANDLA-LKFVNHNLTVNPLDMSSLTSSPWTILDK-----IIPSDSDLKLRVAMKKESN 407
N L LKF + N L ++ L K I +DL LR+A+ E
Sbjct: 520 ILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL-LRIALMAEDE 577
>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 = 49.7 bits (118), Expect = 1e-06
Identities = 79/525 (15%), Positives = 144/525 (27%), Gaps = 201/525 (38%)
Query: 4 SVLPGPSSTQFGLEEHMS--------LDF-AEYLRELTRAQFVSNNKFTIEEEET--LKK 52
+LP P+ +E + L + + + QF + E E L+
Sbjct: 39 KILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG 98
Query: 53 N-----LASLKRLSEDIYNKKYP--RTF------------QTSASGLNDSSDDVTMIDMT 93
N A L + ++ K + + + S S L + +
Sbjct: 99 NDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE------- 151
Query: 94 YGDGNHTRLILENI----GNVKVICLD--RD-------------KESFEKAKTLAANDPR 134
+ +L+ I GN + RD K S E L
Sbjct: 152 ----GNAQLVA--IFGGQGNTDD-YFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLD 204
Query: 135 LVPVYGKFSDLPNILKNMNNNFNSIDGIIMDVGISDSQANSTRGFKPDSNSLLDMRMSQE 194
V+ + ++ L+N ++T PD + LL + +S
Sbjct: 205 AEKVFTQGLNILEWLEN---------------------PSNT----PDKDYLLSIPISCP 239
Query: 195 GITGYQVLSAIDEVSLAKIL-KTYGEEKRSRQIARAIIETRYTFKKLERTRDLNELVASV 253
I Q L+ V AK+L T GE R + ++ L + A
Sbjct: 240 LIGVIQ-LAHY--VVTAKLLGFTPGE---LRSYLKGA---------TGHSQGL--VTAVA 282
Query: 254 SRPSQTWK---RACRT--ESLQWIATA------------------------------SVV 278
+ +W+ + R L +I S+
Sbjct: 283 IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 279 GT-----EVRVDP-RKH--GSEHVAQKVYNGLRRFV----NNELNELNYAMIIAEKYLKP 326
+ V+ H + V + NG + V L LN + K P
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL---RKAKAP 399
Query: 327 EGL----------------------------LLTKCNSIVEDKIVKRHL----------- 347
GL LL + ++ +VK ++
Sbjct: 400 SGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPV 459
Query: 348 ----TGNVIEHCANDLALKFVNHNLTVNPLDMSSLTSSPWT-ILD 387
G+ + + ++ + V+ + P+ + T T ILD
Sbjct: 460 YDTFDGSDLRVLSGSISERIVD-CIIRLPVKWETTTQFKATHILD 503
Score = 35.0 bits (80), Expect = 0.052
Identities = 40/210 (19%), Positives = 61/210 (29%), Gaps = 71/210 (33%)
Query: 2 DNSVLPGPSSTQFGLEEHMSLDFAEYLREL--------TRAQFVSNNKFTIEEE------ 47
N V+ GP + +GL LR+ +R F S K
Sbjct: 375 KNLVVSGPPQSLYGLNLT--------LRKAKAPSGLDQSRIPF-SERKLKFSNRFLPVAS 425
Query: 48 ----ETLKKNLASLKRLSEDIYNKKYPRTFQTSASGLNDSSDDVTMIDMTYGDGNHTR-- 101
L + +++D+ +A + + + D T+ DG+ R
Sbjct: 426 PFHSHLLVP---ASDLINKDLVKN----NVSFNAKDIQ-----IPVYD-TF-DGSDLRVL 471
Query: 102 --LILENIGNVKVICLDRDKESFEKAKTLAAN-----DPRLVPVYGKFSDLPNILKNMNN 154
I E I V I R +E A P G S L +
Sbjct: 472 SGSISERI--VDCII--RLPVKWETTTQFKATHILDFGP------GGASGLGVLTHRN-- 519
Query: 155 NFNSIDG----IIMDVGISDSQANSTRGFK 180
