RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013994
(432 letters)
>2d3a_A Glutamine synthetase; ligase; HET: P3S ADP; 2.63A {Zea mays} PDB:
2d3b_A* 2d3c_A*
Length = 356
Score = 579 bits (1494), Expect = 0.0
Identities = 276/354 (77%), Positives = 319/354 (90%)
Query: 63 RLEDLLNLDITPYTDKIIAEYIWIGGTGIDMRSKSKTISKPVEHPSELPKWNYDGSSTGQ 122
L DL+NL+++ T+KIIAEYIWIGG+G+D+RSK++T+ PV PS+LPKWNYDGSSTGQ
Sbjct: 3 CLTDLVNLNLSDTTEKIIAEYIWIGGSGMDLRSKARTLPGPVTDPSKLPKWNYDGSSTGQ 62
Query: 123 APGEDSEVILYPQAIFKDPFRGGNNILVICDTYTPAGEPIPTNKRHRAAEIFSNSKVSAE 182
APGEDSEVILYPQAIFKDPFR GNNILV+CD YTPAGEPIPTNKR+ AA+IFS+ +V+AE
Sbjct: 63 APGEDSEVILYPQAIFKDPFRRGNNILVMCDCYTPAGEPIPTNKRYSAAKIFSSPEVAAE 122
Query: 183 VPWFGIEQEYTLLQQNVKWPLGWPVGAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYA 242
PW+GIEQEYTLLQ++ WPLGWP+G +PGPQGPYYCG GA+KSFGRDI DAHYKACLYA
Sbjct: 123 EPWYGIEQEYTLLQKDTNWPLGWPIGGFPGPQGPYYCGIGAEKSFGRDIVDAHYKACLYA 182
Query: 243 GINISGTNGEVMPGQWEYQVGPSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGD 302
GINISG NGEVMPGQWE+QVGPSVGI +GD +W +RY+LERITE AGVV++ DPKPI GD
Sbjct: 183 GINISGINGEVMPGQWEFQVGPSVGISSGDQVWVARYILERITEIAGVVVTFDPKPIPGD 242
Query: 303 WNGAGCHTNYSTKSMREEGGYETIKKAILNLSLRHKEHISAYGEGNERRLTGKHETASID 362
WNGAG HTNYST+SMR+EGGYE IK AI L LRHKEHI+AYGEGNERRLTG+HETA I+
Sbjct: 243 WNGAGAHTNYSTESMRKEGGYEVIKAAIEKLKLRHKEHIAAYGEGNERRLTGRHETADIN 302
Query: 363 SFSWGVANRGCSIRVGRETEKQGKGYLEDRRPASNMDPYVVTSLLAETTILWEP 416
+FSWGVANRG S+RVGRETE+ GKGY EDRRPASNMDPYVVTS++AETTI+W+P
Sbjct: 303 TFSWGVANRGASVRVGRETEQNGKGYFEDRRPASNMDPYVVTSMIAETTIVWKP 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 = 547 bits (1410), Expect = 0.0
Identities = 185/346 (53%), Positives = 241/346 (69%), Gaps = 7/346 (2%)
Query: 74 PYTDKIIAEYIWIGGTGIDMRSKSKTISKPVEHPSELPKWNYDGSSTGQAPGEDSEVILY 133
P +K+ A YIWI GTG +R K++T+ + ELP+WN+DGSST Q+ G +S++ L
Sbjct: 40 PQGEKVQAMYIWIDGTGEGLRCKTRTLDSEPKCVEELPEWNFDGSSTLQSEGSNSDMYLV 99
Query: 134 PQAIFKDPFRGGNNILVICDTYTPAGEPIPTNKRHRAAEIFSNSKVSAEVPWFGIEQEYT 193
P A+F+DPFR N LV+C+ + P TN RH I VS + PWFG+EQEYT
Sbjct: 100 PAAMFRDPFRKDPNKLVLCEVFKYNRRPAETNLRHTCKRIMD--MVSNQHPWFGMEQEYT 157
Query: 194 LLQQNVKWPLGWPVGAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYAGINISGTNGEV 253
L+ + P GWP +PGPQGPYYCG GAD+++GRDI +AHY+ACLYAG+ I+GTN EV
Sbjct: 158 LMGTD-GHPFGWPSNGFPGPQGPYYCGVGADRAYGRDIVEAHYRACLYAGVKIAGTNAEV 216
Query: 254 MPGQWEYQVGPSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDWNGAGCHTNYS 313
