RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 026038
(244 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 = 41.6 bits (97), Expect = 2e-04
Identities = 39/258 (15%), Positives = 68/258 (26%), Gaps = 75/258 (29%)
Query: 28 PIVTQRHKSSIKCS---SQSSFSFPNQNKISHNNNKPPCKPLVPLALQD----------- 73
P+ H S++ +SF +Q + N P P A D
Sbjct: 8 PLTLS-H-GSLEHVLLVPTASFFIASQLQEQFNKILPE--PTEGFAADDEPTTPAELVGK 63
Query: 74 --GHALQQSEDDNKPAAAPSFLEVVKRKLNAIS---------HV----------TRYYAQ 112
G+ E P+ F +V+ L H T
Sbjct: 64 FLGYVSSLVE----PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT 119
Query: 113 INIIVSVTSVCFLPVQSLSQVTPAFLLGVLKAVVAQIFM------NISLCSLNQICDVEI 166
+I + + + + + + + L + AQ+ N E+
Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY-FE-----EL 173
Query: 167 DKINKPYLPLASGELSMGTGIAICAGSALLSLALAFLSGSPAVL--CAVIAWG------- 217
+ + Y L G+L I + L L L ++ W
Sbjct: 174 RDLYQTYHVLV-GDL-----IKF-SAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP 226
Query: 218 ----LTGAAYSVPVSGLI 231
L S P+ G+I
Sbjct: 227 DKDYLLSIPISCPLIGVI 244
Score = 31.6 bits (71), Expect = 0.31
Identities = 32/182 (17%), Positives = 55/182 (30%), Gaps = 57/182 (31%)
Query: 51 QNKISHNNNKPPCKPLVPLALQDGHALQQSEDDNK----PAAAPSFLEVVKRKLNAISHV 106
Q+ ++ N+ P V ++L +G N P + L + RK A S +
Sbjct: 350 QDYVNKTNSHLPAGKQVEISLVNGA-------KNLVVSGPPQSLYGLNLTLRKAKAPSGL 402
Query: 107 TRYYAQINIIVS----VTSVCFLPVQSLSQVTPAF---LLGVLKAVVAQIFMNISLCSLN 159
Q I S S FLPV S P F L L I
Sbjct: 403 D----QSRIPFSERKLKFSNRFLPVAS-----P-FHSHL---LVPASDLINK-------- 441
Query: 160 QICDVEIDKINKPYLPLASGELSM-----GTGIAICAGSALLSLALAFLSGSPAVLCAVI 214
D+ + + + ++ + G + S +S + ++ +
Sbjct: 442 ---DLVKNNV-----SFNAKDIQIPVYDTFDGSDLRVLSGSISERIV-----DCIIRLPV 488
Query: 215 AW 216
W
Sbjct: 489 KW 490
>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase;
HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A*
3l0p_A*
Length = 223
Score = 29.9 bits (68), Expect = 0.62
Identities = 13/86 (15%), Positives = 23/86 (26%)
Query: 49 PNQNKISHNNNKPPCKPLVPLALQDGHALQQSEDDNKPAAAPSFLEVVKRKLNAISHVTR 108
N +N KP + G AL DD A ++ ++
Sbjct: 130 KNNPNHPNNIFIDAIKPNGDVCRVCGGALSARADDQDEGAINKRHDIYYNTVDGTLAAAY 189
Query: 109 YYAQINIIVSVTSVCFLPVQSLSQVT 134
YY + + S+ +
Sbjct: 190 YYKNMAAKEGFVYIELDGEGSIDSIK 215
>1qam_A ERMC' methyltransferase; rRNA methyltransferase ERMC', cofactor
analogs; 2.20A {Bacillus subtilis} SCOP: c.66.1.24 PDB:
1qan_A* 1qao_A* 1qaq_A* 2erc_A
Length = 244
Score = 28.6 bits (65), Expect = 1.5
Identities = 9/42 (21%), Positives = 14/42 (33%), Gaps = 6/42 (14%)
Query: 94 EVVKR---KLNAISHVTRYYAQINIIVSVTSVCFLP---VQS 129
KR +++ I+I+ V F P V S
Sbjct: 130 GFAKRLLNTKRSLALFLMAEVDISILSMVPREYFHPKPKVNS 171
>3m0g_A Farnesyl diphosphate synthase; structural genomics, protein
structure initiative, NYSGXRC, biosynthesis,
transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB:
3lvs_A
Length = 297
Score = 28.3 bits (64), Expect = 2.0
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 4/36 (11%)
Query: 184 GTGIAICAGSALLSLALAFLS----GSPAVLCAVIA 215
A+ AG AL +LA + GS A++A
Sbjct: 103 DDATAVLAGDALQTLAFELCTDPVLGSAENRVALVA 138
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP:
a.128.1.1
Length = 301
Score = 27.9 bits (63), Expect = 3.0
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 184 GTGIAICAGSALLSLALAFLSGSPAV 209
G AI AG ALL+ A +S +
