RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16867
(275 letters)
>3riy_A NAD-dependent deacetylase sirtuin-5; desuccinylase, demalonylase,
posttranslational modification, binding domain, rossmann
fold domain; HET: SLL NAD; 1.55A {Homo sapiens} PDB:
3rig_A* 2b4y_A* 2nyr_A*
Length = 273
Score = 273 bits (700), Expect = 2e-92
Identities = 66/230 (28%), Positives = 110/230 (47%), Gaps = 19/230 (8%)
Query: 26 SDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRRV 85
S + ++F K I++++GAG+S ESG+P +R G G + + L
Sbjct: 9 SSMADFRKFFAKAKHIVIISGAGVSAESGVPTFRGAG-GYWRKWQ--AQDLATPLAFAHN 65
Query: 86 RIRYWARNFVGWPRFSSFQPNANHYALKQMEDNE----KLSYIITQNVDGLHYKAGNKKV 141
R W S +PNA H A+ + E + +ITQN+D LH KAG K +
Sbjct: 66 PSRVWEFYHYRREVMGSKEPNAGHRAIAECETRLGKQGRRVVVITQNIDELHRKAGTKNL 125
Query: 142 IEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHV 201
+E+HG+ F+ C C + +K +P S + P+ + + +I +
Sbjct: 126 LEIHGSLFKTRCTSCGVVAENYK--------SPICPALSGKGAPEPGTQ--DASIPVEKL 175
Query: 202 PQCPH--CHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV 249
P+C C G L+P +V+FG+N+ +E++D + CD LV+G+S V
Sbjct: 176 PRCEEAGCGGLLRPHVVWFGENLDPAILEEVDRELAHCDLCLVVGTSSVV 225
>1yc5_A NAD-dependent deacetylase; SIR2, sirtuin, SIR2TM, SIRT1,
nicotinamide, hydrolase; HET: ALY; 1.40A {Thermotoga
maritima} SCOP: c.31.1.5 PDB: 2h2d_A* 2h2f_A 2h2g_A*
2h2h_A* 2h2i_A* 2h4f_A* 2h4j_A* 3d4b_A* 3d81_A* 3pdh_A*
2h4h_A* 3jr3_A* 2h59_A*
Length = 246
Score = 258 bits (661), Expect = 6e-87
Identities = 61/235 (25%), Positives = 101/235 (42%), Gaps = 37/235 (15%)
Query: 28 INKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRRVRI 87
+ + + + + +TGAGIST SGIPD+R G+Y + + F
Sbjct: 3 MKEFLDLLNESRLTVTLTGAGISTPSGIPDFRGPN-GIYKKYSQNVFDIDFFYSHPE--- 58
Query: 88 RYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGNKKVIEMHGT 147
++ G +PN H L ++E+ + +ITQN+D LH +AG+KKVIE+HG
Sbjct: 59 EFYRFAKEGIFPMLQAKPNLAHVLLAKLEEKGLIEAVITQNIDRLHQRAGSKKVIELHGN 118
Query: 148 AFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVPQCPHC 207
C+ C+ + + + VP C C
Sbjct: 119 VEEYYCVRCEKKYTVEDVI---------------------------KKLESSDVPLCDDC 151
Query: 208 HGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV------PILVKEH 256
+ ++P+IVFFG+N+P+ + + L ++VLGSSL V P++
Sbjct: 152 NSLIRPNIVFFGENLPQDALREAIGLSSRASLMIVLGSSLVVYPAAELPLITVRS 206
>3u31_A SIR2A, transcriptional regulatory protein SIR2 homologue;
Zn-binding domain, rossmann fold domain; HET: MYK NAD;
2.20A {Plasmodium falciparum} PDB: 3u3d_A* 3jwp_A*
Length = 290
Score = 252 bits (646), Expect = 5e-84
Identities = 57/261 (21%), Positives = 105/261 (40%), Gaps = 36/261 (13%)
Query: 5 VPPDVTSRSISFI---PKHKPVEESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSE 61
+ S+ + K + + +L + I+K ++ +TG+G S ES IP +R
Sbjct: 9 GGQQMGRGSMGNLMISFLKKDTQSITLEELAKIIKKCKHVVALTGSGTSAESNIPSFRGS 68
Query: 62 GVGLYARSDKRPVQFQDFLKSRRVRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKL 121
++++ D P + + + W + N H AL +E L
Sbjct: 69 SNSIWSKYD--PRIYGTIWGFWKYPEKIWEV-IRDISSDYEIEINNGHVALSTLESLGYL 125
Query: 122 SYIITQNVDGLHYKAGNKKVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQ 181
++TQNVDGLH +GN KVI +HG F +C C+ + +
Sbjct: 126 KSVVTQNVDGLHEASGNTKVISLHGNVFEAVCCTCNKIVKLN------------------ 167
Query: 182 EMRPDGDVEMSEETISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVL 241
+ + + + +P C G KP+I+ FG+ + +++ + + CD +L
Sbjct: 168 ------KIMLQKTSHFMHQLPPECPCGGIFKPNIILFGEVVSSDLLKEAEEEIAKCDLLL 221
Query: 242 VLGSSLTV------PILVKEH 256