MP QWE+Q+GP GI GDH+W +R++L R+ E GV+ + DPKPI G+WNGAGCHTN+S
Sbjct: 217 MPAQWEFQIGPCEGISMGDHLWVARFILHRVCEDFGVIATFDPKPIPGNWNGAGCHTNFS 276
Query: 314 TKSMREEGGYETIKKAILNLSLRHKEHISAY----GEGNERRLTGKHETASIDSFSWGVA 369
TK+MREE G + I++AI LS RH+ HI AY G N RRLTG HET++I+ FS GVA
Sbjct: 277 TKAMREENGLKYIEEAIEKLSKRHQYHIRAYDPKGGLDNARRLTGFHETSNINDFSAGVA 336
Query: 370 NRGCSIRVGRETEKQGKGYLEDRRPASNMDPYVVTSLLAETTILWE 415
NR SIR+ R ++ KGY EDRRP++N DP+ VT L T +L E
Sbjct: 337 NRSASIRIPRTVGQEKKGYFEDRRPSANCDPFSVTEALIRTCLLNE 382
>3fky_A Glutamine synthetase; beta-grAsp, catalytic domain, acetylation,
cytoplasm, ligase, UBL conjugation; HET: FLC; 2.95A
{Saccharomyces cerevisiae}
Length = 370
Score = 532 bits (1373), Expect = 0.0
Identities = 193/349 (55%), Positives = 242/349 (69%), Gaps = 7/349 (2%)
Query: 64 LEDLLNLDITPYTDKIIAEYIWIGGTGIDMRSKSKTISKPVEHPSELPKWNYDGSSTGQA 123
L+ L LD +IIAEY+WI GTG ++RSK +T+ K + +LP+WN+DGSST QA
Sbjct: 12 LQKYLELDQR---GRIIAEYVWIDGTG-NLRSKGRTLKKRITSIDQLPEWNFDGSSTNQA 67
Query: 124 PGEDSEVILYPQAIFKDPFRGGNNILVICDTYTPAGEPIPTNKRHRAAEIFSNSKVSAEV 183
PG DS++ L P A + DPFR G+NI+V+ Y G P N RH AA++F+ E
Sbjct: 68 PGHDSDIYLKPVAYYPDPFRRGDNIVVLAACYNNDGTPNKFNHRHEAAKLFA--AHKDEE 125
Query: 184 PWFGIEQEYTLLQQNVKWPLGWPVGAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYAG 243
WFG+EQEYTL GWP G YP PQGPYYCG GA K + RD+ +AHY+ACLYAG
Sbjct: 126 IWFGLEQEYTLFD-MYDDVYGWPKGGYPAPQGPYYCGVGAGKVYARDMIEAHYRACLYAG 184
Query: 244 INISGTNGEVMPGQWEYQVGPSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDW 303
+ ISG N EVMP QWE+QVGP GID GD +W +RY L R+ E+ G+ +S PKP++GDW
Sbjct: 185 LEISGINAEVMPSQWEFQVGPCTGIDMGDQLWMARYFLHRVAEEFGIKISFHPKPLKGDW 244
Query: 304 NGAGCHTNYSTKSMREEGGYETIKKAILNLSLRHKEHISAYGEGNERRLTGKHETASIDS 363
NGAGCH N STK MR+ GG + I++AI LS RH EHI YG N+ RLTG+HETAS+ +
Sbjct: 245 NGAGCHANVSTKEMRQPGGTKYIEQAIEKLSKRHAEHIKLYGSDNDMRLTGRHETASMTA 304
Query: 364 FSWGVANRGCSIRVGRETEKQGKGYLEDRRPASNMDPYVVTSLLAETTI 412
FS GVANRG SIR+ R K+G GY EDRRPASN+DPY+VT ++ ET
Sbjct: 305 FSSGVANRGSSIRIPRSVAKEGYGYFEDRRPASNIDPYLVTGIMCETVC 353
>2j9i_A Glutamate-ammonia ligase domain-containing protein 1; 17.00A {Mus
musculus}
Length = 421
Score = 62.5 bits (153), Expect = 7e-11
Identities = 57/342 (16%), Positives = 101/342 (29%), Gaps = 66/342 (19%)
Query: 92 DMRSKSKTISKPVEHPSELPK------WNYDGSS-TGQAPGEDSEVILYPQA--IFKDPF 142
D S++ S P K + DG G A S+++L P+