Sbjct: 104 GEWTAILAGDALLTKAFELISSDDRL 129
>1yub_A Ermam, rRNA methyltransferase; MLS antibiotics; NMR {Streptococcus
pneumoniae} SCOP: c.66.1.24
Length = 245
Score = 27.5 bits (62), Expect = 4.0
Identities = 8/42 (19%), Positives = 14/42 (33%), Gaps = 6/42 (14%)
Query: 94 EVVKR---KLNAISHVTRYYAQINIIVSVTSVCFLP---VQS 129
KR + + I ++ + + CF P V S
Sbjct: 129 GFYKRTLDIHRTLGLLLHTQVSIQQLLKLPAECFHPKPKVNS 170
>4f62_A Geranyltranstransferase; enzyme function initiative, structural
genomics; 2.10A {Marinomonas SP}
Length = 317
Score = 27.6 bits (62), Expect = 4.0
Identities = 11/36 (30%), Positives = 14/36 (38%), Gaps = 4/36 (11%)
Query: 184 GTGIAICAGSALLSLALAFLS----GSPAVLCAVIA 215
AI AG AL + A LS P + +I
Sbjct: 107 DEATAILAGDALQTFAFELLSNPTSAQPELAIKLIQ 142
>3pde_A Farnesyl-diphosphate synthase; isoprenyl diphosphate synthase,
structural genomics, PSI, PR structure initiative; HET:
IPE; 1.75A {Lactobacillus brevis} PDB: 3m9u_A*
Length = 309
Score = 27.6 bits (62), Expect = 4.1
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 3/35 (8%)
Query: 184 GTGIAICAGSALLSLALAFLSG---SPAVLCAVIA 215
G G+A AG LL+LA +L+ + A++
Sbjct: 112 GAGMATLAGDGLLTLAFQWLTATDLPATMQAALVQ 146
>3npk_A Geranyltranstransferase; isoprene biosynthesis, SGX, structural
genomics protein structure initiative; 1.50A
{Campylobacter jejuni}
Length = 291
Score = 27.6 bits (62), Expect = 4.3
Identities = 9/35 (25%), Positives = 12/35 (34%), Gaps = 3/35 (8%)
Query: 184 GTGIAICAGSALLSLALAFLSG---SPAVLCAVIA 215
AI G AL + A LS + +I
Sbjct: 102 DETTAILVGDALNTEAFLVLSHAHLKDEIKIKLIK 136
>3kra_B Geranyl diphosphate synthase small subunit; prenyltransferase,
isoprene biosynthesis, isoprenyl pyrophosphate synthase,
transferase; 1.90A {Mentha x piperita} PDB: 3krc_B*
3krf_B* 3kro_B* 3krp_B* 3oab_B* 3oac_B*
Length = 274
Score = 27.2 bits (61), Expect = 5.3
Identities = 7/40 (17%), Positives = 13/40 (32%), Gaps = 8/40 (20%)
Query: 184 GTGIAICAGSALLSLALAFLSG--------SPAVLCAVIA 215
G + + G ++ L+G P + VI
Sbjct: 101 GPNVELLTGDGIVPFGFELLAGSVDPARTDDPDRILRVII 140
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid
diphosphate synthase; 2.00A {Clostridium perfringens}
Length = 324
Score = 26.8 bits (60), Expect = 5.9
Identities = 10/36 (27%), Positives = 13/36 (36%), Gaps = 4/36 (11%)
Query: 184 GTGIAICAGSALLSLALAFLS----GSPAVLCAVIA 215
G IA+ AG ALL+ A+ L
Sbjct: 136 GEAIAVLAGDALLNEAMKILVDYSLEEGKSALKATK 171
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium
tumefaciens, structural GEN PSI-2, protein structure
initiative; 1.60A {Agrobacterium tumefaciens}
Length = 335
Score = 26.9 bits (60), Expect = 5.9
Identities = 9/37 (24%), Positives = 16/37 (43%), Gaps = 5/37 (13%)
Query: 184 GTGIAICAGSALLSLALAFLSG-----SPAVLCAVIA 215
AI AG +LL+LA ++ + A++
Sbjct: 147 DEATAILAGDSLLTLAFDIIASDDNPLAAERKAALVI 183
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.00A
{Enterococcus faecalis}
Length = 302
Score = 26.8 bits (60), Expect = 6.8
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 3/35 (8%)
Query: 184 GTGIAICAGSALLSLALAFLSG---SPAVLCAVIA 215
G AI AG LL+ A LS + ++
Sbjct: 113 GEATAILAGDGLLTGAFQLLSLSQLGLSEKVLLMQ 147
>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 = 26.5 bits (57), Expect = 7.0
Identities = 9/30 (30%), Positives = 11/30 (36%), Gaps = 14/30 (46%)
Query: 77 LQQS----EDDNKPAAAPSFLEVVKRKLNA 102