DG +I+ G D + GFK
Sbjct: 520 ----KDGTGVRVIV-AGTLDINPDDDYGFK 544
>3mti_A RRNA methylase; SAM-dependent, PSI, MCSG, structural genomics,
midwest cente structural genomics, protein structure
initiative; 1.95A {Streptococcus thermophilus} PDB:
3lby_A*
Length = 185
Score = 36.4 bits (84), Expect = 0.008
Identities = 14/83 (16%), Positives = 28/83 (33%), Gaps = 10/83 (12%)
Query: 88 TMIDMTYGDGNHTRLILENIGNVKVICLDRDKESFEKAKTLA--ANDPRLVPVYGKFSDL 145
++D T G+GN T + KV D +++ K + +L
Sbjct: 25 IVVDATMGNGNDTAFLAGLSK--KVYAFDVQEQALGKTSQRLSDLGIENTELILDGHENL 82
Query: 146 PNILKNMNNNFNSIDGIIMDVGI 168
+ ++ I I ++G
Sbjct: 83 DHYVR------EPIRAAIFNLGY 99
>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 = 33.4 bits (75), Expect = 0.060
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 12/35 (34%)
Query: 46 EEETLKKNLASLKRLSEDIYNKKYPRTFQTSASGL 80
E++ LKK ASLK ++D SA L
Sbjct: 18 EKQALKKLQASLKLYADD------------SAPAL 40
Score = 29.1 bits (64), Expect = 1.4
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 16/38 (42%)
Query: 220 EKRSRQIARAIIETRYTFKKLERTRDLNELVASVSRPS 257
EK++ KKL+ + L +L A S P+
Sbjct: 18 EKQA-------------LKKLQAS--L-KLYADDSAPA 39
>3eey_A Putative rRNA methylase; rRNA methylation, S-adenosyl-methionine,
structural genomics structure initiative, PSI; HET: SAM;
2.20A {Clostridium thermocellum atcc 27405}
Length = 197
Score = 33.4 bits (76), Expect = 0.077
Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 88 TMIDMTYGDGNHTRLILENIGNV-KVICLDRDKESFEKAKTLAAN 131
T++D T G+GN T + +G +V D ++ +
Sbjct: 25 TVVDATCGNGNDTAFLASLVGENGRVFGFDIQDKAIANTTKKLTD 69
>3dtn_A Putative methyltransferase MM_2633; structural genomics, unknown
function, PSI-2, protein structure initiative; 2.09A
{Methanosarcina mazei}
Length = 234
Score = 33.6 bits (77), Expect = 0.091
Identities = 9/70 (12%), Positives = 23/70 (32%), Gaps = 8/70 (11%)
Query: 95 GDGNHTRLILENIGNVKVICLDRDKESFEKAKTLAANDPRLVPVYGKFSDLPNILKNMNN 154
G G + ++E +D ++ E AK + ++ + +S
Sbjct: 54 GTGLLSAFLMEKYPEATFTLVDMSEKMLEIAKNRFRGNLKVKYIEADYSKYD-----FEE 108
Query: 155 NFNSIDGIIM 164
+ D ++
Sbjct: 109 KY---DMVVS 115
>3fpf_A Mtnas, putative uncharacterized protein; thermonicotianamine,
nicotianamine, biosynthetic protein; HET: TNA MTA; 1.66A
{Methanothermobacter thermautotrophicusorganism_taxid}
PDB: 3fpe_A* 3fph_A* 3fpg_A* 3fpj_A* 3o31_A*
Length = 298
Score = 33.2 bits (75), Expect = 0.14
Identities = 15/127 (11%), Positives = 49/127 (38%), Gaps = 3/127 (2%)
Query: 6 LPGPSSTQFGLEEHMSLD--FAEYLRELTRAQFVSNNKFTIEEEETLKKNLASLKRLSED 63
+ S+ F +H+ D L + + K +E+ + + ++ + + L
Sbjct: 42 IAHDSTIDFESAKHILDDAEMNHALSLIRKFYVNLGMKLEMEKAQEVIESDSPWETLRSF 101