Sbjct: 23 DAAGASRSKSIP---AQFFEKVIHARGYLEDGEVNAGAAGAAASDIVLMPELSTAAVAAA 79
Query: 143 RGGNNILVICDTYTP-AGEPIPTNKRH--RAAEIFSNSKVSAEVPWFGIEQEYTLLQQNV 199
VICD A P R+ RAA + +A ++ +
Sbjct: 80 AAAATAAVICDGGAAAAASP-----RYIARAALAQLQAAGAAAGLLSAFIADFCIFGV-P 133
Query: 200 KWPLGWPVGAYPGPQGPYYCGAGADKS--FGRDIADAHYKACLYA-GINISGTNGEVMPG 256
+ + + + + ++ A A G G G
Sbjct: 134 EVIN---------SKTISFPASTTAAAADQPQEAAA------GGAAGAAAGAAGGAAAAG 178
Query: 257 QWEYQVGP-SVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDWNGAGCHTNYS-- 313
E P + G A D+ + R L+ + + + S GAG H+ +
Sbjct: 179 AAEICFLPEAAGAAAADNAFTLRTGLQEVARRYNAIASAAAAAAAAA-AGAGSHSIWDVG 237
Query: 314 ---TKSMREEGGY---ETIKKAILNLSLRHKEHISA--------YGEGNERRLTGKHETA 359
T + G T K + L L +A A
Sbjct: 238 AAGTNAFAGASGARATLTGAKWLAGL-LAAAAAAAAAAAAAAAAA-----AAAAAGAA-A 290
Query: 360 SIDSFSWGVANRGCSIRVGRETEKQGKGYLEDRRPASNMDPY 401
+ + +WG A C++ + +G +E++ A+ +PY
Sbjct: 291 AA-ATAWGAAAAACALNIAAAAAAKGA-QIENKAGAAAANPY 330
>3o6x_A Glutamine synthetase; type III, beta barrel,dodecamer, ligas; HET:
P3S ADP; 3.50A {Bacteroides fragilis}
Length = 729
Score = 57.3 bits (138), Expect = 5e-09
Identities = 45/243 (18%), Positives = 77/243 (31%), Gaps = 48/243 (19%)
Query: 114 NYDGSSTGQAPG-----EDSEVILYPQAIFKDPF-------RGGNNILVICDTYTPAGEP 161
DG + G ++ + +P ++ F G++ + DT
Sbjct: 109 GEDGEVIERFSGKLLIQQEPDASSFPNGGIRNTFEARGYTAWDGSSPAFVVDTTLCIPTI 168
Query: 162 ------------IPTNKRHRAAEI-------FSNSKVSAEVPWFGIEQEYTLL-----QQ 197
P K A + + ++ G EQEY L+
Sbjct: 169 FISYTGEALDYKTPLLKALAAVDKAATEVCQLFDKNITRVFTNLGWEQEYFLVDTSLYNA 228
Query: 198 NVKWPLGWPV-----GAYPGPQGPYYCGAGADK--SFGRDIADAHYKACLYAGINISGTN 250
L A +Y G+ + +F +++ +K GI + +
Sbjct: 229 RPDLRLTGRTLMGHSSAKDQQLEDHYFGSIPPRVTAFMKELEIECHKL----GIPVKTRH 284
Query: 251 GEVMPGQWEYQVGPSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDWNGAGCHT 310
EV P Q+E A DH L++RI + + KP G NG+G H
Sbjct: 285 NEVAPNQFELAPIFENCNLANDHNQLVMDLMKRIARKHHFAVLFHEKPYNGV-NGSGKHN 343
Query: 311 NYS 313
N+S
Sbjct: 344 NWS 346
>3qaj_A Glutamine synthetase; AMP-PCP, ACP, ligase; HET: GLU ADP RGP CIT
AMP; 3.05A {Bacillus subtilis}
Length = 444
Score = 54.4 bits (132), Expect = 4e-08
Identities = 79/347 (22%), Positives = 123/347 (35%), Gaps = 66/347 (19%)
Query: 92 DMRSKSKTISKPVEHPSELPKW-----NYDGSS-TGQAPGEDSEVILYPQA--IFKDPFR 143
D+ K + P S+L K +DGSS G E+S++ LYP P+
Sbjct: 27 DILGTIKNVEIP---VSQLGKALDNKVMFDGSSIEGFVRIEESDMYLYPDLNTFVIFPWT 83
