RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1452
(268 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 = 274 bits (702), Expect = 8e-93
Identities = 66/230 (28%), Positives = 110/230 (47%), Gaps = 19/230 (8%)
Query: 37 SDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRRV 96
S + ++F K I++++GAG+S ESG+P +R G G + + L
Sbjct: 9 SSMADFRKFFAKAKHIVIISGAGVSAESGVPTFRGAG-GYWRKWQ--AQDLATPLAFAHN 65
Query: 97 RIRYWARNFVGWPRFSSFQPNANHYALKQMEDNE----KLSYIITQNVDGLHYKAGNKKV 152
R W S +PNA H A+ + E + +ITQN+D LH KAG K +
Sbjct: 66 PSRVWEFYHYRREVMGSKEPNAGHRAIAECETRLGKQGRRVVVITQNIDELHRKAGTKNL 125
Query: 153 IEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHV 212
+E+HG+ F+ C C + +K +P S + P+ + + +I +
Sbjct: 126 LEIHGSLFKTRCTSCGVVAENYK--------SPICPALSGKGAPEPGTQ--DASIPVEKL 175
Query: 213 PQCPH--CHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV 260
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 = 257 bits (659), Expect = 1e-86
Identities = 60/222 (27%), Positives = 98/222 (44%), Gaps = 31/222 (13%)
Query: 39 INKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRRVRI 98
+ + + + + +TGAGIST SGIPD+R G+Y + + F
Sbjct: 3 MKEFLDLLNESRLTVTLTGAGISTPSGIPDFRGPN-GIYKKYSQNVFDIDFFYSHPE--- 58
Query: 99 RYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGNKKVIEMHGT 158
++ G +PN H L ++E+ + +ITQN+D LH +AG+KKVIE+HG
Sbjct: 59 EFYRFAKEGIFPMLQAKPNLAHVLLAKLEEKGLIEAVITQNIDRLHQRAGSKKVIELHGN 118
Query: 159 AFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVPQCPHC 218
C+ C+ + + + VP C C
Sbjct: 119 VEEYYCVRCEKKYTVEDVI---------------------------KKLESSDVPLCDDC 151
Query: 219 HGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV 260
+ ++P+IVFFG+N+P+ + + L ++VLGSSL V
Sbjct: 152 NSLIRPNIVFFGENLPQDALREAIGLSSRASLMIVLGSSLVV 193
>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 = 4e-84
Identities = 57/248 (22%), Positives = 104/248 (41%), Gaps = 30/248 (12%)
Query: 16 VPPDVTSRSISFI---PKHKPVEESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSE 72
+ S+ + K + + +L + I+K ++ +TG+G S ES IP +R
Sbjct: 9 GGQQMGRGSMGNLMISFLKKDTQSITLEELAKIIKKCKHVVALTGSGTSAESNIPSFRGS 68
Query: 73 GVGLYARSDKRPVQFQDFLKSRRVRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKL 132
++++ D P + + + W + N H AL +E L
Sbjct: 69 SNSIWSKYD--PRIYGTIWGFWKYPEKIWEV-IRDISSDYEIEINNGHVALSTLESLGYL 125
Query: 133 SYIITQNVDGLHYKAGNKKVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQ 192
++TQNVDGLH +GN KVI +HG F +C C+ + +
Sbjct: 126 KSVVTQNVDGLHEASGNTKVISLHGNVFEAVCCTCNKIVKLN------------------ 167
Query: 193 EMRPDGDVEMSEETISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVL 252
+ + + + +P C G KP+I+ FG+ + +++ + + CD +L
Sbjct: 168 ------KIMLQKTSHFMHQLPPECPCGGIFKPNIILFGEVVSSDLLKEAEEEIAKCDLLL 221
Query: 253 VLGSSLTV 260
V+G+S TV
Sbjct: 222 VIGTSSTV 229
>2hjh_A NAD-dependent histone deacetylase SIR2; protein, sirtuin,
acetyl-ADP-ribose, nicotinamide, hydrolase; HET: XYQ;
1.85A {Saccharomyces cerevisiae}
Length = 354
Score = 240 bits (615), Expect = 1e-78
Identities = 66/266 (24%), Positives = 113/266 (42%), Gaps = 21/266 (7%)
Query: 12 KHFIVPPDVTSRSISFI--PKHKPVEESDINKLKQFIEKYNKILVVTGAGISTESGIPDY 69
