RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 018434
(356 letters)
>2d3a_A Glutamine synthetase; ligase; HET: P3S ADP; 2.63A {Zea mays} PDB:
2d3b_A* 2d3c_A*
Length = 356
Score = 583 bits (1505), Expect = 0.0
Identities = 311/356 (87%), Positives = 341/356 (95%)
Query: 1 MSLLSDLLNLNLSESTDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSST 60
M+ L+DL+NLNLS++T+KIIAEYIWIGGSGMD+RSKARTLPGPV+DPSKLPKWNYDGSST
Sbjct: 1 MACLTDLVNLNLSDTTEKIIAEYIWIGGSGMDLRSKARTLPGPVTDPSKLPKWNYDGSST 60
Query: 61 GQAPGEDSEVILYPQAIFKDPFRRGNNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVV 120
GQAPGEDSEVILYPQAIFKDPFRRGNNILVMCD YTPAGEPIPTNKR++AAKIFS +V
Sbjct: 61 GQAPGEDSEVILYPQAIFKDPFRRGNNILVMCDCYTPAGEPIPTNKRYSAAKIFSSPEVA 120
Query: 121 AEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACL 180
AEEPWYGIEQEYTLLQKD WPLGWPIGG+PGPQGPYYCG+GA+K++GRDIVD+HYKACL
Sbjct: 121 AEEPWYGIEQEYTLLQKDTNWPLGWPIGGFPGPQGPYYCGIGAEKSFGRDIVDAHYKACL 180
Query: 181 YAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQ 240
YAGINISGINGEVMPGQWEFQVGP+VGIS+GDQ+WVARYILERITEIAGVV++FDPKPI
Sbjct: 181 YAGINISGINGEVMPGQWEFQVGPSVGISSGDQVWVARYILERITEIAGVVVTFDPKPIP 240
Query: 241 GDWNGAGAHANYSTKSMRNDGGFEVIKKAIEKLGLRHSEHIAAYGEGNERRLTGKHETAD 300
GDWNGAGAH NYST+SMR +GG+EVIK AIEKL LRH EHIAAYGEGNERRLTG+HETAD
Sbjct: 241 GDWNGAGAHTNYSTESMRKEGGYEVIKAAIEKLKLRHKEHIAAYGEGNERRLTGRHETAD 300
Query: 301 INTFKWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILWKP 356
INTF WGVANRGAS+RVGR+TE+ GKGYFEDRRPASNMDPYVVTSMIAETTI+WKP
Sbjct: 301 INTFSWGVANRGASVRVGRETEQNGKGYFEDRRPASNMDPYVVTSMIAETTIVWKP 356
>2ojw_A Glutamine synthetase; amino-acid biosynthesis, ligase, structural
GENO structural genomics consortium, SGC; HET: ADP;
2.05A {Homo sapiens} PDB: 2qc8_A* 2uu7_A
Length = 384
Score = 538 bits (1387), Expect = 0.0
Identities = 188/343 (54%), Positives = 240/343 (69%), Gaps = 7/343 (2%)
Query: 17 DKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSSTGQAPGEDSEVILYPQA 76
+K+ A YIWI G+G +R K RTL +LP+WN+DGSST Q+ G +S++ L P A
Sbjct: 43 EKVQAMYIWIDGTGEGLRCKTRTLDSEPKCVEELPEWNFDGSSTLQSEGSNSDMYLVPAA 102
Query: 77 IFKDPFRRGNNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQ 136
+F+DPFR+ N LV+C+ + P TN RH +I + PW+G+EQEYTL+
Sbjct: 103 MFRDPFRKDPNKLVLCEVFKYNRRPAETNLRHTCKRIMDMVS--NQHPWFGMEQEYTLMG 160
Query: 137 KDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPG 196
D P GWP G+PGPQGPYYCGVGAD+A+GRDIV++HY+ACLYAG+ I+G N EVMP
Sbjct: 161 TD-GHPFGWPSNGFPGPQGPYYCGVGADRAYGRDIVEAHYRACLYAGVKIAGTNAEVMPA 219
Query: 197 QWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256
QWEFQ+GP GIS GD LWVAR+IL R+ E GV+ +FDPKPI G+WNGAG H N+STK+
Sbjct: 220 QWEFQIGPCEGISMGDHLWVARFILHRVCEDFGVIATFDPKPIPGNWNGAGCHTNFSTKA 279