Query: 144 G--GNNILVICDTYTPAGEPIPTNKRHRA--AEIFSNSKVSAEVPWFGIEQEYTLLQQNV 199
G ICD Y P G P + R+ ++ G E E+ L + +
Sbjct: 84 AEKGKVARFICDIYNPDGTPFEGDPRNNLKRILKEMEDLGFSDF-NLGPEPEFFLFKLDE 142
Query: 200 KWPLGWPVGAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYAGINISGTNGEVMPGQWE 259
K +G Y+ A D G + G I ++ EV PGQ E
Sbjct: 143 KGEPTLE----LNDKGGYFDLAPTDL--GENCRRDIVLELEEMGFEIEASHHEVAPGQHE 196
Query: 260 YQVGPSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDWNGAGCHTNYS-----T 314
+ + + D I + +++ I + G+ + PKP+ G NG+G H N S
Sbjct: 197 IDFKYAGAVRSCDDIQTFKLVVKTIARKHGLHATFMPKPLFGV-NGSGMHCNLSLFKNGV 255
Query: 315 KSMREEGGYETIKKAILNLS----------LRHKEHISA--------YGEGNERRLTGKH 356
+ +E L LS ++H +A Y +RL +
Sbjct: 256 NAFFDENAD-------LQLSETAKHFIAGIVKHATSFTAVTNPTVNSY-----KRLVPGY 303
Query: 357 ETASIDSFSWGVANRGCSIRV--GRETEKQGKGYLEDRRPASNMDPY 401
E A +W NR IR+ R + +E R +PY
Sbjct: 304 E-APC-YVAWSAQNRSPLIRIPASRGISTR----VEVRSVDPAANPY 344
>3ng0_A Glutamine synthetase; GSI, nitrogen metabolism, synec ligase; HET:
ANP; 2.80A {Synechocystis SP}
Length = 473
Score = 51.4 bits (124), Expect = 3e-07
Identities = 54/227 (23%), Positives = 88/227 (38%), Gaps = 32/227 (14%)
Query: 116 DGSS-TGQAPGEDSEVILYPQA--IFKDPFRGGNNILVICDTYTPA-GEPIPTNKRHRA- 170
DGSS G +S++ + P DPF + +IC P GE + R A
Sbjct: 53 DGSSIRGWKAINESDMCMVPDPNTATIDPFCKEPTLSMICSIKEPRTGEWYNRDPRTIAA 112
Query: 171 -AEIFSNSKVSAEVPWFGIEQE-----------------YTLLQQNVKWPLGWP-----V 207
A + A+ +FG E E Y +W G +
Sbjct: 113 KAAEYLRGTGIADTVYFGPEAEFFLFDDIRFGQTENSSYYFADSVEGRWNTGREEEGGNL 172
Query: 208 GAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYAGINISGTNGEVMP-GQWEYQVGPSV 266
G PG + Y+ A D +DI G+ I + EV GQ E +
Sbjct: 173 GYKPGYKQGYFPVAPTDT--AQDIRTEMLLTMAAFGVPIEKHHHEVASGGQNELGIKFDK 230
Query: 267 GIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDWNGAGCHTNYS 313
+++ D++ +Y+++ + ++ G ++ PKPI D NG+G H + S
Sbjct: 231 LVNSADNLMIYKYVIKNVAKKYGKTVTFMPKPIFND-NGSGMHVHQS 276
>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 = 49.5 bits (119), Expect = 1e-06
Identities = 83/342 (24%), Positives = 127/342 (37%), Gaps = 74/342 (21%)
Query: 116 DGSS-TGQAPGEDSEVILYPQA--IFKDPFRGGNNILVICDTYTPA-GEPIPTNKRHRA- 170
DGSS G +S+++L P DPFR + + + P EP + R+ A
Sbjct: 62 DGSSIRGFQSIHESDMLLLPDPETARIDPFRAAKTLNINFFVHDPFTLEPYSRDPRNIAR 121
Query: 171 -AEIFSNSKVSAEVPWFGIEQE-----------------YTLLQQNVKWPLGWP------ 206
AE + S A+ +FG E E Y + + W G
Sbjct: 122 KAENYLISTGIADTAYFGAEAEFYIFDSVSFDSRANGSFYEVDAISGWWNTGAATEADGS 181