K + R+I+ + + + I+ Q + KILV+TGAG+ST GIPD+
Sbjct: 7 KQTVRLIKDLQRAINKVLCTRLRLSNFFTIDHFIQKLHTARKILVLTGAGVSTSLGIPDF 66
Query: 70 RSEGVGLYARSDKRPVQFQDFLKSRRV-----RIRYWARNFVGWPRFSSFQPNANHYALK 124
RS G Y++ + + + + + Y N V P + H +K
Sbjct: 67 RSSE-GFYSKIKHLGLDDPQDVFNYNIFMHDPSVFYNIANMVLPPEK---IYSPLHSFIK 122
Query: 125 QMEDNEKLSYIITQNVDGLHYKAG--NKKVIEMHGTAFRVMCLGCDYEIDRHKFQKILED 182
++ KL TQN+D L AG K+++ HG+ C+ C + + + + +
Sbjct: 123 MLQMKGKLLRNYTQNIDNLESYAGISTDKLVQCHGSFATATCVTCHWNLPGERIFNKIRN 182
Query: 183 LN----PDLMIESQEMRPDGDVEMS----EETISKFHVPQCPHCHGDLKPDIVFFGDNIP 234
L P + +E P+G + P + +G LKPDI FFG+ +P
Sbjct: 183 LELPLCPYCYKKRREYFPEGYNNKVGVAASQGSMSERPPYILNSYGVLKPDITFFGEALP 242
Query: 235 RHRMEKIDHLVRSCDGVLVLGSSLTV 260
+ I + CD ++ +G+SL V
Sbjct: 243 NKFHKSIREDILECDLLICIGTSLKV 268
>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 = 6e-78
Identities = 67/226 (29%), Positives = 110/226 (48%), Gaps = 32/226 (14%)
Query: 36 ESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRR 95
E +I K + + K +V TGAGIS ESGIP +R E GL+ + D P + +R
Sbjct: 2 EDEIRKAAEILAKSKHAVVFTGAGISAESGIPTFRGED-GLWRKYD--PEEVASISGFKR 58
Query: 96 VRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGNKKVIEM 155
+W + + + +PN HYA+ ++E + +ITQN+D LH +AG+++V+E+
Sbjct: 59 NPRAFWEFSMEMKDKLFA-EPNPAHYAIAELERMGIVKAVITQNIDMLHQRAGSRRVLEL 117
Query: 156 HGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVPQC 215
HG+ ++ CL C D +F E +K +P+C
Sbjct: 118 HGSMDKLDCLDCHETYDWSEFV---------------------------EDFNKGEIPRC 150
Query: 216 PHCHGD-LKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV 260
C +KP +V FG+ +P+ + + + CD +V+GSSL V
Sbjct: 151 RKCGSYYVKPRVVLFGEPLPQRTLFEAIEEAKHCDAFMVVGSSLVV 196
>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 (592), Expect = 1e-75
Identities = 56/227 (24%), Positives = 93/227 (40%), Gaps = 40/227 (17%)
Query: 36 ESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRR 95
E + +L + + + + ++ TGAGIST SGIPD+R G++ ++
Sbjct: 31 ERKVWELARLVWQSSSVVFHTGAGISTASGIPDFRGPH-GVWTMEER------------- 76
Query: 96 VRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGN--KKVI 153
A F F S +P H AL Q+E L ++++QNVDGLH ++G K+
Sbjct: 77 ----GLAPKF--DTTFESARPTQTHMALVQLERVGLLRFLVSQNVDGLHVRSGFPRDKLA 130
Query: 154 EMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVP 213
E+HG F C C + R + +
Sbjct: 131 ELHGNMFVEECAKCKTQYVRDTVVGTMGLKATG------------------RLCTVAKAR 172
Query: 214 QCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV 260
C G+L+ I+ + D++P + D R+ D + LG+SL +
Sbjct: 173 GLRACRGELRDTILDWEDSLPDRDLALADEASRNADLSITLGTSLQI 219
>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 = 229 bits (586), Expect = 3e-74
Identities = 56/227 (24%), Positives = 93/227 (40%), Gaps = 40/227 (17%)
Query: 36 ESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRR 95
E + +L + + + + ++ TGAGIST SGIPD+R G++ ++
Sbjct: 31 ERKVWELARLVWQSSSVVFHTGAGISTASGIPDFRGPH-GVWTMEER------------- 76
Query: 96 VRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGN--KKVI 153
A F F S +P H AL Q+E L ++++QNVDGLH ++G K+
Sbjct: 77 ----GLAPKF--DTTFESARPTQTHMALVQLERVGLLRFLVSQNVDGLHVRSGFPRDKLA 130