LQ S DD+ PA A + A
Sbjct: 25 LQASLKLYADDSAPALA----------IKA 44
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate
synthase; 1.94A {Methylococcus capsulatus}
Length = 324
Score = 26.8 bits (60), Expect = 7.2
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 184 GTGIAICAGSALLSLALAFLSGSPA 208
AI AG L +LA L+ P+
Sbjct: 112 DEATAILAGDGLQALAFHVLAQDPS 136
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein
structure initiative, nysgrc; 2.30A {Helicobacter
pylori} PDB: 3q1o_A*
Length = 311
Score = 26.9 bits (60), Expect = 7.3
Identities = 7/35 (20%), Positives = 13/35 (37%), Gaps = 3/35 (8%)
Query: 184 GTGIAICAGSALLSLALAFLSG---SPAVLCAVIA 215
A+ G AL + + LS ++ +I
Sbjct: 116 DETTAVLIGDALNTYSFELLSNALLESHIIVELIK 150
>1mld_A Malate dehydrogenase; oxidoreductase(NAD(A)-CHOH(D)); HET: CIT;
1.83A {Sus scrofa} SCOP: c.2.1.5 d.162.1.1 PDB: 2dfd_A*
Length = 314
Score = 26.8 bits (60), Expect = 7.5
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 12/49 (24%)
Query: 191 AGSALLSLALA----------FLSGSPAVL-CAVIAWGLTGAAY-SVPV 227
AGSA LS+A A ++G V+ C+ + T Y S P+
Sbjct: 220 AGSATLSMAYAGARFVFSLVDAMNGKEGVVECSFVKSQETDCPYFSTPL 268
>1rqj_A Geranyltranstransferase; bisphosphonate, isoprenyl synthase; HET:
IPR RIS; 1.95A {Escherichia coli} SCOP: a.128.1.1 PDB:
1rqi_A* 2for_A*
Length = 299
Score = 26.4 bits (59), Expect = 8.3
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 184 GTGIAICAGSALLSLALAFLSG------SPAVLCAVIA 215
G AI AG AL +LA + LS S ++I+
Sbjct: 106 GEANAILAGDALQTLAFSILSDADMPEVSDRDRISMIS 143
>2j1p_A Geranylgeranyl pyrophosphate synthetase; transferase, isoprene
biosynthesis, multifunctional enzyme, carotenoid
biosynthesis; HET: GRG; 1.8A {Sinapis alba} PDB: 2j1o_A
3kra_A 3krc_A* 3krf_A* 3kro_A* 3krp_A* 3oab_A* 3oac_A*
Length = 293
Score = 26.4 bits (59), Expect = 8.3
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 184 GTGIAICAGSALLSLALAFLSG------SPAVLCAVIA 215
G +A+ AG ALLS A L+ SPA + +
Sbjct: 114 GEDVAVLAGDALLSFAFEHLASATSSEVSPARVVRAVG 151
>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics,
protein structure initiative, NEW YORK structural
genomix research consortium; 2.20A {Antirrhinum majus}
Length = 273
Score = 26.5 bits (59), Expect = 9.2
Identities = 4/24 (16%), Positives = 9/24 (37%)
Query: 184 GTGIAICAGSALLSLALAFLSGSP 207
I + G ++ L ++ S
Sbjct: 104 DPNIELLTGDGIIPFGLELMARSM 127
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics,
PSI, protein struct initiative, nysgrc; 2.50A {Vibrio
cholerae}
Length = 302
Score = 26.4 bits (59), Expect = 9.8
Identities = 9/38 (23%), Positives = 13/38 (34%), Gaps = 6/38 (15%)
Query: 184 GTGIAICAGSALLSLALAFLS------GSPAVLCAVIA 215
AI G AL +LA L+ A++
Sbjct: 112 DEATAILTGDALQTLAFTILAEGDLSAAGETQRVAMLQ 149
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
0.321 0.133 0.393
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,385,418
Number of extensions: 187352
Number of successful extensions: 347
Number of sequences better than 10.0: 1
Number of HSP's gapped: 343
Number of HSP's successfully gapped: 31
Length of query: 244
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 153
Effective length of database: 4,160,982
Effective search space: 636630246
Effective search space used: 636630246
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (25.3 bits)