Query: 207 --VGAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYAGINISGTNGEVMP-GQWEYQVG 263
G +G Y+ A D+ D+ D + +G + + EV GQ E
Sbjct: 182 PNRGYKVRHKGGYFPVAPNDQ--YVDLRDKMLTNLINSGFILEKGHHEVGSGGQAEINYQ 239
Query: 264 PSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDWNGAGCHTNYS-----TKSMR 318
+ + A D + +Y+++ Q G ++ PKP+ GD NG+G H + S M
Sbjct: 240 FNSLLHAADDMQLYKYIIKNTAWQNGKTVTFMPKPLFGD-NGSGMHCHQSLWKDGAPLMY 298
Query: 319 EEGGYETIKKAILNLS----------LRHKEHISA--------YGEGNERRLTGKHETAS 360
+E GY LS L H + A Y +RL +E A
Sbjct: 299 DETGY-------AGLSDTARHYIGGLLHHAPSLLAFTNPTVNSY-----KRLVPGYE-AP 345
Query: 361 IDSFSWGVANRGCSIRVGRETEKQGKGY-LEDRRPASNMDPY 401
I + + NR +R+ T K LE R P S+ +PY
Sbjct: 346 I-NLVYSQRNRSACVRIPI-TGSNPKAKRLEFRSPDSSGNPY 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 = 49.1 bits (118), Expect = 1e-06
Identities = 53/227 (23%), Positives = 83/227 (36%), Gaps = 32/227 (14%)
Query: 116 DGSS-TGQAPGEDSEVILYPQA--IFKDPFRGGNNILVICDTYTPA-GEPIPTNKRHRA- 170
DGSS G +S+++L P A DPF + +++ CD P + + R A
Sbjct: 50 DGSSIGGWKGINESDMVLMPDASTAVIDPFFADSTLIIRCDILEPGTLQGYDRDPRSIAK 109
Query: 171 -AEIFSNSKVSAEVPWFGIEQE-----------------YTLLQQNVKWPLGWP-----V 207
AE + + A+ FG E E + W
Sbjct: 110 RAEDYLRATGIADTVLFGPEPEFFLFDDIRFGASISGSHVAIDDIEGAWNSSTKYEGGNK 169
Query: 208 GAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYAGINISGTNGEVMP-GQWEYQVGPSV 266
G PG +G Y+ D +DI G+ + + EV GQ E +
Sbjct: 170 GHRPGVKGGYFPVPPVDS--AQDIRSEMCLVMEQMGLVVEAHHHEVATAGQNEVATRFNT 227
Query: 267 GIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDWNGAGCHTNYS 313
D I +Y++ + + G + PKP+ GD NG+G H + S
Sbjct: 228 MTKKADEIQIYKYVVHNVAHRFGKTATFMPKPMFGD-NGSGMHCHMS 273
>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 = 48.9 bits (116), Expect = 3e-06
Identities = 84/552 (15%), Positives = 141/552 (25%), Gaps = 206/552 (37%)
Query: 4 ILAPSMQW----QMRMPKYSNIASPMTTKMW-----SS---LLMKQNKKGTNRSSAKF-R 50
+L P+ + Q++ + P T ++ L+ KF
Sbjct: 20 LLVPTASFFIASQLQEQFNKILPEP-TEGFAADDEPTTPAELV------------GKFLG 66
Query: 51 VLALKSEDSTVNRLEDLLNLDITPYTDK---------IIAEYIWIGGTGIDMRSK----- 96
++ E S V + + +LNL +T + + + A+ + T + +
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY 126
Query: 97 ---SKTISKPVE--HPSELPKWNYDGSSTGQAPGEDSEVILYPQAIFKDPFRGG--NNI- 148
+P + S L + G A L AIF GG N
Sbjct: 127 ITARIMAKRPFDKKSNSAL----FRAVGEGNAQ-------LV--AIF-----GGQGNTDD 168