Query: 154 EMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVP 213
E+HG F C C + R + +
Sbjct: 131 ELHGNMFVEECAKCKTQYVRDTVVGTMGLKATG------------------RLCTVAKAR 172
Query: 214 QCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV 260
C G+L+ I+ + D++P + D R+ D + LG+SL +
Sbjct: 173 GLRACRGELRDTILDWEDSLPDRDLALADEASRNADLSITLGTSLQI 219
>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 = 2e-69
Identities = 59/220 (26%), Positives = 97/220 (44%), Gaps = 33/220 (15%)
Query: 41 KLKQFIEKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRRVRIRY 100
KL + I + ++ +TGAG+S ESGIP +R + GL+ R P + + + +
Sbjct: 4 KLLKTIAESKYLVALTGAGVSAESGIPTFRGKD-GLWNRYR--PEELANPQAFAKDPEKV 60
Query: 101 WARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGNKKVIEMHGTAF 160
W + + QPN H A ++E L +ITQNVD LH +AG++ VI +HG+
Sbjct: 61 WKWYAWRMEKVFNAQPNKAHQAFAELERLGVLKCLITQNVDDLHERAGSRNVIHLHGSLR 120
Query: 161 RVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVPQCPHCHG 220
V C C+ + KI +P+C C
Sbjct: 121 VVRCTSCNNSFEVESAPKIPP------------------------------LPKCDKCGS 150
Query: 221 DLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV 260
L+P +V+ G+ +P +++ V D ++V G+S V
Sbjct: 151 LLRPGVVWAGEMLPPDVLDRAMREVERADVIIVAGTSAVV 190
>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 (502), Expect = 2e-62
Identities = 65/233 (27%), Positives = 103/233 (44%), Gaps = 36/233 (15%)
Query: 35 EESDINKLKQFI--EKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLK 92
+ + + + I +++V+ GAGIST SGIPD+RS G GLY+ + + + + +
Sbjct: 7 GKLSLQDVAELIRARACQRVVVMVGAGISTPSGIPDFRSPGSGLYSNLQQYDLPYPEAIF 66
Query: 93 SRRVRIRYWARNFVGWPR---FSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGN 149
F + +++PN HY L+ + D L + TQN+DGL +G
Sbjct: 67 ELPFFFHNPKP-FFTLAKELYPGNYKPNVTHYFLRLLHDKGLLLRLYTQNIDGLERVSGI 125
Query: 150 --KKVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETI 207
K++E HGT C C ED+ +
Sbjct: 126 PASKLVEAHGTFASATCTVCQRPFP-------GEDI--------------------RADV 158
Query: 208 SKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV 260
VP+CP C G +KPDIVFFG+ +P+ + + D +L+LG+SL V
Sbjct: 159 MADRVPRCPVCTGVVKPDIVFFGEPLPQRFLLHVVDF-PMADLLLILGTSLEV 210
>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 (491), Expect = 2e-60
Identities = 63/242 (26%), Positives = 111/242 (45%), Gaps = 39/242 (16%)
Query: 29 PKHKPVEESDINKLKQFI--EKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQ 86
K + ++E + + +++ E+ +++ + GAGIST +GIPD+RS GLY +K +
Sbjct: 21 QKERLLDELTLEGVARYMQSERCRRVICLVGAGISTSAGIPDFRSPSTGLYDNLEKYHLP 80
Query: 87 FQDFLKSRRVRIRYWARN---FVGWPR---FSSFQPNANHYALKQMEDNEKLSYIITQNV 140
+ + + I Y+ ++ F + F+P HY ++ ++D L TQN+
Sbjct: 81 YPEAIFE----ISYFKKHPEPFFALAKELYPGQFKPTICHYFMRLLKDKGLLLRCYTQNI 136
Query: 141 DGLHYKAG--NKKVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDG 198
D L AG + ++E HGT + C+ RH++
Sbjct: 137 DTLERIAGLEQEDLVEAHGTFYTSHCVSASC---RHEY---------------------- 171
Query: 199 DVEMSEETISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSL 258
+ +E I P+C C +KPDIVFFG+++P + D +LV+G+SL
Sbjct: 172 PLSWMKEKIFSEVTPKCEDCQSLVKPDIVFFGESLPARFFSCMQSDFLKVDLLLVMGTSL 231