V+G+S TV +
Sbjct: 222 VIGTSSTVSTATNLCHFACKK 242
>2hjh_A NAD-dependent histone deacetylase SIR2; protein, sirtuin,
acetyl-ADP-ribose, nicotinamide, hydrolase; HET: XYQ;
1.85A {Saccharomyces cerevisiae}
Length = 354
Score = 241 bits (617), Expect = 6e-79
Identities = 63/248 (25%), Positives = 106/248 (42%), Gaps = 19/248 (7%)
Query: 18 PKHKPVEESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQ 77
+ + I+ Q + KILV+TGAG+ST GIPD+RS G Y++ +
Sbjct: 26 TRLRLSNFFTIDHFIQKLHTARKILVLTGAGVSTSLGIPDFRSSE-GFYSKIKHLGLDDP 84
Query: 78 DFLKSRRV-----RIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGL 132
+ + + + Y N V P + H +K ++ KL TQN+D L
Sbjct: 85 QDVFNYNIFMHDPSVFYNIANMVLPPEK---IYSPLHSFIKMLQMKGKLLRNYTQNIDNL 141
Query: 133 HYKAG--NKKVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLN----PDLMIESQEMRPD 186
AG K+++ HG+ C+ C + + + + +L P + +E P+
Sbjct: 142 ESYAGISTDKLVQCHGSFATATCVTCHWNLPGERIFNKIRNLELPLCPYCYKKRREYFPE 201
Query: 187 GDVEMS----EETISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLV 242
G + P + +G LKPDI FFG+ +P + I + CD ++
Sbjct: 202 GYNNKVGVAASQGSMSERPPYILNSYGVLKPDITFFGEALPNKFHKSIREDILECDLLIC 261
Query: 243 LGSSLTVP 250
+G+SL V
Sbjct: 262 IGTSLKVA 269
>1ma3_A SIR2-AF2, transcriptional regulatory protein, SIR2 family;
enzyme-substrate complex, protein binding,
transcription; HET: ALY MES; 2.00A {Archaeoglobus
fulgidus} SCOP: c.31.1.5 PDB: 1s7g_A* 1yc2_A*
Length = 253
Score = 235 bits (602), Expect = 8e-78
Identities = 69/239 (28%), Positives = 114/239 (47%), Gaps = 38/239 (15%)
Query: 25 ESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRR 84
E +I K + + K +V TGAGIS ESGIP +R E GL+ + D P + +R
Sbjct: 2 EDEIRKAAEILAKSKHAVVFTGAGISAESGIPTFRGED-GLWRKYD--PEEVASISGFKR 58
Query: 85 VRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGNKKVIEM 144
+W + + + +PN HYA+ ++E + +ITQN+D LH +AG+++V+E+
Sbjct: 59 NPRAFWEFSMEMKDKLFA-EPNPAHYAIAELERMGIVKAVITQNIDMLHQRAGSRRVLEL 117
Query: 145 HGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVPQC 204
HG+ ++ CL C D +F E +K +P+C
Sbjct: 118 HGSMDKLDCLDCHETYDWSEFV---------------------------EDFNKGEIPRC 150
Query: 205 PHCHGD-LKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV------PILVKEH 256
C +KP +V FG+ +P+ + + + CD +V+GSSL V P + K+
Sbjct: 151 RKCGSYYVKPRVVLFGEPLPQRTLFEAIEEAKHCDAFMVVGSSLVVYPAAELPYIAKKA 209
>3k35_A NAD-dependent deacetylase sirtuin-6; rossmann fold, Zn-binding
domain, structural genomics, struc genomics consortium,
SGC, ADP-ribosylation; HET: APR; 2.00A {Homo sapiens}
Length = 318
Score = 231 bits (591), Expect = 2e-75
Identities = 58/240 (24%), Positives = 96/240 (40%), Gaps = 46/240 (19%)
Query: 25 ESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRR 84
E + +L + + + + ++ TGAGIST SGIPD+R G++ ++
Sbjct: 31 ERKVWELARLVWQSSSVVFHTGAGISTASGIPDFRGPH-GVWTMEER------------- 76
Query: 85 VRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGN--KKVI 142
A F F S +P H AL Q+E L ++++QNVDGLH ++G K+
Sbjct: 77 ----GLAPKF--DTTFESARPTQTHMALVQLERVGLLRFLVSQNVDGLHVRSGFPRDKLA 130
Query: 143 EMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVP 202
E+HG F C C + R + +
Sbjct: 131 ELHGNMFVEECAKCKTQYVRDTVVGTMGLKATG------------------RLCTVAKAR 172
Query: 203 QCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV------PILVKEH 256
C G+L+ I+ + D++P + D R+ D + LG+SL + P+ K
Sbjct: 173 GLRACRGELRDTILDWEDSLPDRDLALADEASRNADLSITLGTSLQIRPSGNLPLATKRR 232
>3pki_A NAD-dependent deacetylase sirtuin-6; ADP ribose, structural
