RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1909
(92 letters)
>3gwa_A 3-oxoacyl-(acyl-carrier-protein) synthase III; structural genomics,
synthetase; 1.60A {Burkholderia pseudomallei} PDB:
3gwe_A
Length = 365
Score = 29.1 bits (66), Expect = 0.13
Identities = 13/65 (20%), Positives = 18/65 (27%), Gaps = 25/65 (38%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSLVT-- 52
+ VL D S+ P D+ S LFGD G + +
Sbjct: 160 AARCVLLLTADTYSKYLHPLDK---------SVRTLFGD-------GASATAVIAEHGEL 203
Query: 53 CGILS 57
I
Sbjct: 204 ERIGP 208
>1hnj_A Beta-ketoacyl-acyl carrier protein synthase III; FABH, transferase;
HET: MLC; 1.46A {Escherichia coli} SCOP: c.95.1.2
c.95.1.2 PDB: 1hn9_A* 1hnh_A* 1hnd_A* 1hnk_A 1mzs_A*
2eft_A* 2gyo_A* 3il9_A 1ebl_A*
Length = 317
Score = 29.0 bits (66), Expect = 0.14
Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 23/63 (36%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSLVTCG 54
K L D +R P DR T I+FGD G G ++++ G
Sbjct: 130 AVKYALVVGSDVLARTCDPTDR---------GTIIIFGD-------GAGAAVLAASEEPG 173
Query: 55 ILS 57
I+S
Sbjct: 174 IIS 176
>4dfe_A 3-oxoacyl-[acyl-carrier-protein] synthase 3; ssgcid, seattle
structural genomics center for infectious DI
transferase; 2.35A {Burkholderia xenovorans}
Length = 333
Score = 29.0 bits (66), Expect = 0.16
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 23/63 (36%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSLVTCG 54
QH+ L + SR +DR +T +LFGD G G V++ + G
Sbjct: 145 QHRTALVIGAETFSRILDFKDR---------TTCVLFGD-------GAGAVILQASDEPG 188
Query: 55 ILS 57
+L+
Sbjct: 189 VLA 191
>3il6_A 3-oxoacyl-[acyl-carrier-protein] synthase 3; FABH, fatty acid
biosynthesis, antibiotic, acyltransferase, cytoplasm,
lipid synthesis; HET: B83; 2.50A {Enterococcus faecalis}
PDB: 3il5_A* 3il4_A*
Length = 321
Score = 29.0 bits (66), Expect = 0.17
Identities = 16/63 (25%), Positives = 26/63 (41%), Gaps = 23/63 (36%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSLVTCG 54
+++ L + S+ DR STA+LFGD G GV++ + T
Sbjct: 131 RYQTGLVIGGETFSKMLDWTDR---------STAVLFGD-------GAAGVLIEAAETPH 174
Query: 55 ILS 57
L+
Sbjct: 175 FLN 177
>4efi_A 3-oxoacyl-(acyl-carrier protein) synthase; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; 1.35A {Burkholderia xenovorans}
Length = 354
Score = 28.7 bits (65), Expect = 0.18
Identities = 14/63 (22%), Positives = 19/63 (30%), Gaps = 23/63 (36%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSLVTCG 54
K VL D S+ P DR ST++LFGD + +
Sbjct: 146 AAKRVLLAVGDTISKMIDPTDR---------STSLLFGD-------AGTMTALETSNGDA 189
Query: 55 ILS 57
Sbjct: 190 AAH 192
>3il3_A 3-oxoacyl-[acyl-carrier-protein] synthase 3; FABH, fatty acid
biosynthesis, antibiotic, acyltransferase, cytoplasm,
lipid synthesis; 2.70A {Haemophilus influenzae}
Length = 323
Score = 28.6 bits (65), Expect = 0.21
Identities = 19/63 (30%), Positives = 25/63 (39%), Gaps = 23/63 (36%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSLVTCG 54
+ K L D SR DR ST +LFGD G G V++ + G