Query: 259 TV 260
V
Sbjct: 232 QV 233
>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 (481), Expect = 7e-60
Identities = 59/222 (26%), Positives = 91/222 (40%), Gaps = 56/222 (25%)
Query: 51 KILVVTGAGISTESGIPDYRSEGVGLYARSD-----------KRPVQFQDFLKSRRVRIR 99
++LV+TGAGIS ESGI +R+ GL+ + P Q F +RR +++
Sbjct: 3 RVLVLTGAGISAESGIRTFRAAD-GLWEEHRVEDVATPEGFDRDPELVQAFYNARRRQLQ 61
Query: 100 YWARNFVGWPRFSSFQPNANHYALKQMEDNE-KLSYIITQNVDGLHYKAGNKKVIEMHGT 158
QPNA H AL +++D ++TQN+D LH +AGN VI MHG
Sbjct: 62 QP-----------EIQPNAAHLALAKLQDALGDRFLLVTQNIDNLHERAGNTNVIHMHGE 110
Query: 159 AFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVPQCPHC 218
+V C +D D+ P+ C
Sbjct: 111 LLKVRCSQSGQVLD------WTGDVTPE------------------------DKCHCCQF 140
Query: 219 HGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDGVLVLGSSLTV 260
L+P +V+FG+ M++I + D + +G+S V
Sbjct: 141 PAPLRPHVVWFGEMPL--GMDEIYMALSMADIFIAIGTSGHV 180
>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 = 190 bits (484), Expect = 1e-59
Identities = 65/248 (26%), Positives = 98/248 (39%), Gaps = 51/248 (20%)
Query: 36 ESDINKLKQFIE--KYNKILVVTGAGISTESGIPDYRSEGVGLYARSDKRP------VQF 87
E + K+ ++ K++ + GAGIST GIPD+RS G GLY + V
Sbjct: 5 EMSVRKIAAHMKSNPNAKVIFMVGAGISTSCGIPDFRSPGTGLYHNLARLKLPYPEAVFD 64
Query: 88 QDFLKSRRVRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKA 147
DF +S + A+ +F+P+ HY LK +D + L + TQN+D L +A
Sbjct: 65 VDFFQSDPLPFYTLAKELY----PGNFRPSKFHYLLKLFQDKDVLKRVYTQNIDTLERQA 120
Query: 148 GNK--KVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEE 205
G K +IE HG+ C+GC + L +
Sbjct: 121 GVKDDLIIEAHGSFAHCHCIGCGKVYP-------PQVFKSKLAEHPIK------------ 161
Query: 206 TISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKID-------------HLVRSCDGVL 252
+C C +KP IVFFG+++P E V+
Sbjct: 162 -----DFVKCDVCGELVKPAIVFFGEDLPDSFSETWLNDSEWLREKITTSGKHPQQPLVI 216
Query: 253 VLGSSLTV 260
V+G+SL V
Sbjct: 217 VVGTSLAV 224
>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 = 65/259 (25%), Positives = 100/259 (38%), Gaps = 51/259 (19%)
Query: 25 ISFIPKHKPVEESDINKLKQFI--EKYNKILVVTGAGISTESGIPDYRSEGVGLYARSDK 82
++ + E + K+ + K++ + GAGIST GIPD+RS G GLY +
Sbjct: 2 MASMSVSTASTEMSVRKIAAHMKSNPNAKVIFMVGAGISTSCGIPDFRSPGTGLYHNLAR 61
Query: 83 RP------VQFQDFLKSRRVRIRYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYII 136
V DF +S + A+ +F+P+ HY LK +D + L +
Sbjct: 62 LKLPYPEAVFDVDFFQSDPLPFYTLAKELY----PGNFRPSKFHYLLKLFQDKDVLKRVY 117
Query: 137 TQNVDGLHYKAGNK--KVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMIESQEM 194
TQN+D L +AG K +IE HG+ C+GC + L +
Sbjct: 118 TQNIDTLERQAGVKDDLIIEAHGSFAHCHCIGCGKVYP-------PQVFKSKLAEHPIK- 169
Query: 195 RPDGDVEMSEETISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKID------------ 242
+C C +KP IVFFG+++P E
Sbjct: 170 ----------------DFVKCDVCGELVKPAIVFFGEDLPDSFSETWLNDSEWLREKITT 213
Query: 243 -HLVRSCDGVLVLGSSLTV 260
V+V+G+SL V
Sbjct: 214 SGKHPQQPLVIVVGTSLAV 232
>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 = 39.8 bits (92), Expect = 7e-04
Identities = 41/252 (16%), Positives = 72/252 (28%), Gaps = 84/252 (33%)