Query: 257 MRNDGGFEVIKKAIEKLGLRHSEHIAAY----GEGNERRLTGKHETADINTFKWGVANRG 312
MR + G + I++AIEKL RH HI AY G N RRLTG HET++IN F GVANR
Sbjct: 280 MREENGLKYIEEAIEKLSKRHQYHIRAYDPKGGLDNARRLTGFHETSNINDFSAGVANRS 339
Query: 313 ASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILWK 355
ASIR+ R +E KGYFEDRRP++N DP+ VT + T +L +
Sbjct: 340 ASIRIPRTVGQEKKGYFEDRRPSANCDPFSVTEALIRTCLLNE 382
>3fky_A Glutamine synthetase; beta-grAsp, catalytic domain, acetylation,
cytoplasm, ligase, UBL conjugation; HET: FLC; 2.95A
{Saccharomyces cerevisiae}
Length = 370
Score = 524 bits (1351), Expect = 0.0
Identities = 198/336 (58%), Positives = 244/336 (72%), Gaps = 4/336 (1%)
Query: 17 DKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSSTGQAPGEDSEVILYPQA 76
+IIAEY+WI G+G ++RSK RTL ++ +LP+WN+DGSST QAPG DS++ L P A
Sbjct: 22 GRIIAEYVWIDGTG-NLRSKGRTLKKRITSIDQLPEWNFDGSSTNQAPGHDSDIYLKPVA 80
Query: 77 IFKDPFRRGNNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQ 136
+ DPFRRG+NI+V+ Y G P N RH AAK+F+ EE W+G+EQEYTL
Sbjct: 81 YYPDPFRRGDNIVVLAACYNNDGTPNKFNHRHEAAKLFAA--HKDEEIWFGLEQEYTLFD 138
Query: 137 KDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPG 196
GWP GGYP PQGPYYCGVGA K + RD++++HY+ACLYAG+ ISGIN EVMP
Sbjct: 139 MY-DDVYGWPKGGYPAPQGPYYCGVGAGKVYARDMIEAHYRACLYAGLEISGINAEVMPS 197
Query: 197 QWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256
QWEFQVGP GI GDQLW+ARY L R+ E G+ +SF PKP++GDWNGAG HAN STK
Sbjct: 198 QWEFQVGPCTGIDMGDQLWMARYFLHRVAEEFGIKISFHPKPLKGDWNGAGCHANVSTKE 257
Query: 257 MRNDGGFEVIKKAIEKLGLRHSEHIAAYGEGNERRLTGKHETADINTFKWGVANRGASIR 316
MR GG + I++AIEKL RH+EHI YG N+ RLTG+HETA + F GVANRG+SIR
Sbjct: 258 MRQPGGTKYIEQAIEKLSKRHAEHIKLYGSDNDMRLTGRHETASMTAFSSGVANRGSSIR 317
Query: 317 VGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTI 352
+ R KEG GYFEDRRPASN+DPY+VT ++ ET
Sbjct: 318 IPRSVAKEGYGYFEDRRPASNIDPYLVTGIMCETVC 353
>2j9i_A Glutamate-ammonia ligase domain-containing protein 1; 17.00A {Mus
musculus}
Length = 421
Score = 64.1 bits (157), Expect = 2e-11
Identities = 48/315 (15%), Positives = 84/315 (26%), Gaps = 63/315 (20%)
Query: 56 DGSS-TGQAPGEDSEVILYPQA--IFKDPFRRGNNILVMCDAYTP-AGEPIPTNKRHAAA 111
DG G A S+++L P+ V+CD A P R+ A
Sbjct: 50 DGEVNAGAAGAAASDIVLMPELSTAAVAAAAAAATAAVICDGGAAAAASP-----RYIAR 104
Query: 112 KIFSH------SDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADK 165
+ + + ++ + + + +
Sbjct: 105 AALAQLQAAGAAAGLLSAF----IADFCIF-GVPEVIN---------SKTISFPASTTAA 150
Query: 166 AWG--RDIVDSHYKACLYA-GINISGINGEVMPGQWEFQVGP-AVGISAGDQLWVARYIL 221
A ++ A G G G E P A G +A D + R L
Sbjct: 151 AADQPQEAAA------GGAAGAAAGAAGGAAAAGAAEICFLPEAAGAAAADNAFTLRTGL 204
Query: 222 ERITEIAGVVLSFDPKPIQGDWNGAGAHANYS-TKSMRN----DGGFEVIKKAIEKLG-- 274
