RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy652
(331 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 = 58.1 bits (140), Expect = 2e-09
Identities = 80/384 (20%), Positives = 129/384 (33%), Gaps = 124/384 (32%)
Query: 2 LLGSESRQERDKQS----TVNTLQWTLSKYSVSDPASLPGKILSPYLFNASYAPEFSADG 57
L R D + +N L+W + +P++ P K YL P S
Sbjct: 194 TLSELIRTTLDAEKVFTQGLNILEW------LENPSNTPDK---DYL---LSIP-ISCPL 240
Query: 58 VKIL----Y------NDQTP--IRTTVK--FGHSKGLVVGN--SRGGIWIVHSVPHFVDD 101
+ ++ Y TP +R+ +K GHS+GLV + W F
Sbjct: 241 IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSW-----ESFFVS 295
Query: 102 SQTSYTYP-HTGLMYGQNFLCLSLNASQL-DSVGDNLG----------------HNQIYK 143
+ + T G+ + + SL S L DS+ +N G + + K
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK 355
Query: 144 YSTFLSAGNKGVFPTL-----ARVIAG--------------EYATSGDNFFQSTI-F--- 180
++ L AG + V +L V++G A SG + QS I F
Sbjct: 356 TNSHLPAGKQ-VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD--QSRIPFSER 412
Query: 181 -----TRFNQI--PFHTF----AKTRELGDDLYKRISDNLNVNLL------VETWPNGPG 223
RF + PFH+ A D + +S N + +
Sbjct: 413 KLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVS--FNAKDIQIPVYDTFDGSD--- 467
Query: 224 RLRTDCESPAHEVMNVEGVALSGV-----VEFRSTHDHAKWTISFGNETRSNLNQDSISK 278
LR S + + V+ + V +F++TH + FG S L ++
Sbjct: 468 -LRVLSGSISERI--VDCIIRLPVKWETTTQFKATH-----ILDFGPGGASGLG--VLTH 517
Query: 279 HKTDG--ARHFVCNG--DINRAED 298
DG R + G DIN +D
Sbjct: 518 RNKDGTGVR-VIVAGTLDINPDDD 540
Score = 47.0 bits (111), Expect = 7e-06
Identities = 47/259 (18%), Positives = 89/259 (34%), Gaps = 64/259 (24%)
Query: 44 LFNASYAP------EFSADGVKILYNDQTPIRTTVKFGHSKGLVVGNSRGGIWIVH--SV 95
L+ +Y +FSA+ + L +T + F GL + W+ + +
Sbjct: 176 LYQ-TYHVLVGDLIKFSAETLSELI--RTTLDAEKVFTQ--GLNILE-----WLENPSNT 225
Query: 96 P--HFVDDSQTSYTYPHTGLMYGQNFLCLSLNASQLDSVGDNLGHNQIYKYSTFLSAGNK 153
P ++ S P G++ Q + A L ++ Y + ++
Sbjct: 226 PDKDYLLSIPISC--PLIGVI--Q-LAHYVVTAKLLG-----FTPGELRSYLKGATGHSQ 275
Query: 154 GVFPTLARVIAGEYATSGDNFFQSTIFTRFNQIPFHTFAKTRELGDDLYKRISDNLNVNL 213
G+ A IA S ++FF S + + F + E Y S L ++
Sbjct: 276 GLV--TAVAIAE--TDSWESFFVSVR--KAITVLFFIGVRCYEA----YPNTS--LPPSI 323
Query: 214 LVETWPNGPGRLRTDCESPAHEVM-NVEGVALSGVVEFRSTHDHAKWTISFGNETRSNLN 272
L ++ N G SP M ++ + V ++ ++ N
Sbjct: 324 LEDSLENNEGV-----PSP----MLSISNLTQEQVQDY----------VNKTNSHLPAGK 364
Query: 273 QDSISKHKTDGARHFVCNG 291
Q IS +GA++ V +G
Sbjct: 365 QVEISLV--NGAKNLVVSG 381
Score = 46.2 bits (109), Expect = 1e-05
Identities = 59/281 (20%), Positives = 87/281 (30%), Gaps = 107/281 (38%)
Query: 53 FSADGVKILYNDQTPIRTTVKFGHSKG---------LVVGNSRGGIWIVHSVPHFVDDSQ 103
FS + I+ N+ P+ T+ FG KG ++ G + +++
Sbjct: 1659 FSI--LDIVINN--PVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHS 1714
Query: 104 TSYTYPH-TGLMYGQNFLCLSL--NASQ--LDSVGDNLGHNQIYKYSTFLSAGNKGVFPT 158
TSYT+ GL LS Q L + + F +KG+ P
Sbjct: 1715 TSYTFRSEKGL--------LSATQFT-QPALTLME----------KAAFEDLKSKGLIPA 1755
Query: 159 LARVIA----GEY----ATSGDNFFQSTI---FTR--FNQIPFHTFAKTRELGDDLYKRI 205
A A GEY + + +S + F R Q ELG Y I
Sbjct: 1756 DA-TFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQ----VAVPRDELGRSNYGMI 1810
Query: 206 SDNLNVNLLVETWPNGPGRLRTDCESPAHEVMNVEGVA--LSGVVEFRSTHDHAKWTISF 263
+ N PGR+ A + + VE V +VE I
Sbjct: 1811 AIN-------------PGRVAASFSQEALQYV-VERVGKRTGWLVE-----------I-- 1843
Query: 264 GNETRSNLN----QDSISKHKTDGARHFVCNGDINRAEDQL 300
N N Q +V GD+ RA D +
Sbjct: 1844 -----VNYNVENQQ-------------YVAAGDL-RALDTV 1865
>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 = 39.9 bits (92), Expect = 3e-04
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 9/37 (24%)