Query: 149 ----LV-ICDTYTPAGEPIPTNKRHRAAEIFSN---SKVSAEVPWFGIEQEYTLLQQNVK 200
L + TY + +AE S + + AE F Q +L+
Sbjct: 169 YFEELRDLYQTYHVLVGDL----IKFSAETLSELIRTTLDAE-KVFT--QGLNILE---- 217
Query: 201 WPLGWPVGAYPGPQGPYYCGAGADKSF---GRDIADAHYK-ACLYAGIN-------ISGT 249
W P Y S G I AHY G + G
Sbjct: 218 ----WLENPSNTPDKDYLLSIPI--SCPLIGV-IQLAHYVVTAKLLGFTPGELRSYLKGA 270
Query: 250 NGEVMPGQWEYQVGPSVGIDAGDHIWCSRYLLERITEQAGVVLSLDPKPIEGDWNGAGCH 309
G + +V I D W S +A VL + G C+
Sbjct: 271 TGHSQ------GLVTAVAIAETDS-WES---FFVSVRKAITVLF---------FIGVRCY 311
Query: 310 TNYSTKSMR-------EEGG--------------YETIKKAI--LNLSLRHKEHISA--- 343
Y S+ E E ++ + N L + +
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV 371
Query: 344 ---------------YG-------------------EGNERRLTGKHE----TA------ 359
YG +ER+L + +
Sbjct: 372 NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHL 431
Query: 360 ---SIDSFSWGVANRGCSIRVGR------ETEKQGKGYLEDRRPASNMDPYVVTSLLAET 410
+ D + + S +T G D R S + +
Sbjct: 432 LVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD-GS----DLRVLSGSISERIVDCIIRL 486
Query: 411 TILWEPTLEAEA 422
+ WE T + +A
Sbjct: 487 PVKWETTTQFKA 498
Score = 32.3 bits (73), Expect = 0.37
Identities = 41/266 (15%), Positives = 72/266 (27%), Gaps = 113/266 (42%)
Query: 88 GTGIDMRSKSK-------------------TISKPVEH-PSELPKWNYDGSSTGQAPGED 127
G G+D+ SK +I V + P L + G G+ E+
Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTI--HFGGEKGKRIREN 1687
Query: 128 SEVILY---------PQAIFKD--------PFRGGNNILVICDT-YT-PAGEPIPTNKRH 168
+++ + IFK+ FR +L T +T PA
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSA--TQFTQPA---------- 1735
Query: 169 RAAEIFSNSKVSAEVPWFGIEQEYTLLQQNVKWPLGWPVGAYPGPQ-------GPY---Y 218
+ K + E ++ + G P G Y
Sbjct: 1736 ----LTLMEKAAFED----LKSK----------------GLIPADATFAGHSLGEYAALA 1771
Query: 219 CGAGADKSFGRDIADA----HYKACLYAGINISGTNGE-------VMPGQWEYQVGPSVG 267
A I Y+ G + PG+ V S
Sbjct: 1772 SLADV---M--SIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGR----VAASFS 1822
Query: 268 IDAGDHIWCSRYLLERITEQAGVVLS 293
+A +Y++ER+ ++ G ++
Sbjct: 1823 QEA------LQYVVERVGKRTGWLVE 1842
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 34.8 bits (79), Expect = 0.067
Identities = 79/413 (19%), Positives = 128/413 (30%), Gaps = 113/413 (27%)
Query: 12 QMRMP------KYSNIASPMTT-KMWSSLLMKQNKKGTNRSSAKFRV-LALKSEDSTVNR 63
Q +M N SP T +M LL + + T+RS + L + S + + R
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236