Query: 64 IYNKKYPRTFQTSASGLNDSSDDVTMIDMTYGDGNHTRLILENIGNVKVICLDRDKESFE 123
+ +Y + A+ + + + G T ++L ++ ++V ++ + + E
Sbjct: 102 YFYPRYLELLKNEAALGRFRRGE-RAVFIGGGPLPLTGILLSHVYGMRVNVVEIEPDIAE 160
Query: 124 KAKTLAA 130
++ +
Sbjct: 161 LSRKVIE 167
>3i4a_A N(G),N(G)-dimethylarginine dimethylaminohydrolase 1; DDAH, nitric
oxide synthase regulation, acetylation, metal-binding,
zinc; HET: LN5; 1.90A {Homo sapiens} PDB: 3i2e_A*
3p8e_A* 3p8p_A*
Length = 308
Score = 32.0 bits (72), Expect = 0.29
Identities = 17/104 (16%), Positives = 40/104 (38%), Gaps = 1/104 (0%)
Query: 14 FGLEEHMSLDFAEYLRELTRAQFVSNNKFTIEEEETLKKNLASLKRLSEDIYNK-KYPRT 72
F ++ A+ L + N I E+ +K L ++++S+ Y+K P
Sbjct: 181 FKDYAVSTVPVADGLHLKSFCSMAGPNLIAIGSSESAQKALKIMQQMSDHRYDKLTVPDD 240
Query: 73 FQTSASGLNDSSDDVTMIDMTYGDGNHTRLILENIGNVKVICLD 116
+ LN + ++ T + + + E + + +I +
Sbjct: 241 IAANCIYLNIPNKGHVLLHRTPEEYPESAKVYEKLKDHMLIPVS 284
>3d7r_A Esterase; alpha/beta fold, hydrolase; 2.01A {Staphylococcus aureus
subsp}
Length = 326
Score = 30.4 bits (69), Expect = 1.1
Identities = 6/20 (30%), Positives = 9/20 (45%)
Query: 130 ANDPRLVPVYGKFSDLPNIL 149
D R+ P+ G LP +
Sbjct: 241 LTDKRISPINGTIEGLPPVY 260
>2ci1_A NG, NG-dimethylarginine dimethylaminohydrolase 1; NOS regulation,
S-nitrosylation, zinc, MMA, ADMA, acetylation,
metal-binding; HET: KOR K1R CIT; 1.08A {Bos taurus} PDB:
2c6z_A* 2ci3_A 2ci4_A 2ci5_A* 2ci6_A 2ci7_A 2jaj_A*
2jai_A*
Length = 275
Score = 30.0 bits (67), Expect = 1.1
Identities = 17/104 (16%), Positives = 39/104 (37%), Gaps = 1/104 (0%)
Query: 14 FGLEEHMSLDFAEYLRELTRAQFVSNNKFTIEEEETLKKNLASLKRLSEDIYNK-KYPRT 72
F ++ + L + N I E+ +K L ++++S+ Y+K P
Sbjct: 151 FKDYAVSTVPVVDALHLKSFCSMAGPNLIAIGSSESAQKALKIMQQMSDHRYDKLTVPDD 210
Query: 73 FQTSASGLNDSSDDVTMIDMTYGDGNHTRLILENIGNVKVICLD 116
+ LN S ++ T + + + E + + +I +
Sbjct: 211 TAANCIYLNIPSKGHVLLHRTPEEYPESAKVYEKLKDHMLIPVS 254
>2p35_A Trans-aconitate 2-methyltransferase; SAM dependent methyltrans
agrobacterium tumefaciens, structural genomics, PSI-2;
HET: SAH; 1.95A {Agrobacterium tumefaciens str}
Length = 259
Score = 29.8 bits (67), Expect = 1.5
Identities = 12/37 (32%), Positives = 17/37 (45%)
Query: 95 GDGNHTRLILENIGNVKVICLDRDKESFEKAKTLAAN 131
G GN T L+ + G + +D D + EKA N
Sbjct: 43 GPGNSTELLTDRYGVNVITGIDSDDDMLEKAADRLPN 79
>3nyb_A Poly(A) RNA polymerase protein 2; polya RNA polymerase, zinc
knuckle protein, RNA surveillance binds to TRF4P/AIR2P
heterodimer; 2.70A {Saccharomyces cerevisiae}
Length = 323
Score = 29.7 bits (66), Expect = 1.6
Identities = 16/94 (17%), Positives = 39/94 (41%), Gaps = 1/94 (1%)