Query: 6 IQRLFFKHFIVPPDVTSRSISFIPKH---------KPVEESDI-NKL--KQFIEKYNKIL 53
+++F + + PP IP + + NKL +EK K
Sbjct: 371 YRKMFDRLSVFPPSAH------IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK-- 422
Query: 54 VVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSRRVRIRYWARNFVGWPRFSS 113
+ IP +Y + + ++ R + Y +
Sbjct: 423 -------ESTISIPS-------IY--LELKVKLENEYALHRSIVDHYNIP--------KT 458
Query: 114 FQPNANHYALKQMEDNEKLSYIITQNVDGLHYKAGNKKVIEMHG--TAFRVMCLGCDYEI 171
F + + D S+I G H K IE T FR++ L D+
Sbjct: 459 FDSD---DLIPPYLDQYFYSHI------GHHLKN-----IEHPERMTLFRMVFL--DF-- 500
Query: 172 DRHKF--QKI------------LEDLNPDLMIESQEMRP-DGDVEMSEETISKFHVPQC- 215
+F QKI + + L + D E I F +P+
Sbjct: 501 ---RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF-LPKIE 556
Query: 216 PHCHGDLKPDIV 227
+ D++
Sbjct: 557 ENLICSKYTDLL 568
Score = 36.0 bits (82), Expect = 0.014
Identities = 43/307 (14%), Positives = 82/307 (26%), Gaps = 96/307 (31%)
Query: 2 TTCRIQRLFFKHFIVPPDVTSRSISFIPKHKPVEESDINKLKQFIE--KYNKILVV---T 56
T R + + +I D K+ KL+Q + + K +++
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL 159
Query: 57 GAGIST-------ESGIPDYRSEGV-------------------GLYARSDKRPVQFQDF 90
G+G + + + L + D D
Sbjct: 160 GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH 219
Query: 91 LKSRRVRI---RYWARNFVGWPRFSSFQPNANHYALKQMEDNEKLSYIITQNVDGLHYKA 147
+ ++RI + R + + N ++ NV
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPY----EN---------------CLLVLLNVQ------ 254
Query: 148 GNKKVIEMHGTAFRVMCLGC------------DYEIDRHKFQKILED----LNPD----L 187
N K AF L C D+ L+ L PD L
Sbjct: 255 -NAKAWN----AFN---LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306
Query: 188 MIESQEMRPDGDVEMSEE--TISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLV 245
+++ + RP ++ E T + + + D + DN +K+ ++
Sbjct: 307 LLKYLDCRPQ---DLPREVLTTNPRRLSII----AESIRDGLATWDNWKHVNCDKLTTII 359
Query: 246 RSCDGVL 252
S VL
Sbjct: 360 ESSLNVL 366
Score = 29.4 bits (65), Expect = 1.7
Identities = 26/145 (17%), Positives = 50/145 (34%), Gaps = 32/145 (22%)
Query: 5 RIQRLFFKHFIVPPDVTSRSISFIPKH-KPVEESDINKLKQFIEKY-------NKILVVT 56
I + F ++PP + S I H K +E + ++ F + KI +
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPE--RMTLFRMVFLDFRFLEQKIRHDS 511
Query: 57 GAGISTESGIPD------YRSEGVGLY-ARSDKRPVQ----FQDFL-KSRRVRIRYWARN 104
A ++ S + Y+ Y +D + + DFL K I +
Sbjct: 512 TAWNASGSILNTLQQLKFYKP-----YICDNDPKYERLVNAILDFLPKIEENLICSKYTD 566
Query: 105 FVGWPRFSSFQPNANHY--ALKQME 127
+ R + + + A KQ++
Sbjct: 567 LL---RIALMAEDEAIFEEAHKQVQ 588
>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 = 33.5 bits (76), Expect = 0.083
Identities = 30/162 (18%), Positives = 47/162 (29%), Gaps = 57/162 (35%)
Query: 4 CRIQRLFFKHFIVPPDVTSRSI----------------------SFI-------PKHKPV 34
R + + +PP + S+ ++ P K V
Sbjct: 308 VRCYEAY-PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQV 366
Query: 35 EESDINKLKQFIEKYNKILVVTGAGISTESGIPDYRS-EGVGLYARSDKRPV---QFQDF 90
E S +N K VV+G P +S G+ L R K P Q +
Sbjct: 367 EISLVNGAKNL--------VVSGP--------P--QSLYGLNLTLRKAKAPSGLDQSRIP 408
Query: 91 LKSRRVRIRYWARNF--VGWPRFSSFQPNANHYALKQMEDNE 130
R+++ F V P S A+ K + N