+ + + S GAG+H+ + + N G + L
Sbjct: 205 QEVARRYNAIASAAAAAAAAA-AGAGSHSIWDVGAAGTNAFAGASGARATLTGAKWLAGL 263
Query: 275 LRHSEHIAA--------YGEGNERRLTGKHETADINTFKWGVANRGASIRVGRDTEKEGK 326
L + AA A T WG A ++ + +G
Sbjct: 264 LAAAAAAAAAAAAAAAAA-----AAAAAGAA-AAAAT-AWGAAAAACALNIAAAAAAKGA 316
Query: 327 GYFEDRRPASNMDPY 341
E++ A+ +PY
Sbjct: 317 -QIENKAGAAAANPY 330
>3o6x_A Glutamine synthetase; type III, beta barrel,dodecamer, ligas; HET:
P3S ADP; 3.50A {Bacteroides fragilis}
Length = 729
Score = 61.5 bits (149), Expect = 1e-10
Identities = 50/352 (14%), Positives = 106/352 (30%), Gaps = 74/352 (21%)
Query: 54 NYDGSSTGQAPG-----EDSEVILYPQAIFKDPF-------RRGNNILVMCDAYTPAGEP 101
DG + G ++ + +P ++ F G++ + D
Sbjct: 109 GEDGEVIERFSGKLLIQQEPDASSFPNGGIRNTFEARGYTAWDGSSPAFVVDTTLCIPTI 168
Query: 102 ------IPTNKR-----------HAAAKIFSH--SDVVAEEPWYGIEQEYTLLQKD---- 138
+ + AA ++ ++ G EQEY L+
Sbjct: 169 FISYTGEALDYKTPLLKALAAVDKAATEVCQLFDKNITRVFTNLGWEQEYFLVDTSLYNA 228
Query: 139 --VKWPLGWPIGGYPGPQ----GPYYCGVGADKAWG--RDIVDSHYKACLYAGINISGIN 190
G + G+ + +Y G + +++ +K GI + +
Sbjct: 229 RPDLRLTGRTLMGHSSAKDQQLEDHYFGSIPPRVTAFMKELEIECHKL----GIPVKTRH 284
Query: 191 GEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHA 250
EV P Q+E A D + +++RI + F KP G NG+G H
Sbjct: 285 NEVAPNQFELAPIFENCNLANDHNQLVMDLMKRIARKHHFAVLFHEKPYNGV-NGSGKHN 343
Query: 251 NYSTKSMRNDGG---------------FEVIKKAIEKLGLRHSEHIAAY--GEGNE-RRL 292
N+ S+ D G F + + ++ + + A GN R
Sbjct: 344 NW---SLCTDTGINLFAPGKNPKGNMLFLTFLVNVLMMVHKNQDLLRASIMSAGNSHRLG 400
Query: 293 TGKHETADINTFKWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVT 344
+ A ++ + + A++ + ++ + + +
Sbjct: 401 ANEAPPAILSI--FLGSQLSATL---DEIVRQVTNSKMTPEEKTTLKLGIGR 447
>3qaj_A Glutamine synthetase; AMP-PCP, ACP, ligase; HET: GLU ADP RGP CIT
AMP; 3.05A {Bacillus subtilis}
Length = 444
Score = 58.3 bits (142), Expect = 1e-09
Identities = 76/293 (25%), Positives = 116/293 (39%), Gaps = 54/293 (18%)
Query: 56 DGSS-TGQAPGEDSEVILYPQA--IFKDPFR--RGNNILVMCDAYTPAGEPIPTNKRHAA 110
DGSS G E+S++ LYP P+ +G +CD Y P G P + R+
Sbjct: 53 DGSSIEGFVRIEESDMYLYPDLNTFVIFPWTAEKGKVARFICDIYNPDGTPFEGDPRNNL 112
Query: 111 AKIFSHSDVVAEEPWY-----GIEQEYTLLQKDVKWPLGWPI---GGYPGPQGPYYCGVG 162
+I E+ + G E E+ L + D K + GGY P +G
Sbjct: 113 KRILKE----MEDLGFSDFNLGPEPEFFLFKLDEKGEPTLELNDKGGY-FDLAPT--DLG 165
Query: 163 ADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWE--FQVGPAVGISAGDQLWVARYI 220
+ RDIV G I + EV PGQ E F+ AV + D + + +
Sbjct: 166 EN--CRRDIV----LELEEMGFEIEASHHEVAPGQHEIDFKYAGAV--RSCDDIQTFKLV 217
Query: 221 LERITEIAGVVLSFDPKPIQGDWNGAGAHANYS-TKSMRN-----DGGFEVIKKAIEKLG 274
++ I G+ +F PKP+ G NG+G H N S K+ N + ++ + A +
Sbjct: 218 VKTIARKHGLHATFMPKPLFGV-NGSGMHCNLSLFKNGVNAFFDENADLQLSETAKHFIA 276