Sbjct: 137 KVKKALVIGSDLNSRKLDETDR---------STVVLFGD-------GAGAVILEASEQEG 180
Query: 55 ILS 57
I+S
Sbjct: 181 IIS 183
>1mzj_A Beta-ketoacylsynthase III; beta-ketosynthase, aromatic polyketide,
biosynthetic engineering, catalytic triad, transferase;
HET: COA; 2.10A {Streptomyces SP} SCOP: c.95.1.2
c.95.1.2
Length = 339
Score = 27.5 bits (62), Expect = 0.48
Identities = 13/63 (20%), Positives = 20/63 (31%), Gaps = 23/63 (36%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSLVTCG 54
+ VL ++ + DR S + LFGD G G ++ G
Sbjct: 139 GSRHVLVVATERMTDVIDLADR---------SLSFLFGD-------GAGAAVVGPSDVPG 182
Query: 55 ILS 57
I
Sbjct: 183 IGP 185
>2ebd_A 3-oxoacyl-[acyl-carrier-protein] synthase 3; FABH, aquifex VF5,
lipid metabolism, structural genomics; 2.10A {Aquifex
aeolicus}
Length = 309
Score = 27.4 bits (62), Expect = 0.58
Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 24/64 (37%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMS-SLVTC 53
+ K+VL +K S DR ST +LFGD G G V+++ S
Sbjct: 129 KAKNVLVIGAEKLSEAVDWEDR---------STCVLFGD-------GAGAVVVTRSEDKS 172
Query: 54 GILS 57
IL+
Sbjct: 173 DILA 176
>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 = 27.5 bits (60), Expect = 0.73
Identities = 13/80 (16%), Positives = 21/80 (26%), Gaps = 15/80 (18%)
Query: 5 DVLDKQSRPRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSL--VTCGILSGQTWP 62
D L + + S+ L D+ K L + L P
Sbjct: 279 DFLSAATTTHISLDHHSMTLTP------DEVKSLLLKYLDCRPQDLPREVLTTN-----P 327
Query: 63 YFLSLSLIGSHLASQIYHLD 82
LS+I + + D
Sbjct: 328 --RRLSIIAESIRDGLATWD 345
>1u6e_A 3-oxoacyl-[acyl-carrier-protein] synthase III; transferase; 1.85A
{Mycobacterium tuberculosis} SCOP: c.95.1.2 c.95.1.2
PDB: 1u6s_A* 1m1m_A 1hzp_A* 2qnx_A* 2qnz_A* 2qo1_A*
2qx1_A* 2qo0_A* 2qny_A* 2ahb_A 2aj9_A
Length = 335
Score = 26.7 bits (60), Expect = 0.96
Identities = 11/63 (17%), Positives = 16/63 (25%), Gaps = 23/63 (36%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSLVTCG 54
+L +K S DR +F D G V++ G
Sbjct: 140 GAATMLVVGTEKLSPTIDMYDR---------GNCFIFAD-------GAAAVVVGETPFQG 183
Query: 55 ILS 57
I
Sbjct: 184 IGP 186
>3oln_A E3 ubiquitin-protein ligase UHRF2; DNA-binding, metal-binding,
nucleus, phosphorylation transcription, transcription
regulation; 2.30A {Homo sapiens}
Length = 231
Score = 26.6 bits (58), Expect = 1.0
Identities = 12/64 (18%), Positives = 21/64 (32%), Gaps = 13/64 (20%)
Query: 10 QSRPRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSLVTCGILSGQTWPYFLSLSL 69
+SR + +G + +G + GI G TW + + +S
Sbjct: 4 ESRRDWGRGMACVGRTRECTIVPSNH------YGPIP-------GIPVGSTWRFRVQVSE 50
Query: 70 IGSH 73
G H
Sbjct: 51 AGVH 54
>2x3e_A 3-oxoacyl-[acyl-carrier-protein] synthase 3; HED, transferase,
acyltransferase, lipid synthesis, multifun enzyme; 1.81A
{Pseudomonas aeruginosa}
Length = 331
Score = 26.7 bits (60), Expect = 1.2
Identities = 16/66 (24%), Positives = 21/66 (31%), Gaps = 26/66 (39%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMSSLVT-- 52
L D S P DR ST LFGD G G V++ +
Sbjct: 130 LADSALLVGVDTFSHTLDPADR---------STRALFGD-------GAGAVVLRAGDAEE 173