Sbjct: 409 FSERKLKFSN---RFLPVASPFHSHLLVPASDLINKDLVKNN 447
Score = 26.9 bits (59), Expect = 9.1
Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 8/54 (14%)
Query: 92 KSRRVRIRYWARNFV----GWPRFSSFQPNANHYALKQM--EDNEKLSYIITQN 139
K +R+R Y A F G + N ++ + LS TQ
Sbjct: 1680 KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLS--ATQF 1731
>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 = 31.7 bits (73), Expect = 0.19
Identities = 11/46 (23%), Positives = 15/46 (32%), Gaps = 3/46 (6%)
Query: 4 CRIQRLFF---KHFIVPPDVTSRSISFIPKHKPVEESDINKLKQFI 46
I L ++F P V S I K + D K F+
Sbjct: 150 VDISILSMVPREYFHPKPKVNSSLIRLNRKKSRISHKDKQKYNYFV 195
>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 = 31.7 bits (73), Expect = 0.27
Identities = 13/96 (13%), Positives = 30/96 (31%), Gaps = 19/96 (19%)
Query: 149 NKKVIEMHGTAFRVMCLGCDYEIDRHKFQKILEDLNPDLMI-----ESQEMRPDGDVEMS 203
+ V+ ++ + + ++ ES M+
Sbjct: 224 EQPVVPVYPGLTPAETQRALKKKMEPSYMGTFSSARRHVLHTFANTESASMK-------- 275
Query: 204 EETISKFHVPQ-CPHCHGD-LKPDI--VFFGD-NIP 234
+ + + + + CP CHG L+ + V F +I
Sbjct: 276 -KRVQGYMISEECPLCHGKRLRQEALNVTFAGLDIT 310
>1yub_A Ermam, rRNA methyltransferase; MLS antibiotics; NMR {Streptococcus
pneumoniae} SCOP: c.66.1.24
Length = 245
Score = 31.0 bits (71), Expect = 0.29
Identities = 11/48 (22%), Positives = 15/48 (31%), Gaps = 3/48 (6%)
Query: 4 CRIQRLFF---KHFIVPPDVTSRSISFIPKHKPVEESDINKLKQFIEK 48
IQ+L + F P V S I V + F+ K
Sbjct: 149 VSIQQLLKLPAECFHPKPKVNSVLIKLTRHTTDVPDKYWKLYTYFVSK 196
>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 = 30.0 bits (67), Expect = 0.54
Identities = 14/69 (20%), Positives = 21/69 (30%), Gaps = 22/69 (31%)
Query: 190 ESQEMRPDGDVEMSEETISKFHVPQCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCD 249
+ P+ ++ + CP C P IV + D + C
Sbjct: 10 RAGRRGPNLNIVL-----------TCPEC-KVYPPKIVE--RF------SEGDVVCALC- 48
Query: 250 GVLVLGSSL 258
G LVL L
Sbjct: 49 G-LVLSDKL 56
>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 = 0.82
Identities = 6/27 (22%), Positives = 17/27 (62%)
Query: 30 KHKPVEESDINKLKQFIEKYNKILVVT 56
K + ++ I+ ++ E+ +KI++V+
Sbjct: 2 LTKVIAQAHIDHFTKWFERADKIVIVS 28
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 29.6 bits (67), Expect = 0.97
Identities = 24/120 (20%), Positives = 43/120 (35%), Gaps = 24/120 (20%)
Query: 6 IQRLFFKHFIVP-PDVTSRS--ISFIPKHKPVE--ESDINKLKQFIEKYN----KILVVT 56
R F K V PD +R ++ + + + + +L + + Y+ L
Sbjct: 176 ALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKD 235
Query: 57 GAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKS-RRVR--------IRY--WARNF 105
A I + E V S R + QDF S +R+R Y W++++
Sbjct: 236 AALEP----IRELNVEQVKCLDISAMRAITEQDFHSSLKRIRRSVAPQSLNSYEKWSQDY 291
>4dim_A Phosphoribosylglycinamide synthetase; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
ligase; 2.61A {Anaerococcus prevotii}
Length = 403
Score = 29.6 bits (67), Expect = 1.1
Identities = 5/50 (10%), Positives = 18/50 (36%)
Query: 10 FFKHFIVPPDVTSRSISFIPKHKPVEESDINKLKQFIEKYNKILVVTGAG 59
P+ ++ + ++ S+ ++++Q ++ N T
Sbjct: 31 IHTIAGTMPNAHKPCLNLADEISYMDISNPDEVEQKVKDLNLDGAATCCL 80