Query: 35 QFVSNNKFTIEEEETLKKNLASLKRLSEDIYNKKYPRTFQTSASGLNDSSDDVTMIDMTY 94
FV+ + EE E + +++++ + ++ F + ++ L D+ + +
Sbjct: 27 DFVAYISPSREEIEIRNQTISTIREAVKQLWPDADLHVFGSYSTDLYLPGSDIDCVVTSE 86
Query: 95 GDGNHTRLILENIGNV-KVICLDRDKESFEKAKT 127
G +R L ++ + K L + E KA+
Sbjct: 87 LGGKESRNNLYSLASHLKKKNLATEVEVVAKARV 120
>3jwg_A HEN1, methyltransferase type 12; 1.90A {Clostridium thermocellum}
PDB: 3jwi_A
Length = 219
Score = 29.2 bits (65), Expect = 2.0
Identities = 16/77 (20%), Positives = 31/77 (40%)
Query: 88 TMIDMTYGDGNHTRLILENIGNVKVICLDRDKESFEKAKTLAANDPRLVPVYGKFSDLPN 147
+ID+ G+GN L+L++ ++ +D E+AK D + S +
Sbjct: 32 KVIDLGCGEGNLLSLLLKDKSFEQITGVDVSYSVLERAKDRLKIDRLPEMQRKRISLFQS 91
Query: 148 ILKNMNNNFNSIDGIIM 164
L + F+ D +
Sbjct: 92 SLVYRDKRFSGYDAATV 108
>3dou_A Ribosomal RNA large subunit methyltransferase J; cell division,
structural genomics, protein structure initiative, PSI;
HET: SAM; 1.45A {Thermoplasma volcanium}
Length = 191
Score = 28.2 bits (64), Expect = 3.7
Identities = 9/30 (30%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 305 FVNNELNELNYAMIIAEKYLKPEGLLLTKC 334
V+ ++ + M IA +YL+ G +L K
Sbjct: 112 AVSYQIGQR--VMEIAVRYLRNGGNVLLKQ 139
>2g5c_A Prephenate dehydrogenase; TYRA, oxidoreductase; HET: NAD; 1.90A
{Aquifex aeolicus} SCOP: a.100.1.12 c.2.1.6
Length = 281
Score = 28.3 bits (64), Expect = 3.9
Identities = 14/74 (18%), Positives = 21/74 (28%), Gaps = 18/74 (24%)
Query: 109 NVKVICLDRDKESFEKAKTL-----AANDPRLVPVYGKFSDL----------PNILKNMN 153
K+ D + ES KA L V + D I K ++
Sbjct: 26 KGKIYGYDINPESISKAVDLGIIDEGTTSIAKVEDFS--PDFVMLSSPVRTFREIAKKLS 83
Query: 154 NNFNSIDGIIMDVG 167
+ D + D G
Sbjct: 84 YILSE-DATVTDQG 96
>2f1k_A Prephenate dehydrogenase; tyrosine synthesis, X-RA crystallography
structure, oxidoreductase; HET: OMT NAP; 1.55A
{Synechocystis SP} SCOP: a.100.1.12 c.2.1.6
Length = 279
Score = 28.3 bits (64), Expect = 3.9
Identities = 13/74 (17%), Positives = 25/74 (33%), Gaps = 20/74 (27%)
Query: 109 NVKVICLDRDKESFEKAKTL-----AANDPRLV----------PVYGKFSDLPNILKNMN 153
+I + R + + EKA A D L+ P+ + L+ +
Sbjct: 23 GHYLIGVSRQQSTCEKAVERQLVDEAGQDLSLLQTAKIIFLCTPI----QLILPTLEKLI 78
Query: 154 NNFNSIDGIIMDVG 167
+ + I+ DV
Sbjct: 79 PHLSP-TAIVTDVA 91
>3ggo_A Prephenate dehydrogenase; TYRA, HPP, NADH, alpha-beta,
oxidoreductase; HET: NAI ENO; 2.15A {Aquifex aeolicus}
PDB: 3ggg_D* 3ggp_A*
Length = 314
Score = 28.4 bits (64), Expect = 4.0
Identities = 14/74 (18%), Positives = 21/74 (28%), Gaps = 18/74 (24%)
Query: 109 NVKVICLDRDKESFEKAKTL-----AANDPRLVPVYGKFSDL----------PNILKNMN 153
K+ D + ES KA L V + D I K ++
Sbjct: 58 KGKIYGYDINPESISKAVDLGIIDEGTTSIAKVEDFS--PDFVMLSSPVRTFREIAKKLS 115