Query: 53 -CGILS 57
+L+
Sbjct: 174 EGALLA 179
>1ub7_A 3-oxoacyl-[acyl-carrier protein] synthase; fatty acid synthesis,
beta-ketoacyl-ACP synthase III, FABH; 2.30A {Thermus
thermophilus} SCOP: c.95.1.2 c.95.1.2
Length = 322
Score = 26.3 bits (59), Expect = 1.2
Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 24/64 (37%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMS-SLVTC 53
+ VL + S+ DR +TA+LFGD G G ++
Sbjct: 128 LAQKVLAVGAEALSKIIDWNDR---------ATAVLFGD-------GGGAAVVGKVREGY 171
Query: 54 GILS 57
G S
Sbjct: 172 GFRS 175
>3h78_A PQS biosynthetic enzyme; PQSD, anthranilic acid, anthraniloyl-COA,
transferase; HET: BE2; 1.70A {Pseudomonas aeruginosa
PAO1} PDB: 3h76_A 3h77_A*
Length = 359
Score = 26.4 bits (59), Expect = 1.3
Identities = 14/65 (21%), Positives = 24/65 (36%), Gaps = 23/65 (35%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMM--SSLVT 52
+ VL + S+ DR ++ +IL GD G G V++ +
Sbjct: 153 LARHVLVVCGEVLSKRMDCSDRG-------RNLSILLGD-------GAGAVVVSAGESLE 198
Query: 53 CGILS 57
G+L
Sbjct: 199 DGLLD 203
>3luy_A Probable chorismate mutase; structural genomics, APC38059,
3-phenylp PSI-2, protein structure initiative; HET: PPY;
2.00A {Bifidobacterium adolescentis}
Length = 329
Score = 25.7 bits (57), Expect = 2.0
Identities = 3/20 (15%), Positives = 9/20 (45%)
Query: 70 IGSHLASQIYHLDIVFLGLQ 89
G + ++Y + + +Q
Sbjct: 154 FGPAICGELYDITRIGTAIQ 173
>3q0b_X Histone-lysine N-methyltransferase, H3 lysine-9 S SUVH5; SRA,
fully methylated CG, SUVH5, 5MC binding protein, fully
methylated CG duplex DNA; HET: DNA 5CM; 2.20A
{Arabidopsis thaliana} PDB: 3q0c_X* 3q0d_X* 3q0f_X*
Length = 167
Score = 25.8 bits (56), Expect = 2.0
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 54 GILSGQTWPYFLSLSLIGSHLASQ 77
G+ G + Y + L+L+G H SQ
Sbjct: 8 GVEVGDEFQYRMELNLLGIHRPSQ 31
>1zow_A 3-oxoacyl-[acyl-carrier-protein] synthase III; FABH, fatty acid
biosynthesis, transferase; 2.00A {Staphylococcus aureus
subsp} PDB: 3il7_A
Length = 313
Score = 25.5 bits (57), Expect = 2.4
Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 24/64 (37%)
Query: 2 QHKDVL----DKQSR---PRDRKEDISLGLKSTAILFGDKTKLYLSGFGGVMMS-SLVTC 53
+ ++L DK S+ DR STA+LFGD G G V++
Sbjct: 130 DYHNILVVGADKLSKITDLTDR---------STAVLFGD-------GAGAVIIGEVSEGR 173
Query: 54 GILS 57
GI+S
Sbjct: 174 GIIS 177
>3fde_A E3 ubiquitin-protein ligase UHRF1; SRA domain, base flipping, DNA
CPG methylation, cell cycle, developmental protein, DNA
damage; HET: 5CM; 1.41A {Mus musculus} PDB: 2zo0_B*
2zo2_B* 3f8i_A* 2zo1_B* 3f8j_B* 2zkd_A* 2zke_A* 2zkf_A*
2zkg_A 3dwh_A 3bi7_A 3clz_A*
Length = 212
Score = 25.5 bits (55), Expect = 2.7
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 54 GILSGQTWPYFLSLSLIGSH 73
G+ G W + + +S G H
Sbjct: 12 GVPVGTMWRFRVQVSESGVH 31
>2qmx_A Prephenate dehydratase; APC86053, L-Phe inhibition, PDT, CHL
tepidum TLS, structural genomics, PSI-2, protein
structure initiative; HET: PHE; 2.30A {Chlorobium
tepidum tls}
Length = 283
Score = 25.6 bits (57), Expect = 2.7