genomics, structural genomics consortium, SGC,
hydrolase; HET: AR6; 2.04A {Homo sapiens} PDB: 3pkj_A*
Length = 355
Score = 228 bits (584), Expect = 6e-74
Identities = 58/240 (24%), Positives = 96/240 (40%), Gaps = 46/240 (19%)
Query: 25 ESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRR 84
E + +L + + + + ++ TGAGIST SGIPD+R G++ ++
Sbjct: 31 ERKVWELARLVWQSSSVVFHTGAGISTASGIPDFRGPH-GVWTMEER------------- 76
Query: 85 VRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGN--KKVI 142
A F F S +P H AL Q+E L ++++QNVDGLH ++G K+
Sbjct: 77 ----GLAPKF--DTTFESARPTQTHMALVQLERVGLLRFLVSQNVDGLHVRSGFPRDKLA 130
Query: 143 EMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVP 202
E+HG F C C + R + +
Sbjct: 131 ELHGNMFVEECAKCKTQYVRDTVVGTMGLKATG------------------RLCTVAKAR 172
Query: 203 QCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV------PILVKEH 256
C G+L+ I+ + D++P + D R+ D + LG+SL + P+ K
Sbjct: 173 GLRACRGELRDTILDWEDSLPDRDLALADEASRNADLSITLGTSLQIRPSGNLPLATKRR 232
>1m2k_A Silent information regulator 2; protein-ligand complex, gene
regulation; HET: APR; 1.47A {Archaeoglobus fulgidus}
SCOP: c.31.1.5 PDB: 1m2g_A* 1m2h_A* 1m2j_A* 1m2n_A*
1ici_A*
Length = 249
Score = 213 bits (545), Expect = 3e-69
Identities = 62/233 (26%), Positives = 103/233 (44%), Gaps = 39/233 (16%)
Query: 30 KLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRRVRIRY 89
KL + I + ++ +TGAG+S ESGIP +R + GL+ R P + + + +
Sbjct: 4 KLLKTIAESKYLVALTGAGVSAESGIPTFRGKD-GLWNRYR--PEELANPQAFAKDPEKV 60
Query: 90 WARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGNKKVIEMHGTAF 149
W + + QPN H A ++E L +ITQNVD LH +AG++ VI +HG+
Sbjct: 61 WKWYAWRMEKVFNAQPNKAHQAFAELERLGVLKCLITQNVDDLHERAGSRNVIHLHGSLR 120
Query: 150 RVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVPQCPHCHG 209
V C C+ + KI +P+C C
Sbjct: 121 VVRCTSCNNSFEVESAPKIPP------------------------------LPKCDKCGS 150
Query: 210 DLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV------PILVKEH 256
L+P +V+ G+ +P +++ V D ++V G+S V P++VK+
Sbjct: 151 LLRPGVVWAGEMLPPDVLDRAMREVERADVIIVAGTSAVVQPAASLPLIVKQR 203
>3glr_A NAD-dependent deacetylase sirtuin-3, mitochondria; NAD dependent
deacetylase, sirtuin, substrate peptide comple
hydrolase, metal-binding; HET: ALY; 1.80A {Homo sapiens}
PDB: 3gls_A 3glt_A* 3glu_A
Length = 285
Score = 197 bits (503), Expect = 1e-62
Identities = 66/248 (26%), Positives = 105/248 (42%), Gaps = 42/248 (16%)
Query: 24 EESDINKLKQFI--EKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLK 81
+ + + + I +++V+ GAGIST SGIPD+RS G GLY+ + + + + +
Sbjct: 7 GKLSLQDVAELIRARACQRVVVMVGAGISTPSGIPDFRSPGSGLYSNLQQYDLPYPEAIF 66
Query: 82 SRRVRIRYWARNFVGWPR---FSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGN 138
F + +++PN HY L+ + D L + TQN+DGL +G
Sbjct: 67 ELPFFFHNPKP-FFTLAKELYPGNYKPNVTHYFLRLLHDKGLLLRLYTQNIDGLERVSGI 125
Query: 139 --KKVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETI 196
K++E HGT C C ED+ +
Sbjct: 126 PASKLVEAHGTFASATCTVCQRPFP-------GEDI--------------------RADV 158
Query: 197 SKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV------P 250
VP+CP C G +KPDIVFFG+ +P+ + + D +L+LG+SL V
Sbjct: 159 MADRVPRCPVCTGVVKPDIVFFGEPLPQRFLLHVVDF-PMADLLLILGTSLEVEPFASLT 217
Query: 251 ILVKEHAK 258
V+
Sbjct: 218 EAVRSSVP 225
>1j8f_A SIRT2, sirtuin 2, isoform 1, silencing INFO; gene regulation,
transferase; 1.70A {Homo sapiens} SCOP: c.31.1.5
Length = 323
Score = 193 bits (493), Expect = 1e-60