Query: 275 --LRHSEHIAA--------YGEGNERRLTGKHETADINTFKWGVANRGASIRV 317
++H+ A Y +RL +E A W NR IR+
Sbjct: 277 GIVKHATSFTAVTNPTVNSY-----KRLVPGYE-APCY-VAWSAQNRSPLIRI 322
>3ng0_A Glutamine synthetase; GSI, nitrogen metabolism, synec ligase; HET:
ANP; 2.80A {Synechocystis SP}
Length = 473
Score = 50.3 bits (121), Expect = 4e-07
Identities = 74/329 (22%), Positives = 125/329 (37%), Gaps = 52/329 (15%)
Query: 56 DGSS-TGQAPGEDSEVILYPQA--IFKDPFRRGNNILVMCDAYTPA-GEPIPTNKRHAAA 111
DGSS G +S++ + P DPF + + ++C P GE + R AA
Sbjct: 53 DGSSIRGWKAINESDMCMVPDPNTATIDPFCKEPTLSMICSIKEPRTGEWYNRDPRTIAA 112
Query: 112 KIFSH--SDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGR 169
K + +A+ ++G E E+ L D+++ Y G ++ G
Sbjct: 113 KAAEYLRGTGIADTVYFGPEAEFFLF-DDIRFGQTENSSYYFADSVEGRWNTGREEEGGN 171
Query: 170 DIVDSHYKA------------------CLY---AGINISGINGEVMP-GQWEFQVGPAVG 207
YK L G+ I + EV GQ E +
Sbjct: 172 LGYKPGYKQGYFPVAPTDTAQDIRTEMLLTMAAFGVPIEKHHHEVASGGQNELGIKFDKL 231
Query: 208 ISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYS-TKSMRN----DGG 262
+++ D L + +Y+++ + + G ++F PKPI D NG+G H + S K + D
Sbjct: 232 VNSADNLMIYKYVIKNVAKKYGKTVTFMPKPIFND-NGSGMHVHQSLWKDGQPLFAGDKY 290
Query: 263 FEVIKKAIEKLG--LRHSEHIAA--------YGEGNERRLTGKHETADINTFKWGVANRG 312
+ + +G L+H+ + A Y +RL E A +N + NR
Sbjct: 291 AGFSQMGLWYIGGILKHAPALLAFTNPTTNSY-----KRLVPGFE-APVN-LAYSQGNRS 343
Query: 313 ASIRVGRDTEKEGKGYFEDRRPASNMDPY 341
AS+R+ E R P + +PY
Sbjct: 344 ASVRIPLSGGNPKAKRLEFRCPDATSNPY 372
>2bvc_A Glutamine synthetase 1; ligase, transition state mimic; HET: P3S
ADP; 2.1A {Mycobacterium tuberculosis} SCOP: d.15.9.1
d.128.1.1 PDB: 2wgs_A* 2whi_A* 3zxr_A* 3zxv_A* 1hto_A*
1htq_A*
Length = 486
Score = 49.2 bits (118), Expect = 1e-06
Identities = 74/333 (22%), Positives = 121/333 (36%), Gaps = 56/333 (16%)
Query: 56 DGSS-TGQAPGEDSEVILYPQA--IFKDPFRRGNNILVMCDAYTPA-GEPIPTNKRHAAA 111
DGSS G +S+++L P DPFR + + + P EP + R+ A
Sbjct: 62 DGSSIRGFQSIHESDMLLLPDPETARIDPFRAAKTLNINFFVHDPFTLEPYSRDPRNIAR 121
Query: 112 KIFSH--SDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYP--GPQGPYYCGVGADKAW 167
K ++ S +A+ ++G E E+ + V + Y G + G +
Sbjct: 122 KAENYLISTGIADTAYFGAEAEFYIF-DSVSFDSRANGSFYEVDAISGWWNTGAATEADG 180
Query: 168 GRDI---------------VDSHYKA----CLY---AGINISGINGEVMP-GQWEFQVGP 204
+ D + +G + + EV GQ E
Sbjct: 181 SPNRGYKVRHKGGYFPVAPNDQYVDLRDKMLTNLINSGFILEKGHHEVGSGGQAEINYQF 240
Query: 205 AVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYS-TKSMRN---- 259
+ A D + + +YI++ G ++F PKP+ GD NG+G H + S K
Sbjct: 241 NSLLHAADDMQLYKYIIKNTAWQNGKTVTFMPKPLFGD-NGSGMHCHQSLWKDGAPLMYD 299
Query: 260 -DGGFEVIKKAIEKLG--LRHSEHIAA--------YGEGNERRLTGKHETADINTFKWGV 308