Query: 64 L-------EDLLNLD------------------ITPYT-DKIIAEYIWIGGTG-IDMRSK 96
L LL L +T T K + +++ T I +
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT--TRFKQVTDFLSAATTTHISLDHH 294
Query: 97 SKTISKPVEHPSELPKWNYDGSSTGQAPGEDSEVILYPQAI--FKDPFRGGNNIL----- 149
S T++ E S L K+ P E P+ + + R G
Sbjct: 295 SMTLTPD-EVKSLLLKYL--DCRPQDLPREVLTTN--PRRLSIIAESIRDGLATWDNWKH 349
Query: 150 VICDTYTPAGE-------PIPTNKRHRAAEIF-SNSKVSAEV---PWFGIEQE------- 191
V CD T E P K +F ++ + + WF + +
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409
Query: 192 ----YTLLQQNVKWPLGWPVGAYPGPQGPYYCGAGADKSFGRDIADAHYKACLYAGINIS 247
Y+L++ K P + P + + R I D HY
Sbjct: 410 KLHKYSLVE---KQPKESTIS-IPSIYLELKVKLENEYALHRSIVD-HYN---------- 454
Query: 248 GTNGEVMPGQWEYQVGPSVGIDA------GDHIWCSRYLLERITEQAGVVLS---LDPKP 298
+P ++ +D G H+ ER+T V L L+ K
Sbjct: 455 ------IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE-HPERMTLFRMVFLDFRFLEQK- 506
Query: 299 IEGD---WNGAGCHTN-------YSTKSMREEGGYETIKKAILNLSLRHKEHI 341
I D WN +G N Y + YE + AIL+ + +E++
Sbjct: 507 IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL 559
Score = 30.6 bits (68), Expect = 1.3
Identities = 19/100 (19%), Positives = 37/100 (37%), Gaps = 21/100 (21%)
Query: 1 MAQILAPSMQWQMRMPKYSNIASPMTTKMWSSLLMKQNKKGTNRSSAKFRVLALKSEDST 60
+ ++L + ++ M K M T+M+ + N+ AK+
Sbjct: 83 VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE--QRDRLYNDNQVFAKY----------N 130
Query: 61 VNRLEDLLNLDITPYTDKIIAEYIWI---GGTGIDMRSKS 97
V+RL+ L L + A+ + I G+G K+
Sbjct: 131 VSRLQPYLKLRQALLELR-PAKNVLIDGVLGSG-----KT 164
>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 = 27.6 bits (60), Expect = 6.0
Identities = 11/40 (27%), Positives = 14/40 (35%), Gaps = 20/40 (50%)
Query: 382 EKQG--------KGYLEDRRPASNMDPYVVTSLLA-ETTI 412
EKQ K Y +D PA LA + T+
Sbjct: 18 EKQALKKLQASLKLYADDSAPA-----------LAIKATM 46
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 0.133 0.407
Gapped
Lambda K H
0.267 0.0444 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,686,480
Number of extensions: 402306
Number of successful extensions: 497
Number of sequences better than 10.0: 1
Number of HSP's gapped: 486
Number of HSP's successfully gapped: 26
Length of query: 432
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 336
Effective length of database: 4,021,377
Effective search space: 1351182672
Effective search space used: 1351182672
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: 59 (27.2 bits)