RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5727
(303 letters)
>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 = 42.3 bits (99), Expect = 2e-04
Identities = 73/401 (18%), Positives = 106/401 (26%), Gaps = 162/401 (40%)
Query: 5 GQYSMNSVINKDYIA--RAEIFADRVYQSTKAYLPTISRACL---------ISTFLEDGL 53
GQ + DY R +++ + Y L S L GL
Sbjct: 162 GQGN-----TDDYFEELR-DLY--QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 54 RMWFQWNEQREYMDLSWHCGYFLGSLFVMINLIG--QLGGCILVLLQKRVPLAVGALFFI 111
+ +W E + +L S+ + LIG QL +V K + G L
Sbjct: 214 NI-LEWLENPS----NTPDKDYLLSIPISCPLIGVIQLA-HYVVTA-KLLGFTPGELRSY 266
Query: 112 LGGCI-----LVL------------LQKRVPLAVGALFFIVL-------LQTIAYKILLD 147
L G LV V A+ LFFI + ++ IL D
Sbjct: 267 LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILED 326
Query: 148 FQFL-------MRNLALVGALLLVLADSQQEARSVFAGVP-----SIG-DNKPKNYMQLA 194
M L++ L Q + +P I N KN + ++
Sbjct: 327 SLENNEGVPSPM--LSISN---LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV-VS 380
Query: 195 G--RSLLAFMYITLLR---------------------FEVTFL----------------Q 215
G +SL LR F FL
Sbjct: 381 GPPQSLYGL--NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDL 438
Query: 216 VIQDLF-------GTALMVLVTIGYKT-------KLSALI---LVLVLSFLNIYYNCWWV 258
+ +DL + + V Y T LS I +V + L + W
Sbjct: 439 INKDLVKNNVSFNAKDIQIPV---YDTFDGSDLRVLSGSISERIVDCIIRLPVK----W- 490
Query: 259 IPAEKAMRD----FLKYDFFQTLSVIGGLLMIVLRGPGSVS 295
E + L DF GPG S
Sbjct: 491 ---ETTTQFKATHIL--DF----------------GPGGAS 510
Score = 29.6 bits (66), Expect = 1.7
Identities = 16/81 (19%), Positives = 29/81 (35%), Gaps = 26/81 (32%)
Query: 157 LVGALLLVLADSQQEARSVF-AGVPS-----IGDNKPKNYMQLAGRSLLAFM-------- 202
LV +A SQ + F +P D++P +L G+ L ++
Sbjct: 21 LVPTASFFIA-SQL--QEQFNKILPEPTEGFAADDEPTTPAELVGK-FLGYVSSLVEPSK 76
Query: 203 ---YITLLR-----FEVTFLQ 215
+ +L FE +L+
Sbjct: 77 VGQFDQVLNLCLTEFENCYLE 97
>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 = 33.7 bits (76), Expect = 0.087
Identities = 41/296 (13%), Positives = 79/296 (26%), Gaps = 118/296 (39%)
Query: 22 EIFADRVYQSTKAYLPTISRAC--------LISTFLEDGLRMWFQW-------------- 59
+ + + LP +I+ + DGL W W
Sbjct: 305 SLLLKYLDCRPQD-LP--REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361
Query: 60 -------NEQRE-YMDLSWHCGYFLGSLF---VMI----------NLIGQLGGCILVLLQ 98
E R+ + LS +F I ++I ++ L
Sbjct: 362 SLNVLEPAEYRKMFDRLS---------VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLH 412
Query: 99 KRVPLAVGALFFILG--GCILVLLQKR-------------------------VPLAVGAL 131
K + + L L K +P +
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472
Query: 132 FFIVLLQTIAY---------------KILLDFQFLMRNLALVGALLLV---LADSQQEAR 173
F+ I + + LDF+FL + + + ++ Q+ +
Sbjct: 473 FY----SHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK 528
Query: 174 SVFAGVPSIGDNKPKNYMQLAGRSLLAFMY---ITLLRFEVTFLQVIQDLFGTALM 226
P I DN PK + ++L F+ L+ + + +++ ALM
Sbjct: 529 FY---KPYICDNDPKYERLV--NAILDFLPKIEENLICSK--YTDLLR----IALM 573
Score = 28.3 bits (62), Expect = 4.1
Identities = 11/53 (20%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 15 KDYIARAEIFADRVYQSTKAYLPTISRACLISTFLEDGLRMWFQWNEQREYMD 67
K YI + +R+ + +LP I + S + D LR+ ++ + +
Sbjct: 531 KPYICDNDPKYERLVNAILDFLPKIEENLICSKYT-DLLRIALMAEDEAIFEE 582
>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane
protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A
Length = 225
Score = 28.8 bits (65), Expect = 1.9
Identities = 8/44 (18%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 3 PSGQYSMNSVINKDYI----ARAEIFADRVYQSTKAYLPTISRA 42
P+ QY+ ++ ++ A+ E Y A++ ++R
Sbjct: 127 PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRV 170