G + A +G L H+ + A Y +RL +E A IN +
Sbjct: 300 ETGYAGLSDTARHYIGGLLHHAPSLLAFTNPTVNSY-----KRLVPGYE-APIN-LVYSQ 352
Query: 309 ANRGASIRVGRDTEKEGKGYFEDRRPASNMDPY 341
NR A +R+ E R P S+ +PY
Sbjct: 353 RNRSACVRIPITGSNPKAKRLEFRSPDSSGNPY 385
>1f52_A Glutamine synthetase; ADP, MPD, ligase; HET: ADP; 2.49A {Salmonella
typhimurium} SCOP: d.15.9.1 d.128.1.1 PDB: 1f1h_A*
1fpy_A* 1lgr_A* 2lgs_A* 2gls_A
Length = 468
Score = 48.7 bits (117), Expect = 1e-06
Identities = 73/333 (21%), Positives = 129/333 (38%), Gaps = 61/333 (18%)
Query: 56 DGSS-TGQAPGEDSEVILYPQA--IFKDPFRRGNNILVMCDAYTPA-GEPIPTNKRHAAA 111
DGSS G +S+++L P A DPF + +++ CD P + + R A
Sbjct: 50 DGSSIGGWKGINESDMVLMPDASTAVIDPFFADSTLIIRCDILEPGTLQGYDRDPRSIAK 109
Query: 112 KIFSH--SDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGY------------------- 150
+ + + +A+ +G E E+ L D+++
Sbjct: 110 RAEDYLRATGIADTVLFGPEPEFFLF-DDIRFGASISGSHVAIDDIEGAWNSSTKYEGGN 168
Query: 151 ----PGPQGPYYCGVGADKAWG--RDIVDSHYKACLYAGINISGINGEVMP-GQWEFQVG 203
PG +G Y+ D A ++ G+ + + EV GQ E
Sbjct: 169 KGHRPGVKGGYFPVPPVDSAQDIRSEMC----LVMEQMGLVVEAHHHEVATAGQNEVATR 224
Query: 204 PAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYS-TKSMRN--- 259
D++ + +Y++ + G +F PKP+ GD NG+G H + S K+ N
Sbjct: 225 FNTMTKKADEIQIYKYVVHNVAHRFGKTATFMPKPMFGD-NGSGMHCHMSLAKNGTNLFS 283
Query: 260 -DGGFEVIKKAIEKLG--LRHSEHIAA--------YGEGNERRLTGKHETADINTFKWGV 308
D + ++A+ +G ++H++ I A Y +RL +E A + +
Sbjct: 284 GDKYAGLSEQALYYIGGVIKHAKAINALANPTTNSY-----KRLVPGYE-APVM-LAYSA 336
Query: 309 ANRGASIRVGRDTEKEGKGYFEDRRPASNMDPY 341
NR ASIR+ + + E R P +PY
Sbjct: 337 RNRSASIRIPVVASPKAR-RIEVRFPDPAANPY 368
>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 = 37.0 bits (85), Expect = 0.011
Identities = 74/447 (16%), Positives = 129/447 (28%), Gaps = 153/447 (34%)
Query: 2 SLLSDLLNLNLSESTDKIIAEYIWIGGSGMDMRS--KARTL---PGPVSDPSKLPKWNYD 56
+L + LL E+ ++ I ++ AR + P S L + +
Sbjct: 103 ALAAKLL----QENDTTLVKTKELI-------KNYITARIMAKRPFDKKSNSALFRAVGE 151
Query: 57 GSST------GQAPGED--SE-VILY--PQAIFKDPFRRGNNILVMCDAYTPAGEPIPTN 105
G++ GQ +D E LY + D + L +
Sbjct: 152 GNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETL----------SELIRT 201
Query: 106 KRHAAAKIFSHS-DVVA--EEPWYGIEQEYTLLQKDVKWPLGWPIG-------------- 148
A K+F+ +++ E P +++Y LL + PL IG
Sbjct: 202 -TLDAEKVFTQGLNILEWLENPSNTPDKDY-LLSIPISCPL---IGVIQLAHYVVTAKLL 256
Query: 149 GY-PGPQGPYYCGVGADKAWGRDIV-----------DSHYKACL-------YAG------ 183
G+ PG Y G + +V +S + + + G
Sbjct: 257 GFTPGELRSYLKGA---TGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEA 313
Query: 184 ----------INISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYI--------LERIT 225
+ S N E +P P + IS Q V Y+ +
Sbjct: 314 YPNTSLPPSILEDSLENNEGVPS-------PMLSISNLTQEQVQDYVNKTNSHLPAGKQV 366