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 29.4 bits (66), Expect = 1.3
Identities = 20/102 (19%), Positives = 44/102 (43%), Gaps = 14/102 (13%)
Query: 6 IQRLFFKHFIVP-PDVTSRSISF---IPKHK-PVEESDINKLKQFIEKYN----KILVVT 56
+ R F K V P+ +R + + K P+ + ++ +L + + Y+ L
Sbjct: 269 VLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKD 328
Query: 57 GAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKS-RRVR 97
A I + + E V + S+ R ++ DF +S ++++
Sbjct: 329 AALGP----IRELKPEQVKNMSASEMRNIRLSDFTESLKKIK 366
>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 = 1.4
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 39 INKLKQFIEKYNKILVVTGAGISTESGIPD 68
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 = 29.5 bits (65), Expect = 1.5
Identities = 16/137 (11%), Positives = 37/137 (27%), Gaps = 16/137 (11%)
Query: 53 LVVTGAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKSR---RVRIRYWARNFVGWP 109
L + I T + + R S P ++D +A +
Sbjct: 428 LELEEDEIFTLTTLTTGRKGSYPPPPSSKPFPTNYKDDFNVEYPLFSEAPNFADQTGVFE 487
Query: 110 RFSSFQPNANHYALKQMEDNEKLS--------YIITQNVDGLHYKAGNKKVIEMHGT--- 158
+ + + + + L+Q+ + ++ + + + IE +
Sbjct: 488 YYMNNEDREHRFTLRQVLNQRPITWAADASSTISVIGDHHWTNMTVQCDVYIETPRSGGV 547
Query: 159 --AFRVMCLGCDYEIDR 173
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 = 1.6
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 8/39 (20%)
Query: 196 PDGDVEMSEETISKFHVPQCPHC---HGDLKPDIVFFGD 231
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 = 1.7
Identities = 9/36 (25%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 28 IPKHKPVEESDINKLKQFIEKYNKILVVTGAGISTE 63
I + K KL++++E+Y + VV +S++
Sbjct: 4 IREKK---AEYFAKLREYLEEYKSLFVVGVDNVSSQ 36
>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 = 28.7 bits (65), Expect = 2.0
Identities = 7/46 (15%), Positives = 13/46 (28%), Gaps = 3/46 (6%)
Query: 4 CRIQRLFF---KHFIVPPDVTSRSISFIPKHKPVEESDINKLKQFI 46
++ + F P V S + P + N F+
Sbjct: 174 ADVEIVAKVPPSAFYPKPKVYSAIVKIKPNKGKYHIENENFFDDFL 219
>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural
genomics consortium, ATP- hydrolase, magnesium,
metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo
sapiens}
Length = 357
Score = 28.2 bits (63), Expect = 3.1
Identities = 18/102 (17%), Positives = 38/102 (37%), Gaps = 14/102 (13%)
Query: 6 IQRLFFKHFIVP-PDVTSRSISF---IPKHKPV-EESDINKLKQFIEKYN----KILVVT 56
+R K +P P+ ++R + K + E +I ++ Q + ++ L
Sbjct: 238 ARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCRE 297
Query: 57 GAGISTESGIPDYRSEGVGLYARSDKRPVQFQDFLKS-RRVR 97
+ I ++ + RP+ + DF + R VR
Sbjct: 298 ASLGP----IRSLQTADIATITPDQVRPIAYIDFENAFRTVR 335
>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 = 3.5
Identities = 10/48 (20%), Positives = 15/48 (31%), Gaps = 18/48 (37%)
Query: 50 NKILVVTGAGISTESGI--------------PDYRSEGVGLYARSDKR 83
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 = 27.2 bits (61), Expect = 4.3
Identities = 7/45 (15%), Positives = 19/45 (42%), Gaps = 8/45 (17%)
Query: 193 EMRPDGDVEMSEETISKFHVPQC-------PHCHGDLKPDIVFFG 230
+ +E++++ ++KF++ C L+ + F G
Sbjct: 64 DYLDGA-IEVTKQNLAKFNIKNCQIIKGRAEDVLDKLEFNKAFIG 107