>2yc3_A 2-C-methyl-D-erythritol 4-phosphate cytidylyltran chloroplastic;
transferase, non-mevalonate-pathway, herbicide,
allosteric P; HET: MW5; 1.40A {Arabidopsis thaliana}
PDB: 2yc5_A* 1w77_A* 2ycm_A*
Length = 228
Score = 27.5 bits (62), Expect = 4.3
Identities = 6/28 (21%), Positives = 11/28 (39%), Gaps = 3/28 (10%)
Query: 183 GDNKPKNYMQLAGRSLLAFMYITLLRFE 210
+ PK Y+ L G+ + + F
Sbjct: 19 KMSMPKQYIPLLGQPIA---LYSFFTFS 43
>1i52_A 4-diphosphocytidyl-2-C-methylerythritol synthase;
cytidylyltransferase, deoxyxylulose-5-phosphate pathway
(DXP isoprenoid biosynthesys, MEP; HET: CTP; 1.50A
{Escherichia coli} SCOP: c.68.1.13 PDB: 1ini_A* 1inj_A
1vgt_A 1vgu_A 3n9w_A 1h3m_A
Length = 236
Score = 27.5 bits (62), Expect = 4.4
Identities = 4/28 (14%), Positives = 11/28 (39%), Gaps = 3/28 (10%)
Query: 183 GDNKPKNYMQLAGRSLLAFMYITLLRFE 210
PK Y+ + +++L ++
Sbjct: 22 QTECPKQYLSIGNQTILEH---SVHALL 46
>1vgw_A 4-diphosphocytidyl-2C-methyl-D-erythritol synthas; structural
genomics, transferase; 2.35A {Neisseria gonorrhoeae}
SCOP: c.68.1.13 PDB: 1vgz_A
Length = 231
Score = 27.1 bits (61), Expect = 5.7
Identities = 9/28 (32%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 183 GDNKPKNYMQLAGRSLLAFMYITLLRFE 210
G +KPK Y+++ +++L L FE
Sbjct: 21 GADKPKQYVEIGSKTVLEH---VLGIFE 45
>1zq7_A Hypothetical protein MM0484; X-RAY, NESG, MAR9, Q8PZK8,
structural genomics, PSI, protein structure initiative;
2.11A {Methanosarcina mazei} SCOP: d.309.1.1
Length = 207
Score = 27.2 bits (60), Expect = 6.3
Identities = 13/61 (21%), Positives = 19/61 (31%), Gaps = 6/61 (9%)
Query: 33 KAYLPTISRACLISTFLEDGLRMWFQWNEQREYMDLSWHCGYFLGSLFVMINLIGQLGGC 92
++R I FL G + + G +FV + G L GC
Sbjct: 7 GRAAVKLARKT-IEIFLSKGKSPRPDASGVELSPVFEEYRG-----VFVTLTEGGLLRGC 60
Query: 93 I 93
I
Sbjct: 61 I 61
>1vpa_A 2-C-methyl-D-erythritol 4-phosphate cytidylyltran; TM1393, JCSG,
joint center for structural GENO PSI, protein structure
initiative; HET: CTP; 2.67A {Thermotoga maritima} SCOP:
c.68.1.13
Length = 234
Score = 26.7 bits (60), Expect = 7.7
Identities = 8/28 (28%), Positives = 14/28 (50%), Gaps = 3/28 (10%)
Query: 183 GDNKPKNYMQLAGRSLLAFMYITLLRFE 210
+N PK ++++ GR L + L F
Sbjct: 28 SENVPKQFLEIEGRMLFEY---PLSTFL 52
>2xwl_A 2-C-methyl-D-erythritol 4-phosphate cytidylyltran; transferase, MEP
pathway; HET: CTP; 1.49A {Mycobacterium smegmatis} PDB:
2xwm_A*
Length = 223
Score = 26.7 bits (60), Expect = 7.7
Identities = 7/28 (25%), Positives = 10/28 (35%), Gaps = 3/28 (10%)
Query: 183 GDNKPKNYMQLAGRSLLAFMYITLLRFE 210
+PK ++ L G LL L
Sbjct: 17 RAGRPKAFVTLGGTPLLE---HALSGLR 41
>3q80_A 2-C-methyl-D-erythritol 4-phosphate cytidyltransf; TB structural
genomics consortium, TBSGC, rossman fold; HET: CDM;
2.00A {Mycobacterium tuberculosis} PDB: 3q7u_A* 3okr_A
2xwn_A*
Length = 231
Score = 26.7 bits (60), Expect = 8.2
Identities = 6/28 (21%), Positives = 11/28 (39%), Gaps = 3/28 (10%)
Query: 183 GDNKPKNYMQLAGRSLLAFMYITLLRFE 210
PK + QL G++L+ +
Sbjct: 22 AVGVPKAFYQLDGQTLIER---AVDGLL 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
0.331 0.144 0.440
Gapped
Lambda K H
0.267 0.0825 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,552,085
Number of extensions: 267035
Number of successful extensions: 596
Number of sequences better than 10.0: 1
Number of HSP's gapped: 589
Number of HSP's successfully gapped: 22
Length of query: 303
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 210
Effective length of database: 4,105,140
Effective search space: 862079400
Effective search space used: 862079400
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 57 (25.6 bits)