Identities = 63/255 (24%), Positives = 111/255 (43%), Gaps = 45/255 (17%)
Query: 18 PKHKPVEESDINKLKQFI--EKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQ 75
K + ++E + + +++ E+ +++ + GAGIST +GIPD+RS GLY +K +
Sbjct: 21 QKERLLDELTLEGVARYMQSERCRRVICLVGAGISTSAGIPDFRSPSTGLYDNLEKYHLP 80
Query: 76 FQDFLKSRRVRIRYWARN---FVGWPR---FSSFQPNANHYALKQMEDNEKLSYIITQNV 129
+ + + I Y+ ++ F + F+P HY ++ ++D L TQN+
Sbjct: 81 YPEAIFE----ISYFKKHPEPFFALAKELYPGQFKPTICHYFMRLLKDKGLLLRCYTQNI 136
Query: 130 DGLHYKAG--NKKVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDG 187
D L AG + ++E HGT + C+ RH++
Sbjct: 137 DTLERIAGLEQEDLVEAHGTFYTSHCVSASC---RHEY---------------------- 171
Query: 188 DVEMSEETISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSL 247
+ +E I P+C C +KPDIVFFG+++P + D +LV+G+SL
Sbjct: 172 PLSWMKEKIFSEVTPKCEDCQSLVKPDIVFFGESLPARFFSCMQSDFLKVDLLLVMGTSL 231
Query: 248 TV------PILVKEH 256
V
Sbjct: 232 QVQPFASLISKAPLS 246
>1q1a_A HST2 protein; ternary complex, histone deacetylase, 2'-O-ADP
ribose,, gene regulation; HET: ALY OAD; 1.50A
{Saccharomyces cerevisiae} SCOP: c.31.1.5 PDB: 1szd_A*
1szc_A* 2od7_A* 2od9_A* 2qqf_A* 2qqg_A* 1q17_A* 2od2_A*
Length = 289
Score = 191 bits (486), Expect = 6e-60
Identities = 67/263 (25%), Positives = 101/263 (38%), Gaps = 57/263 (21%)
Query: 25 ESDINKLKQFIE--KYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRP------VQF 76
E + K+ ++ K++ + GAGIST GIPD+RS G GLY + V
Sbjct: 5 EMSVRKIAAHMKSNPNAKVIFMVGAGISTSCGIPDFRSPGTGLYHNLARLKLPYPEAVFD 64
Query: 77 QDFLKSRRVRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKA 136
DF +S + A+ +F+P+ HY LK +D + L + TQN+D L +A
Sbjct: 65 VDFFQSDPLPFYTLAKELY----PGNFRPSKFHYLLKLFQDKDVLKRVYTQNIDTLERQA 120
Query: 137 GNK--KVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEE 194
G K +IE HG+ C+GC + L +
Sbjct: 121 GVKDDLIIEAHGSFAHCHCIGCGKVYP-------PQVFKSKLAEHPIK------------ 161
Query: 195 TISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKID-------------HLVRSCDGVL 241
+C C +KP IVFFG+++P E V+
Sbjct: 162 -----DFVKCDVCGELVKPAIVFFGEDLPDSFSETWLNDSEWLREKITTSGKHPQQPLVI 216
Query: 242 VLGSSLTV------PILVKEHAK 258
V+G+SL V P + K
Sbjct: 217 VVGTSLAVYPFASLPEEIPRKVK 239
>1s5p_A NAD-dependent deacetylase; protein deacetylase, SIR2 homologue,
hydrolase; HET: ALY; 1.96A {Escherichia coli} SCOP:
c.31.1.5
Length = 235
Score = 188 bits (479), Expect = 2e-59
Identities = 59/222 (26%), Positives = 91/222 (40%), Gaps = 56/222 (25%)
Query: 40 KILVVTGAGISTESGIPDYRSEGVGLYARSD-----------KRPVQFQDFLKSRRVRIR 88
++LV+TGAGIS ESGI +R+ GL+ + P Q F +RR +++
Sbjct: 3 RVLVLTGAGISAESGIRTFRAAD-GLWEEHRVEDVATPEGFDRDPELVQAFYNARRRQLQ 61
Query: 89 YWARNFVGWPRFSSFQPNANHYALKQMEDNE-KLSYIITQNVDGLHYKAGNKKVIEMHGT 147
QPNA H AL +++D ++TQN+D LH +AGN VI MHG
Sbjct: 62 QP-----------EIQPNAAHLALAKLQDALGDRFLLVTQNIDNLHERAGNTNVIHMHGE 110
Query: 148 AFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVPQCPHC 207
+V C +D D+ P+ C
Sbjct: 111 LLKVRCSQSGQVLD------WTGDVTPE------------------------DKCHCCQF 140
Query: 208 HGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV 249
L+P +V+FG+ M++I + D + +G+S V
Sbjct: 141 PAPLRPHVVWFGEMPL--GMDEIYMALSMADIFIAIGTSGHV 180
>1q14_A HST2 protein; histone deacetylase, hydrolase; 2.50A {Saccharomyces
cerevisiae} SCOP: c.31.1.5
Length = 361
Score = 180 bits (457), Expect = 7e-55
Identities = 67/274 (24%), Positives = 103/274 (37%), Gaps = 57/274 (20%)
Query: 14 ISFIPKHKPVEESDINKLKQFI--EKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDK 71