Query: 154 NNFNSIDGIIMDVG 167
+ D + D G
Sbjct: 116 YILSE-DATVTDQG 128
>3fak_A Esterase/lipase, ESTE5; HSL, hydrolase; 1.90A {Uncultured
bacterium} PDB: 3g9t_A 3g9u_A 3g9z_A 3h17_A* 3h18_A*
3h19_A 3h1a_A 3h1b_A 3l1h_A 3l1i_A 3l1j_A 3v9a_A
Length = 322
Score = 28.4 bits (64), Expect = 4.2
Identities = 6/20 (30%), Positives = 8/20 (40%)
Query: 130 ANDPRLVPVYGKFSDLPNIL 149
A P P + LP +L
Sbjct: 225 AKHPYASPNFANLKGLPPLL 244
>3i9f_A Putative type 11 methyltransferase; structural genomics, PSI-2,
protein structure initiative; 2.50A {Sulfolobus
solfataricus}
Length = 170
Score = 27.7 bits (62), Expect = 4.4
Identities = 13/70 (18%), Positives = 28/70 (40%), Gaps = 15/70 (21%)
Query: 95 GDGNHTRLILENIGNVKVICLDRDKESFEKAKTLAANDPRLVPVYGKFSDLPNILKNMNN 154
G+G + + +LE K+ C+D + + ++ K + V + +
Sbjct: 27 GNGFYCKYLLEFAT--KLYCIDINVIALKEVK------EKFDSVITLSDPKE--IPD--- 73
Query: 155 NFNSIDGIIM 164
NS+D I+
Sbjct: 74 --NSVDFILF 81
>3k6k_A Esterase/lipase; alpha/beta hydrolase fold; 2.20A {Uncultured
bacterium} PDB: 3dnm_A
Length = 322
Score = 28.4 bits (64), Expect = 4.5
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 130 ANDPRLVPVYGKFSDLP 146
+P + PVY S LP
Sbjct: 225 RKNPLISPVYADLSGLP 241
>3m70_A Tellurite resistance protein TEHB homolog; structural genomics,
PSI-2, protein ST initiative; 1.95A {Haemophilus
influenzae}
Length = 286
Score = 28.0 bits (62), Expect = 5.4
Identities = 12/79 (15%), Positives = 26/79 (32%), Gaps = 9/79 (11%)
Query: 88 TMIDMTYGDGNHTRLILENIGNVKVICLDRDKESFEKAKTLAANDPRLVPVYGKFSDLPN 147
++D+ G G ++ + V D ++ S + + D+
Sbjct: 123 KVLDLGCGQGRNSLYLSLL--GYDVTSWDHNENSIAFLNETKEK--ENLNISTALYDINA 178
Query: 148 ILKNMNNNFNSIDGIIMDV 166
N+ N+ D I+ V
Sbjct: 179 A--NIQENY---DFIVSTV 192
>2wwb_A Protein transport protein SEC61 subunit alpha ISO; ribosome,
protein EXIT tunnel, cotranslational protein
translocation, protein conducting channel; 6.48A {Canis
lupus familiaris}
Length = 476
Score = 28.0 bits (62), Expect = 5.7
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 136 VPVYG-KFSDLPNILKNMNNNFNSIDGIIMDVGIS 169
+P++G SD + M S G +M++GIS
Sbjct: 48 IPLFGIMSSDSADPFYWMRVILASNRGTLMELGIS 82
>2plw_A Ribosomal RNA methyltransferase, putative; malaria, SAM, structural
genomics, structural genomics consortium, SGC; HET: SAM;
1.70A {Plasmodium falciparum}
Length = 201
Score = 27.6 bits (62), Expect = 6.8
Identities = 6/30 (20%), Positives = 10/30 (33%), Gaps = 2/30 (6%)
Query: 305 FVNNELNELNYAMIIAEKYLKPEGLLLTKC 334
+ EL E+Y+ G + K
Sbjct: 127 LNSCELTLS--ITHFMEQYINIGGTYIVKM 154
>1i4w_A Mitochondrial replication protein MTF1; mitochondrial transcription
