RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 026354
(240 letters)
>2d3a_A Glutamine synthetase; ligase; HET: P3S ADP; 2.63A {Zea mays} PDB:
2d3b_A* 2d3c_A*
Length = 356
Score = 350 bits (899), Expect = e-122
Identities = 195/222 (87%), Positives = 215/222 (96%)
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 YAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILE 222
YAGINISGINGEVMPGQWEFQVGP+VGIS+GDQ+WVARYILE
Sbjct: 181 YAGINISGINGEVMPGQWEFQVGPSVGISSGDQVWVARYILE 222
>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 = 307 bits (789), Expect = e-105
Identities = 112/206 (54%), Positives = 144/206 (69%), Gaps = 3/206 (1%)
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 QWEFQVGPAVGISAGDQLWVARYILE 222
QWEFQ+GP GIS GD LWVAR+IL
Sbjct: 220 QWEFQIGPCEGISMGDHLWVARFILH 245
>3fky_A Glutamine synthetase; beta-grAsp, catalytic domain, acetylation,
cytoplasm, ligase, UBL conjugation; HET: FLC; 2.95A
{Saccharomyces cerevisiae}
Length = 370
Score = 298 bits (766), Expect = e-101
Identities = 119/206 (57%), Positives = 147/206 (71%), Gaps = 4/206 (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 QWEFQVGPAVGISAGDQLWVARYILE 222
QWEFQVGP GI GDQLW+ARY L
Sbjct: 198 QWEFQVGPCTGIDMGDQLWMARYFLH 223
>2j9i_A Glutamate-ammonia ligase domain-containing protein 1; 17.00A {Mus
musculus}
Length = 421
Score = 37.5 bits (88), Expect = 0.003
Identities = 26/179 (14%), Positives = 45/179 (25%), Gaps = 39/179 (21%)
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-AVGISAGDQLWVARYI 220
A ++ A G G G E P A G +A D + R
Sbjct: 151 AADQPQEAAA------GGAAGAAAGAAGGAAAAGAAEICFLPEAAGAAAADNAFTLRTG 203
>3o6x_A Glutamine synthetase; type III, beta barrel,dodecamer, ligas; HET:
P3S ADP; 3.50A {Bacteroides fragilis}
Length = 729
Score = 36.9 bits (85), Expect = 0.004
Identities = 29/212 (13%), Positives = 62/212 (29%), Gaps = 47/212 (22%)
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 GEVMPGQWEFQVGPAVGISAGDQLWVARYILE 222
EV P Q+E A D + +++
Sbjct: 285 NEVAPNQFELAPIFENCNLANDHNQLVMDLMK 316
>3qaj_A Glutamine synthetase; AMP-PCP, ACP, ligase; HET: GLU ADP RGP CIT
AMP; 3.05A {Bacillus subtilis}
Length = 444
Score = 35.2 bits (82), Expect = 0.016
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 5/62 (8%)
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 AK 112
+
Sbjct: 113 KR 114
>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 = 34.1 bits (79), Expect = 0.029
Identities = 25/101 (24%), Positives = 43/101 (42%), Gaps = 7/101 (6%)
Query: 56 DGSS-TGQAPGEDSEVILYPQA--IFKDPFRRGNNILVMCDAYTPA-GEPIPTNKRHAAA 111
DGSS G +S+++L P DPFR + + + P EP + R+ A
Sbjct: 62 DGSSIRGFQSIHESDMLLLPDPETARIDPFRAAKTLNINFFVHDPFTLEPYSRDPRNIAR 121
Query: 112 KIFSH--SDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGY 150
K ++ S +A+ ++G E E+ + V + Y
Sbjct: 122 KAENYLISTGIADTAYFGAEAEFYIF-DSVSFDSRANGSFY 161
>3ng0_A Glutamine synthetase; GSI, nitrogen metabolism, synec ligase; HET:
ANP; 2.80A {Synechocystis SP}
Length = 473
Score = 34.1 bits (79), Expect = 0.034
Identities = 27/124 (21%), Positives = 47/124 (37%), Gaps = 15/124 (12%)
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+++ YY + W
Sbjct: 113 KAAEYLRGTGIADTVYFGPEAEFFLF-DDIRF--------GQTENSSYYFADSVEGRWNT 163
Query: 170 DIVD 173
+
Sbjct: 164 GREE 167
>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 = 33.7 bits (78), Expect = 0.044
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 56 DGSS-TGQAPGEDSEVILYPQA--IFKDPFRRGNNILVMCDAYTPA-GEP 101
DGSS G +S+++L P A DPF + +++ CD P +
Sbjct: 50 DGSSIGGWKGINESDMVLMPDASTAVIDPFFADSTLIIRCDILEPGTLQG 99
>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 = 32.3 bits (73), Expect = 0.14
Identities = 12/65 (18%), Positives = 24/65 (36%), Gaps = 5/65 (7%)
Query: 62 QAPGEDSEVILYPQAIFKDPFRRGNNI--LVMCDAYTPAGEPIPTNKRHAAAKIFSHSDV 119
G+ +V+ F++ + GN+I L A K K + + +
Sbjct: 75 SKVGQFDQVLNLCLTEFENCYLEGNDIHALA---AKLLQENDTTLVKTKELIKNYITARI 131
Query: 120 VAEEP 124
+A+ P
Sbjct: 132 MAKRP 136
>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 = 26.8 bits (58), Expect = 4.4
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
>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation,
N-terminal nucleophilic HYDR 19S regulatory particle;
HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB:
3nzw_H* 3nzx_H*
Length = 261
Score = 26.5 bits (59), Expect = 7.8
Identities = 7/32 (21%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 13 SESTDKI--IAEYIWIGGSGM--DMRSKARTL 40
++ K+ I+ IW G+G D + + +
Sbjct: 57 DKNCAKLHRISPKIWCAGAGTAADTEAVTQLI 88
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
0.317 0.138 0.451
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: 3,897,039
Number of extensions: 232848
Number of successful extensions: 437
Number of sequences better than 10.0: 1
Number of HSP's gapped: 432
Number of HSP's successfully gapped: 22
Length of query: 240
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 149
Effective length of database: 4,160,982
Effective search space: 619986318
Effective search space used: 619986318
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: 56 (25.9 bits)