++ + E + K+ + K++ + GAGIST GIPD+RS G GLY +
Sbjct: 2 MASMSVSTASTEMSVRKIAAHMKSNPNAKVIFMVGAGISTSCGIPDFRSPGTGLYHNLAR 61
Query: 72 RP------VQFQDFLKSRRVRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYII 125
V DF +S + A+ +F+P+ HY LK +D + L +
Sbjct: 62 LKLPYPEAVFDVDFFQSDPLPFYTLAKELY----PGNFRPSKFHYLLKLFQDKDVLKRVY 117
Query: 126 TQNVDGLHYKAGNK--KVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEM 183
TQN+D L +AG K +IE HG+ C+GC + L +
Sbjct: 118 TQNIDTLERQAGVKDDLIIEAHGSFAHCHCIGCGKVYP-------PQVFKSKLAEHPIK- 169
Query: 184 RPDGDVEMSEETISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKID------------ 231
+C C +KP IVFFG+++P E
Sbjct: 170 ----------------DFVKCDVCGELVKPAIVFFGEDLPDSFSETWLNDSEWLREKITT 213
Query: 232 -HLVRSCDGVLVLGSSLTV------PILVKEHAK 258
V+V+G+SL V P + K
Sbjct: 214 SGKHPQQPLVIVVGTSLAVYPFASLPEEIPRKVK 247
>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 = 33.1 bits (75), Expect = 0.13
Identities = 26/108 (24%), Positives = 36/108 (33%), Gaps = 27/108 (25%)
Query: 18 PKHKPVEESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRS-EGVGLYARSDKRPV-- 74
P K VE S +N K VV+G P +S G+ L R K P
Sbjct: 361 PAGKQVEISLVNGAKNL--------VVSGP--------P--QSLYGLNLTLRKAKAPSGL 402
Query: 75 -QFQDFLKSRRVRIRYWARNF--VGWPRFSSFQPNANHYALKQMEDNE 119
Q + R+++ F V P S A+ K + N
Sbjct: 403 DQSRIPFSERKLKFSN---RFLPVASPFHSHLLVPASDLINKDLVKNN 447
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 31.2 bits (70), Expect = 0.26
Identities = 14/69 (20%), Positives = 21/69 (30%), Gaps = 22/69 (31%)
Query: 179 ESQEMRPDGDVEMSEETISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCD 238
+ P+ ++ + CP C P IV + D + C
Sbjct: 10 RAGRRGPNLNIVL-----------TCPEC-KVYPPKIVE--RF------SEGDVVCALC- 48
Query: 239 GVLVLGSSL 247
G LVL L
Sbjct: 49 G-LVLSDKL 56
>2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein,
nucleotide-binding, zinc-binding domain, SOS response,
metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans}
PDB: 2vf8_A*
Length = 842
Score = 31.3 bits (72), Expect = 0.34
Identities = 13/96 (13%), Positives = 30/96 (31%), Gaps = 19/96 (19%)
Query: 138 NKKVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMI-----ESQEMRPDGDVEMS 192
+ V+ ++ + + ++ ES M+
Sbjct: 224 EQPVVPVYPGLTPAETQRALKKKMEPSYMGTFSSARRHVLHTFANTESASMK-------- 275
Query: 193 EETISKFHVPQ-CPHCHGD-LKPDI--VFFGD-NIP 223
+ + + + + CP CHG L+ + V F +I
Sbjct: 276 -KRVQGYMISEECPLCHGKRLRQEALNVTFAGLDIT 310
>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 = 31.4 bits (70), Expect = 0.37
Identities = 7/31 (22%), Positives = 15/31 (48%)
Query: 15 SFIPKHKPVEESDINKLKQFIEKYNKILVVT 45
+I + P E +N + F+ K + L+ +
Sbjct: 532 PYICDNDPKYERLVNAILDFLPKIEENLICS 562
Score = 29.8 bits (66), Expect = 1.1
Identities = 37/348 (10%), Positives = 78/348 (22%), Gaps = 133/348 (38%)
Query: 8 DVTSRSISFIPKHKPVEESDINKLKQFIE--KYNKILVV---TGAGIST-------ESGI 55
D K+ KL+Q + + K +++ G+G + +
Sbjct: 117 DRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176
Query: 56 PDYRSEGV-------------------GLYARSDKRPVQFQDFLKSRRVRI---RYWARN 93
+ L + D D + ++RI + R
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236
Query: 94 FVGWPRF----------------SSF-----------------QPNANHYALKQMEDNEK 120
+ + ++F +A ++ +
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 121 ----------LSYIITQNVDGLHYKA--GNKKVIEMHGTAFRVMCLGCDY--EIDRHKFQ 166
L + L + N + + + + R D ++ K
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT 356