factor, transcription initiation; 2.60A {Saccharomyces
cerevisiae} SCOP: c.66.1.24
Length = 353
Score = 28.0 bits (62), Expect = 7.1
Identities = 4/39 (10%), Positives = 11/39 (28%)
Query: 95 GDGNHTRLILENIGNVKVICLDRDKESFEKAKTLAANDP 133
G G + + + L++ ++ P
Sbjct: 68 GVGIQSAIFYNKYCPRQYSLLEKRSSLYKFLNAKFEGSP 106
>3o5v_A X-Pro dipeptidase; creatinase, N-terminal, PSI, MCSG, structural G
midwest center for structural genomics; 1.85A
{Streptococcus pyogenes m1 gas}
Length = 132
Score = 26.6 bits (59), Expect = 7.5
Identities = 8/36 (22%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 4 SVLPGPSSTQFGLE-EHMSLDFAEYLRELTRAQFVS 38
+VLP ++ E +H++++ L+ + QF +
Sbjct: 88 AVLPNTAAKTIYAEFDHLNVNKFHGLQTIFSGQFNN 123
>2nyu_A Putative ribosomal RNA methyltransferase 2; SAM, structural
genomics, structural genomics consortium, SGC; HET: SAM;
1.76A {Homo sapiens}
Length = 196
Score = 27.1 bits (61), Expect = 8.1
Identities = 6/30 (20%), Positives = 9/30 (30%), Gaps = 2/30 (6%)
Query: 305 FVNNELNELNYAMIIAEKYLKPEGLLLTKC 334
L + + L+P G L K
Sbjct: 118 DRLISLCLT--LLSVTPDILQPGGTFLCKT 145
>3b1f_A Putative prephenate dehydrogenase; enzyme, 4-hydroxyphenylpyruvate,
oxidative decarboxylation pathway, tyrosine
biosynthesis, oxidoreduct; HET: NAD; 2.10A
{Streptococcus mutans} PDB: 3dzb_A
Length = 290
Score = 27.5 bits (62), Expect = 8.2
Identities = 14/75 (18%), Positives = 26/75 (34%), Gaps = 20/75 (26%)
Query: 109 NVKVICLDRDKESFEKAKTL-----AANDPRL-----------VPVYGKFSDLPNILKNM 152
+ K++ +R S + A A D ++ VP+ + +K +
Sbjct: 31 HYKIVGYNRSDRSRDIALERGIVDEATADFKVFAALADVIILAVPI----KKTIDFIKIL 86
Query: 153 NNNFNSIDGIIMDVG 167
+ D II D G
Sbjct: 87 ADLDLKEDVIITDAG 101
>1ej0_A FTSJ; methyltransferase, adoMet, adenosyl methionine, heat shock
proteins, 23S ribosomal RNA; HET: SAM; 1.50A
{Escherichia coli} SCOP: c.66.1.2 PDB: 1eiz_A*
Length = 180
Score = 26.7 bits (60), Expect = 9.9
Identities = 8/30 (26%), Positives = 11/30 (36%), Gaps = 2/30 (6%)
Query: 305 FVNNELNELNYAMIIAEKYLKPEGLLLTKC 334
L EL A+ + L P G + K
Sbjct: 109 PRAMYLVEL--ALEMCRDVLAPGGSFVVKV 136
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
0.314 0.130 0.362
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,027,735
Number of extensions: 362755
Number of successful extensions: 800
Number of sequences better than 10.0: 1
Number of HSP's gapped: 777
Number of HSP's successfully gapped: 53
Length of query: 413
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 317
Effective length of database: 4,021,377
Effective search space: 1274776509
Effective search space used: 1274776509
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 58 (26.0 bits)