Query: 12 DKQSTVNTLQWTLSKYSVSDPASLPGKILSPYLFNAS 48
+KQ+ + LQ +L Y+ S P L+ A+
Sbjct: 18 EKQA-LKKLQASLKLYA---DDSAPA--LA---IKAT 45
>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 = 36.4 bits (83), Expect = 0.013
Identities = 27/227 (11%), Positives = 54/227 (23%), Gaps = 75/227 (33%)
Query: 2 LLGSESRQERD-----KQSTVNTLQWTLSKYSVSDPASLPGKILSPYLFNASYAPEFS-- 54
++ R K + L + +SL +L P + + S
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTIIE-------SSL--NVLEPAEYRKMFD-RLSVF 381
Query: 55 ADGVKI-------LYND---QTPIRTTVKFGHSKGLVVGNSRGGIWIVHSVPHFVDDSQT 104
I ++ D + K H LV ++
Sbjct: 382 PPSAHIPTILLSLIWFDVIKSDVMVVVNKL-HKYSLVEK----------------QPKES 424
Query: 105 SYTYPHTGLMYGQNFLCLSLNASQLDSVGDNLGHNQIY-KYSTFLSAGNKGVFPTLARVI 163
+ + P +Y N L H I Y+ + + + P
Sbjct: 425 TISIPS---IY-LELKVKLENEYAL--------HRSIVDHYNIPKTFDSDDLIPPYL--- 469
Query: 164 AGEYATSGDNFFQSTIFTRFNQIPFHTFAKTRELGDDLYKRISDNLN 210
D +F ++ I H L++ + +
Sbjct: 470 --------DQYF-------YSHIGHHLKNIEHPERMTLFRMVFLDFR 501
>3jsb_A Protein L, RNA-directed RNA polymerase; viral protein, vizier,
structural genomics, marseilles struc genomics program @
AFMB; 2.13A {Lymphocytic choriomeningitis virus}
Length = 204
Score = 29.5 bits (66), Expect = 1.1
Identities = 14/71 (19%), Positives = 21/71 (29%), Gaps = 5/71 (7%)
Query: 138 HNQIYKYSTFLSAGNKGVFPTLARVIAGEYATSGDNFFQSTIFTRFNQIPF-----HTFA 192
HN K + + V P L +I Y ++ F R F
Sbjct: 69 HNHDDKSVETILVESGIVCPGLPLIIPDGYKLIDNSLILLECFVRSTPASFEKKFIEDTN 128
Query: 193 KTRELGDDLYK 203
K + +DL
Sbjct: 129 KLACIREDLAV 139
>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 = 27.5 bits (62), Expect = 5.2
Identities = 11/67 (16%), Positives = 19/67 (28%), Gaps = 17/67 (25%)
Query: 255 DHAKWTISFGNETRSNLNQDS-------ISKHKT------DGARHFVCNGDINRAEDQLK 301
I G +TR S + K D AR F+ ++ + +
Sbjct: 78 HEKVLGIVEGGDTR----SQSVRSALEFLEKFSPSYVLVHDSARPFLRKKHVSEVLRRAR 133
Query: 302 RGGGSVC 308
G +
Sbjct: 134 ETGAATL 140
>2px7_A 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase; TTHA0171,
ISPD_THET8, ISPD, structural genomics PSI; 2.20A
{Thermus thermophilus HB8}
Length = 236
Score = 27.2 bits (61), Expect = 6.4
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 282 DGARHFVCNGDINRAEDQLKRGGGSVC 308
D AR FV G + R + +R G +V
Sbjct: 113 DVARPFVSRGLVARVLEAAQRSGAAVP 139
>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 = 27.1 bits (61), Expect = 7.6
Identities = 7/27 (25%), Positives = 10/27 (37%)
Query: 282 DGARHFVCNGDINRAEDQLKRGGGSVC 308
D AR V D+ + G +V
Sbjct: 105 DSARPLVNTEDVEKVLKDGSAVGAAVL 131
>3m1u_A Putative gamma-D-glutamyl-L-diamino acid endopept; structural
genomics, joint center for structural genomics; HET: MSE
MES; 1.75A {Desulfovibrio vulgaris}
Length = 434
Score = 27.0 bits (59), Expect = 9.1
Identities = 10/49 (20%), Positives = 18/49 (36%), Gaps = 2/49 (4%)
Query: 48 SYAPEFSADGVKILYNDQTPIRTTVKF-GHSKGLVVGNSRGGIWIVHSV 95
A + D + + P T + GH L +G G + H++
Sbjct: 333 DIAKLDADDKEARIVAEGVPFMTLLWLRGHI-TLYLGLHEGQAAMFHNM 380
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 0.134 0.405
Gapped
Lambda K H
0.267 0.0514 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,773,243
Number of extensions: 268008
Number of successful extensions: 405
Number of sequences better than 10.0: 1
Number of HSP's gapped: 400
Number of HSP's successfully gapped: 12
Length of query: 331
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 237
Effective length of database: 4,077,219
Effective search space: 966300903
Effective search space used: 966300903
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: 57 (26.2 bits)