Query: 226 EIA---G---VVLSFDPKPIQGDWNGAGAHANYSTKSMRNDGG-------FEVIKKAIEK 272
EI+ G +V+S P+ + G N + + + G F K
Sbjct: 367 EISLVNGAKNLVVSGPPQSLYG--------LNLTLRKAKAPSGLDQSRIPFSERKLKFSN 418
Query: 273 LGLR-----HSEHIAAYGEGNERRLTGKHETADINTFKWGVANRGASIRVGRDTEKEGKG 327
L HS + + + L + + + + I V DT +G
Sbjct: 419 RFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQ---------IPV-YDTF-DGS- 466
Query: 328 YFEDRRPASNMDPYVVTSMIAETTILW 354
D R S + I + W
Sbjct: 467 ---DLRVLSGSISERIVDCIIRLPVKW 490
Score = 36.6 bits (84), Expect = 0.013
Identities = 45/267 (16%), Positives = 86/267 (32%), Gaps = 84/267 (31%)
Query: 62 QAPGEDSEVILYPQAIFKDPFRRGNNI--LVMCDAYTPAGEPIPTNKRHAAAKIFSHSDV 119
G+ +V+ F++ + GN+I L A K K + + +
Sbjct: 75 SKVGQFDQVLNLCLTEFENCYLEGNDIHALA---AKLLQENDTTLVKTKELIKNYITARI 131
Query: 120 VAEEPWYGIEQEYTLLQ----KDVKWPLGWPI----GGYPGPQG---PY----------Y 158
+A+ P + + L + + + + GG QG Y Y
Sbjct: 132 MAKRP-FDKKSNSALFRAVGEGNAQ------LVAIFGG----QGNTDDYFEELRDLYQTY 180
Query: 159 CGVGADKAWGRDIVDSHYKAC------------LY-AGINISG--INGEVMPGQWEFQV- 202
D++ + ++ G+NI N P + ++ +
Sbjct: 181 ------HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK-DYLLS 233
Query: 203 ----GPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAH------ANY 252
P +G+ QL A Y+ + +L F P ++ GA H A
Sbjct: 234 IPISCPLIGVI---QL--AHYV------VTAKLLGFTPGELRSYLKGATGHSQGLVTAVA 282
Query: 253 STKSMRNDGGFEVIKKAIEKL---GLR 276
++ + F ++KAI L G+R
Sbjct: 283 IAETDSWESFFVSVRKAITVLFFIGVR 309
Score = 32.3 bits (73), Expect = 0.31
Identities = 45/319 (14%), Positives = 81/319 (25%), Gaps = 149/319 (46%)
Query: 28 GS-----GMDMRSK---AR------------TLPGPVSD-----PSKLPKWNYDGSSTGQ 62
GS GMD+ A+ T + D P L + G G+
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTI--HFGGEKGK 1682
Query: 63 APGEDSEVILYPQAIFKDPFRRGNNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAE 122
E+ Y IF+ + D + H+ + F +
Sbjct: 1683 RIREN-----YSAMIFET----------IVDGKLKTEKIFKEINEHSTSYTFRSEKGL-- 1725
Query: 123 EPWYGIEQ-EYTLLQ-----------KDVK-WPLGWPIGGYPGPQGPYYCGVGADKAWGR 169
+ ++T Q +D+K G P + G
Sbjct: 1726 -----LSATQFT--QPALTLMEKAAFEDLKSK------GLIPADA--TFAG--------- 1761
Query: 170 DIVDSH----YKACLYAGINISGINGEVMP-----------GQWEFQVGP---------- 204
H Y A L + +VM G P
Sbjct: 1762 -----HSLGEYAA-LASL-------ADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYG 1808
Query: 205 --AVG---ISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKSMRN 259
A+ ++A +Y++ER+ + G ++ I NY N
Sbjct: 1809 MIAINPGRVAASFSQEALQYVVERVGKRTGWLVE-----I----------VNY------N 1847
Query: 260 DGGFEVI----KKAIEKLG 274
+ + +A++ +
Sbjct: 1848 VENQQYVAAGDLRALDTVT 1866
>1wr8_A Phosphoglycolate phosphatase; alpha / beta core domain, HAD