Query: 167 KI----LEDLNPDLMIESQEMR---------PDGDVEMSEETISKFHVPQCPHCHGDLKP 213
I L L P E R P + +S
Sbjct: 357 TIIESSLNVLEPA------EYRKMFDRLSVFPP-SAHIPTILLS---------------- 393
Query: 214 DIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTVPILVKEHAKGYL 261
+ + D I M ++ L + LV++ K
Sbjct: 394 --LIWFDVIKSDVMVVVNKLHKYS--------------LVEKQPKEST 425
Score = 27.5 bits (60), Expect = 6.1
Identities = 30/207 (14%), Positives = 58/207 (28%), Gaps = 71/207 (34%)
Query: 13 SISFIPKHKPVEESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKR 72
SI K K E +++ ++ YN IP SD
Sbjct: 430 SIYLELKVKLENEYALHR--SIVDHYN---------------IPKTFD--------SDDL 464
Query: 73 PVQFQDFLKSRRVRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYI--ITQNVD 130
+ D +Y+ + +G + LK +E E+++ + +
Sbjct: 465 IPPYLD---------QYFY-SHIG-------------HHLKNIEHPERMTLFRMVFLDFR 501
Query: 131 GLHYKAGNKKVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVE 190
L K I TA+ + ++ + D +P E
Sbjct: 502 FLEQK------IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKY-------------E 542
Query: 191 MSEETISKFHVPQC-PHCHGDLKPDIV 216
I F +P+ + D++
Sbjct: 543 RLVNAILDF-LPKIEENLICSKYTDLL 568
>3dma_A Exopolyphosphatase-related protein; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.25A {Bacteroides fragilis}
Length = 343
Score = 30.0 bits (68), Expect = 0.80
Identities = 6/27 (22%), Positives = 17/27 (62%)
Query: 19 KHKPVEESDINKLKQFIEKYNKILVVT 45
K + ++ I+ ++ E+ +KI++V+
Sbjct: 2 LTKVIAQAHIDHFTKWFERADKIVIVS 28
>1qam_A ERMC' methyltransferase; rRNA methyltransferase ERMC', cofactor
analogs; 2.20A {Bacillus subtilis} SCOP: c.66.1.24 PDB:
1qan_A* 1qao_A* 1qaq_A* 2erc_A
Length = 244
Score = 29.8 bits (68), Expect = 0.84
Identities = 8/30 (26%), Positives = 10/30 (33%)
Query: 6 PPDVTSRSISFIPKHKPVEESDINKLKQFI 35
P V S I K + D K F+
Sbjct: 166 KPKVNSSLIRLNRKKSRISHKDKQKYNYFV 195
>1yub_A Ermam, rRNA methyltransferase; MLS antibiotics; NMR {Streptococcus
pneumoniae} SCOP: c.66.1.24
Length = 245
Score = 29.4 bits (67), Expect = 0.93
Identities = 7/32 (21%), Positives = 9/32 (28%)
Query: 6 PPDVTSRSISFIPKHKPVEESDINKLKQFIEK 37
P V S I V + F+ K
Sbjct: 165 KPKVNSVLIKLTRHTTDVPDKYWKLYTYFVSK 196
>1oj7_A Hypothetical oxidoreductase YQHD; structural genomics; HET: NZQ;
2.0A {Escherichia coli} SCOP: e.22.1.2
Length = 408
Score = 29.2 bits (66), Expect = 1.6
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 28 INKLKQFIEKYNKILVVTGAGISTESGIPD 57
I L++ I ++L+ G G ++G+ D
Sbjct: 40 IAGLREQIPHDARVLITYGGGSVKKTGVLD 69
>3zr5_A Galactocerebrosidase; hydrolase, GALC, glycosyl hydrolase, krabbe
disease, TIM BAR lectin domain; HET: NAG; 2.10A {Mus
musculus} PDB: 3zr6_A*
Length = 656
Score = 29.1 bits (64), Expect = 1.7
Identities = 16/137 (11%), Positives = 37/137 (27%), Gaps = 16/137 (11%)
Query: 42 LVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSR---RVRIRYWARNFVGWP 98
L + I T + + R S P ++D +A +
Sbjct: 428 LELEEDEIFTLTTLTTGRKGSYPPPPSSKPFPTNYKDDFNVEYPLFSEAPNFADQTGVFE 487
Query: 99 RFSSFQPNANHYALKQMEDNEKLS--------YIITQNVDGLHYKAGNKKVIEMHGT--- 147
+ + + + + L+Q+ + ++ + + + IE +
Sbjct: 488 YYMNNEDREHRFTLRQVLNQRPITWAADASSTISVIGDHHWTNMTVQCDVYIETPRSGGV 547
Query: 148 --AFRVMCLGCDYEIDR 162
A RV G
Sbjct: 548 FIAGRVNKGGILIRSAT 564
>3gyk_A 27KDA outer membrane protein; APC61738.2, silicibacter pomeroyi
DSS-3, thioredoxin-like, oxidoreductase, structural
genomics, PSI-2; HET: MSE; 1.76A {Silicibacter pomeroyi}
Length = 175
Score = 28.5 bits (64), Expect = 1.8
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 8/39 (20%)