>3lp8_A Phosphoribosylamine-glycine ligase; ssgcid, NIH, niaid, SBRI, UW,
emerald biostructures, ALS collaborative
crystallography; 2.15A {Ehrlichia chaffeensis}
Length = 442
Score = 27.5 bits (62), Expect = 4.7
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 11/53 (20%)
Query: 25 ISFIPKHKPVEESDINKLKQFIEKYNKI-LVVTG------AGIS---TESGIP 67
+S + ++ + ++ Q +K KI LVV G G+S TE GI
Sbjct: 58 MSGLADIIDIDINSTIEVIQVCKK-EKIELVVIGPETPLMNGLSDALTEEGIL 109
>3tdg_A DSBG, putative uncharacterized protein; thioredoxin fold,
reductase, oxidoreductase; HET: P6G; 2.10A {Helicobacter
pylori}
Length = 273
Score = 27.3 bits (59), Expect = 4.8
Identities = 11/56 (19%), Positives = 19/56 (33%), Gaps = 4/56 (7%)
Query: 168 DYEIDRHKFQKILEDLNPDLMIESQEMRPDGDVEMSEETISKFHVPQCPHCHGDLK 223
+ + K I ++ D IE ++ + P CPHC +L
Sbjct: 116 ATQQNSAKLNAIFNEIPADYAIELPSTNAAN----KDKILYIVSDPMCPHCQKELT 167
>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 = 5.3
Identities = 0/25 (0%), Positives = 2/25 (8%)
Query: 39 INKLKQFIEKYNKILVVTGAGISTE 63
+ +
Sbjct: 15 GLPTPTDEHPKIYRMKLWATNEVRA 39
>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 = 5.9
Identities = 5/25 (20%), Positives = 12/25 (48%)
Query: 39 INKLKQFIEKYNKILVVTGAGISTE 63
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 = 7.1
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 6/37 (16%)
Query: 214 QCPHCHGDLKPDIVFFGDNIPRHRMEKIDHLVRSCDG 250
+CP C + F+G +PR EK+ L+ G
Sbjct: 53 KCPVCGEE------FYGKTLPRREAEKVFELLNDFKG 83
>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 = 27.1 bits (59), Expect = 7.5
Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 28 IPKHKPVEESDINKLKQFIEKYNKILVVTGAGISTE 63
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 = 8.7
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 28 IPKHKPVEESDINKLKQFIEKYNKIL 53
IP H + ++ + +L ++ YN L
Sbjct: 78 IPGHAAITDAHLARLDGWLAHYNGQL 103
>3npf_A Putative dipeptidyl-peptidase VI; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: CSA GOL; 1.72A {Bacteroides ovatus} PDB:
3pvq_A
Length = 306
Score = 26.5 bits (58), Expect = 8.7
Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 221 DLKP-DIVFFGDNIPRHRMEKIDH 243
++K D+VFFG R E I H
Sbjct: 220 NVKRGDLVFFGRKATAERKEGISH 243
>3a1y_G Acidic ribosomal protein P0; stalk, helix SPIN,
ribonucleoprotein; 2.13A {Pyrococcus horikoshii}
Length = 284
Score = 26.6 bits (58), Expect = 9.6
Identities = 6/34 (17%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 39 INKLKQFIEKYNKILVVTGAGISTESGIPDYRSE 72
+ +L + I+ Y I +V + + + R
Sbjct: 12 VEELAKLIKSYPVIALVDVSSMPAYP-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
0.323 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: 4,245,538
Number of extensions: 256749
Number of successful extensions: 1107
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1060
Number of HSP's successfully gapped: 66
Length of query: 268
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 176
Effective length of database: 4,133,061
Effective search space: 727418736
Effective search space used: 727418736
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 (21.9 bits)
S2: 56 (25.4 bits)