superfamily, structural genomi structural
genomics/proteomics initiative, RSGI; 1.60A {Pyrococcus
horikoshii} SCOP: c.108.1.10
Length = 231
Score = 33.2 bits (77), Expect = 0.081
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 248 AHANYSTKSMRNDGGFEVIKKAIEKLGL 275
+A+Y TK +GG E I +EK G
Sbjct: 203 ENADYVTKKEYGEGGAEAIYHILEKFGY 230
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 33.3 bits (76), Expect = 0.16
Identities = 25/142 (17%), Positives = 42/142 (29%), Gaps = 24/142 (16%)
Query: 217 ARY---ILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKSMRNDGGFEVIKKAI-EK 272
A+Y ILE +G+ L +P+ G + D K E+
Sbjct: 892 AKYETSILEH----SGIRL-IEPELFNGY--NPEKKEMIQEVIVEEDLEPFEASKETAEQ 944
Query: 273 LGLRHSEH--IAAYGEGNERRLTGKHETA----DINTFKWGVANRGASIRVGRDTEKEGK 326
+H + I E E + F VA I G + +
Sbjct: 945 FKHQHGDKVDIFEIPETGEYSVKLLKGATLYIPKALRFDRLVA---GQIPTGWNAKT--- 998
Query: 327 GYFEDRRPASNMDPYVVTSMIA 348
Y S +DP + +++
Sbjct: 999 -YGISDDIISQVDPITLFVLVS 1019
>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 = 32.9 bits (74), Expect = 0.18
Identities = 52/324 (16%), Positives = 96/324 (29%), Gaps = 98/324 (30%)
Query: 2 SLLSDLLNLNLSESTDKIIAEYIWIGGSGMDMRSKA-RTLPGPVS--------DPSKLPK 52
SL + L E ++ + ++ D+ + T P +S +
Sbjct: 290 SLDHHSMTLTPDEVKS-LLLK--YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346
Query: 53 WNY----------DGSSTGQAPGEDSEVILYPQ-AIFKDPFRRGNNILVMCDAYTPAGEP 101
W + + S P E + ++ + ++F P
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRK--MFDRLSVF------------------PPSAH 386
Query: 102 IPTNKRHAAAKIFSHSDVVAEEPWYGIEQE-----------YTLLQKDVKWPLGWPIGGY 150
IPT + W+ + + Y+L++K K
Sbjct: 387 IPTI--------------LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI----SI 428
Query: 151 PGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISA 210
P + + A R IVD HY + + + + + +G
Sbjct: 429 PSIYLELKVKLENEYALHRSIVD-HYN--IPKTFDSDDLIPPYLDQYFYSHIG------- 478
Query: 211 GDQLWVARYILERITEIAGVVLSF---DPKPIQGD---WNGAGAHAN-------YSTKSM 257
L + ER+T V L F + K I+ D WN +G+ N Y
Sbjct: 479 -HHLKNIEHP-ERMTLFRMVFLDFRFLEQK-IRHDSTAWNASGSILNTLQQLKFYKPYIC 535
Query: 258 RNDGGFEVIKKAIEKLGLRHSEHI 281
ND +E + AI + E++
Sbjct: 536 DNDPKYERLVNAILDFLPKIEENL 559
>2pq0_A Hypothetical conserved protein GK1056; hyopthetical protein,
structural genomics, unknown function; 2.60A
{Geobacillus kaustophilus} PDB: 2qyh_A
Length = 258
Score = 29.4 bits (67), Expect = 1.4
Identities = 7/28 (25%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 248 AHANYSTKSMRNDGGFEVIKKAIEKLGL 275
A++ TK + +G I +++L L
Sbjct: 233 RVADFVTKPVDKEG----IWYGLKQLQL 256
>3fzq_A Putative hydrolase; YP_001086940.1, putative haloacid
dehalogenase-like hydrolas structural genomics, joint