Query: 185 PDGDVEMSEETISKFHVPQCPHC---HGDLKPDIVFFGD 220
P+GDV T+ +F CP+C +++ + +
Sbjct: 20 PEGDV-----TVVEFFDYNCPYCRRAMAEVQGLVDADPN 53
>3u5i_q A0, L10E, 60S acidic ribosomal protein P0; translation, ribosome,
ribosomal R ribosomal protein, STM1; 3.00A
{Saccharomyces cerevisiae} PDB: 3izc_s 3izs_s 3j16_G*
3o5h_M 3jyw_8
Length = 312
Score = 28.9 bits (64), Expect = 1.8
Identities = 9/36 (25%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 17 IPKHKPVEESDINKLKQFIEKYNKILVVTGAGISTE 52
I + K KL++++E+Y + VV +S++
Sbjct: 4 IREKK---AEYFAKLREYLEEYKSLFVVGVDNVSSQ 36
>2bd0_A Sepiapterin reductase; oxidoreductase; HET: NAP BIO; 1.70A
{Chlorobium tepidum} SCOP: c.2.1.2
Length = 244
Score = 27.5 bits (62), Expect = 4.7
Identities = 10/48 (20%), Positives = 15/48 (31%), Gaps = 18/48 (37%)
Query: 39 NKILVVTGAGISTESGI--------------PDYRSEGVGLYARSDKR 72
IL++TGAG GI + L +R+
Sbjct: 2 KHILLITGAG----KGIGRAIALEFARAARHHPDFEPVLVLSSRTAAD 45
>2yxd_A Probable cobalt-precorrin-6Y C(15)-methyltransfer
[decarboxylating]; alpha and beta protein (A/B) class;
HET: MES; 2.30A {Methanocaldococcus jannaschii}
Length = 183
Score = 26.8 bits (60), Expect = 5.4
Identities = 7/45 (15%), Positives = 19/45 (42%), Gaps = 8/45 (17%)
Query: 182 EMRPDGDVEMSEETISKFHVPQC-------PHCHGDLKPDIVFFG 219
+ +E++++ ++KF++ C L+ + F G
Sbjct: 64 DYLDGA-IEVTKQNLAKFNIKNCQIIKGRAEDVLDKLEFNKAFIG 107
>3iz5_S 60S ribosomal protein L18A (L18AE); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 3izr_S 3izc_S 3izs_S
Length = 178
Score = 27.5 bits (60), Expect = 5.6
Identities = 0/25 (0%), Positives = 2/25 (8%)
Query: 28 INKLKQFIEKYNKILVVTGAGISTE 52
+ +
Sbjct: 15 GLPTPTDEHPKIYRMKLWATNEVRA 39
>3tdg_A DSBG, putative uncharacterized protein; thioredoxin fold,
reductase, oxidoreductase; HET: P6G; 2.10A {Helicobacter
pylori}
Length = 273
Score = 27.3 bits (59), Expect = 6.1
Identities = 11/56 (19%), Positives = 19/56 (33%), Gaps = 4/56 (7%)
Query: 157 DYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVPQCPHCHGDLK 212
+ + K I ++ D IE ++ + P CPHC +L
Sbjct: 116 ATQQNSAKLNAIFNEIPADYAIELPSTNAAN----KDKILYIVSDPMCPHCQKELT 167
>2zkr_g 60S acidic ribosomal protein P0; protein-RNA complex, 60S
ribosomal subunit, ribosomal protein/RNA complex; 8.70A
{Canis familiaris}
Length = 317
Score = 27.1 bits (59), Expect = 6.1
Identities = 5/25 (20%), Positives = 12/25 (48%)
Query: 28 INKLKQFIEKYNKILVVTGAGISTE 52
K+ Q ++ Y K +V + ++
Sbjct: 14 FLKIIQLLDDYPKCFIVGADNVGSK 38
>2k5c_A Uncharacterized protein PF0385; structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; NMR {Pyrococcus furiosus}
Length = 95
Score = 25.8 bits (56), Expect = 6.2
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 6/37 (16%)
Query: 203 QCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDG 239
+CP C + F+G +PR EK+ L+ G
Sbjct: 53 KCPVCGEE------FYGKTLPRREAEKVFELLNDFKG 83
>3lp8_A Phosphoribosylamine-glycine ligase; ssgcid, NIH, niaid, SBRI, UW,
emerald biostructures, ALS collaborative
crystallography; 2.15A {Ehrlichia chaffeensis}
Length = 442
Score = 27.1 bits (61), Expect = 6.7
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 11/53 (20%)
Query: 14 ISFIPKHKPVEESDINKLKQFIEKYNKI-LVVTG------AGIS---TESGIP 56
+S + ++ + ++ Q +K KI LVV G G+S TE GI
Sbjct: 58 MSGLADIIDIDINSTIEVIQVCKK-EKIELVVIGPETPLMNGLSDALTEEGIL 109
>4dim_A Phosphoribosylglycinamide synthetase; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
ligase; 2.61A {Anaerococcus prevotii}