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 70 IGSHLASQIYHLDIVFLGLQ 89
I S A ++Y LDI+ L
Sbjct: 148 IASKRAGELYGLDILKENLA 167
>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 = 25.4 bits (55), Expect = 3.0
Identities = 9/48 (18%), Positives = 12/48 (25%), Gaps = 10/48 (20%)
Query: 38 YLSGFGGVMMSSLVTCGILSGQTWPYFLSLSL--------IGSHLASQ 77
YL G G + I +W F IG +
Sbjct: 266 YLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG--VRCY 311
>2pb7_A E3 ubiquitin-protein ligase UHRF1; beta barrel, NEW fold; 1.90A
{Homo sapiens} SCOP: b.122.1.12
Length = 239
Score = 25.6 bits (55), Expect = 3.0
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 54 GILSGQTWPYFLSLSLIGSH 73
GI G W + + +S G H
Sbjct: 19 GIPVGTMWRFRVQVSESGVH 38
>2qmw_A PDT, prephenate dehydratase; APC85812, prephenate dehydratase
(PDT), staphylococcus aureu aureus MU50, structural
genomics, PSI-2; 2.30A {Staphylococcus aureus subsp}
SCOP: c.94.1.1 d.58.18.3
Length = 267
Score = 25.2 bits (56), Expect = 3.7
Identities = 2/20 (10%), Positives = 7/20 (35%)
Query: 70 IGSHLASQIYHLDIVFLGLQ 89
I + + Y + ++
Sbjct: 145 IAPLGSGEAYGFTPIDTHIE 164
>2xbg_A YCF48-like protein; photosynthesis, photosystem II,
beta-propeller, assembly FAC; 1.50A
{Thermosynechococcus elongatus}
Length = 327
Score = 24.6 bits (53), Expect = 5.7
Identities = 13/61 (21%), Positives = 19/61 (31%), Gaps = 11/61 (18%)
Query: 27 TAILFGDKTKLYLSGFGGVMMSSLVTCGILSGQTWPYFLSLSLIGSHLASQIYHLDIVFL 86
+ F D+ +L G +M + G GQTW L Y + V
Sbjct: 39 LDMSFIDRHHGWLVGVNATLMET--RDG---GQTW------EPRTLVLDHSDYRFNSVSF 87
Query: 87 G 87
Sbjct: 88 Q 88
>1z2l_A Allantoate amidohydrolase; ALLC, purine cataboli allantoin
utilization, structural genomics, PSI, Pro structure
initiative; HET: 1AL; 2.25A {Escherichia coli} SCOP:
c.56.5.4 d.58.19.1 PDB: 2imo_A
Length = 423
Score = 24.4 bits (54), Expect = 7.6
Identities = 4/20 (20%), Positives = 6/20 (30%)
Query: 42 FGGVMMSSLVTCGILSGQTW 61
F V S G+ +
Sbjct: 133 FPYVFWGSKNIFGLANPDDV 152
>2v8h_A Beta-alanine synthase; amidohydrolase, alpha and beta protein,
DI-zinc center, COMP N-carbamyl-beta-alanine, hydrolase;
HET: BCN; 2.0A {Saccharomyces kluyveri} PDB: 2v8d_A*
2vl1_A 2v8g_A 2v8v_A 1r43_A 1r3n_A
Length = 474
Score = 24.2 bits (53), Expect = 8.0
Identities = 6/26 (23%), Positives = 9/26 (34%)
Query: 42 FGGVMMSSLVTCGILSGQTWPYFLSL 67
F S V LS + +S+
Sbjct: 163 FARSCTGSSVWSHDLSLEEAYGLMSV 188
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
0.325 0.141 0.427
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,311,720
Number of extensions: 61318
Number of successful extensions: 350
Number of sequences better than 10.0: 1
Number of HSP's gapped: 350
Number of HSP's successfully gapped: 27
Length of query: 92
Length of database: 6,701,793
Length adjustment: 59
Effective length of query: 33
Effective length of database: 5,054,454
Effective search space: 166796982
Effective search space used: 166796982
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.3 bits)