center for structural genomics; HET: MSE; 2.10A
{Clostridium difficile}
Length = 274
Score = 29.5 bits (67), Expect = 1.5
Identities = 4/28 (14%), Positives = 12/28 (42%), Gaps = 4/28 (14%)
Query: 248 AHANYSTKSMRNDGGFEVIKKAIEKLGL 275
A + + ++G I K +++ +
Sbjct: 250 DIATSICEDIFDNG----IYKELKRRNI 273
>2rbk_A Putative uncharacterized protein; HAD-like phosphatase, unknown
function; 1.00A {Bacteroides thetaiotaomicron} SCOP:
c.108.1.10 PDB: 1ymq_A 2rb5_A 2rav_A 2rar_A
Length = 261
Score = 29.4 bits (67), Expect = 1.7
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 4/28 (14%)
Query: 248 AHANYSTKSMRNDGGFEVIKKAIEKLGL 275
A A+Y T + DG I KA++ G+
Sbjct: 237 AAADYVTAPIDEDG----ISKAMKHFGI 260
>1l6r_A Hypothetical protein TA0175; structural genomics, putative hydrolas
midwest center for structural genomics, MCSG, PSI; 1.40A
{Thermoplasma acidophilum} SCOP: c.108.1.10 PDB: 1kyt_A
Length = 227
Score = 29.0 bits (66), Expect = 1.8
Identities = 3/28 (10%), Positives = 10/28 (35%), Gaps = 4/28 (14%)
Query: 248 AHANYSTKSMRNDGGFEVIKKAIEKLGL 275
A +++ + + I + + L
Sbjct: 203 AVSDFVSDYSYGEE----IGQIFKHFEL 226
>3r4c_A Hydrolase, haloacid dehalogenase-like hydrolase; haloalkanoate
dehalogenase enzyme superfamily, phosphohydrol
hydrolase; 1.82A {Bacteroides thetaiotaomicron}
Length = 268
Score = 29.0 bits (66), Expect = 2.1
Identities = 7/28 (25%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 248 AHANYSTKSMRNDGGFEVIKKAIEKLGL 275
+ A++ T ++ N G + KA++ G+
Sbjct: 244 SVADFVTDTVDNSG----LYKALKHFGV 267
>1msz_A DNA-binding protein smubp-2; R3H fold; NMR {Homo sapiens} SCOP:
d.68.7.1
Length = 86
Score = 27.2 bits (60), Expect = 2.2
Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 4/23 (17%)
Query: 271 EKLGLRHSEHIAAYGEGNERRLT 293
E+ GLRH + GEG R +T
Sbjct: 55 EEHGLRHD----SSGEGKRRFIT 73
>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 = 27.2 bits (59), Expect = 5.2
Identities = 8/39 (20%), Positives = 11/39 (28%), Gaps = 19/39 (48%)
Query: 172 VDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISA 210
+ + K LYA PA+ I A
Sbjct: 25 LQASLK--LYA------------DDS-----APALAIKA 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
0.316 0.136 0.429
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,779,533
Number of extensions: 360961
Number of successful extensions: 782
Number of sequences better than 10.0: 1
Number of HSP's gapped: 770
Number of HSP's successfully gapped: 33
Length of query: 356
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 261
Effective length of database: 4,049,298
Effective search space: 1056866778
Effective search space used: 1056866778
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: 41 (21.6 bits)
S2: 58 (26.7 bits)