Length = 403
Score = 26.9 bits (60), Expect = 7.6
Identities = 5/43 (11%), Positives = 18/43 (41%)
Query: 6 PPDVTSRSISFIPKHKPVEESDINKLKQFIEKYNKILVVTGAG 48
P+ ++ + ++ S+ ++++Q ++ N T
Sbjct: 38 MPNAHKPCLNLADEISYMDISNPDEVEQKVKDLNLDGAATCCL 80
>3gru_A Dimethyladenosine transferase; rossman fold, ribosomal assem
adenosyl-L-methionine, rRNA, methyltransferase,
RNA-binding processing; HET: AMP; 1.60A
{Methanocaldococcus jannaschii} PDB: 3grr_A* 3grv_A*
3gry_A* 3fyd_A 3fyc_A*
Length = 295
Score = 26.8 bits (60), Expect = 7.9
Identities = 6/30 (20%), Positives = 9/30 (30%)
Query: 6 PPDVTSRSISFIPKHKPVEESDINKLKQFI 35
P V S + P + N F+
Sbjct: 190 KPKVYSAIVKIKPNKGKYHIENENFFDDFL 219
>1vq8_G Acidic ribosomal protein P0 homolog; ribosome 50S,
protein-protein complex, RNA-RNA complex, PROT complex,
peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU
SPS; 2.20A {Haloarcula marismortui} SCOP: j.84.1.1 PDB:
1k73_I* 1k8a_I* 1k9m_I* 1kc8_I* 1kd1_I* 1kqs_G* 1m1k_I*
1m90_I* 1n8r_I* 1nji_I* 1q7y_I* 1q81_I* 1q82_I* 1q86_I*
1qvf_G 1qvg_G 1s72_G* 1vq4_G* 1vq5_G* 1vq6_G* ...
Length = 348
Score = 26.7 bits (58), Expect = 8.7
Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 17 IPKHKPVEESDINKLKQFIEKYNKILVVTGAGISTE 52
IP+ K + +++ + + IE Y + VV AGI +
Sbjct: 12 IPEWK---QEEVDAIVEMIESYESVGVVNIAGIPSR 44
>2zhy_A ATP:COB(I)alamin adenosyltransferase, putative; helix bundle; 1.80A
{Burkholderia thailandensis} PDB: 2zhz_A*
Length = 183
Score = 26.3 bits (59), Expect = 9.0
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 17 IPKHKPVEESDINKLKQFIEKYNKIL 42
IP H + ++ + +L ++ YN L
Sbjct: 78 IPGHAAITDAHLARLDGWLAHYNGQL 103
>3it3_A Acid phosphatase; HAP, hydrolase; HET: 3AM; 1.50A {Francisella
tularensis subsp} PDB: 2glc_A 2glb_A 2gla_A 3it0_A*
3it1_A* 3it2_A 2p36_A*
Length = 342
Score = 26.6 bits (58), Expect = 9.0
Identities = 5/45 (11%), Positives = 15/45 (33%), Gaps = 1/45 (2%)
Query: 132 LHYKAGNKKV-IEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPD 175
L+ V + +G ++ + + K ++ +N
Sbjct: 289 LYKDGDIYTVKLRYNGKYVKLPIMDKNNSCSLDALNKYMQSINEK 333
>2rgy_A Transcriptional regulator, LACI family; 11011J, NYSGXRC,
transctiptional regulator, SUG binding protein,
structural genomics, PSI-2; 2.05A {Burkholderia
phymatum}
Length = 290
Score = 26.7 bits (60), Expect = 9.0
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 220 DNIPRHRMEKIDHLV-RSCDGVLVLGSSLTVPILVKEHAKG 259
+E + L+ R CDGV+V+ L L + H
Sbjct: 50 STPREQALEAVRFLIGRDCDGVVVISHDLHDEDLDELHRMH 90
>3a1y_G Acidic ribosomal protein P0; stalk, helix SPIN,
ribonucleoprotein; 2.13A {Pyrococcus horikoshii}
Length = 284
Score = 26.6 bits (58), Expect = 9.7
Identities = 7/45 (15%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 17 IPKHKPVEESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSE 61
+ + K + ++ +L + I+ Y I +V + + + R
Sbjct: 4 VAEWK---KKEVEELAKLIKSYPVIALVDVSSMPAYP-LSQMRRL 44
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 0.139 0.422
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,351,100
Number of extensions: 264203
Number of successful extensions: 1092
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1047
Number of HSP's successfully gapped: 61
Length of query: 275
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 183
Effective length of database: 4,133,061
Effective search space: 756350163
Effective search space used: 756350163
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: 56 (25.4 bits)