RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780161|ref|YP_003064574.1| phytoene synthase protein
[Candidatus Liberibacter asiaticus str. psy62]
(299 letters)
>1ezf_A Farnesyl-diphosphate farnesyltransferase; isoprenoid synthase fold,
all alpha-helix; HET: IN0; 2.15A {Homo sapiens} SCOP:
a.128.1.2
Length = 340
Score = 87.7 bits (217), Expect = 3e-18
Identities = 20/238 (8%), Positives = 58/238 (24%), Gaps = 23/238 (9%)
Query: 36 YLACLLSPPLYRISLSFLYYFHTELMRVRDT-----ARNPITRDMRLQWWKDIFESSTKG 90
R ++ Y +R DT + + L +
Sbjct: 25 AAVIQALDGEMRNAVCIFYLV----LRALDTLEDDMTISVEKKVPLLHNFHSFLYQPDWR 80
Query: 91 LIA---------ESISPFSVELLSIVRQYDLPNQYFLDMIEAHFFDSYNDSIFDCKQFEH 141
+ E S+E ++ +Y + + + + ++++
Sbjct: 81 FMESKEKDRQVLEDFPTISLEFRNLAEKYQTVIADICRRMGIGMAEFLDKHVTSEQEWDK 140
Query: 142 YAFRISSRLIHLATMIL-----DSERYSASLRVIKYAGIAQFIGQLICQLPIHYHRGQLY 196
Y ++ + + + + G+ +I G+ +
Sbjct: 141 YCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSMGLFLQKTNIIRDYLEDQQGGREF 200
Query: 197 FPLDILGAVGLDRESFLSGQNSDRISLAIKIFAELGLKYLFKAREEMRYILPDVFPAF 254
+P ++ F +N D + L ++ + + F
Sbjct: 201 WPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSRLRNQSVFNF 258
>2zco_A Dehydrosqualene synthase; CRTM, carotenoid biosynthesis,
staphyloxanthin biosynthesis, transferase, head-TO-head
condensation; 1.58A {Staphylococcus aureus} PDB: 2zcp_A*
2zcq_A* 2zcr_A* 2zcs_A* 2zy1_A*
Length = 293
Score = 62.7 bits (151), Expect = 1e-10
Identities = 26/218 (11%), Positives = 75/218 (34%)
Query: 36 YLACLLSPPLYRISLSFLYYFHTELMRVRDTARNPITRDMRLQWWKDIFESSTKGLIAES 95
A L P R ++ +Y ++ D + + + + I + + +S
Sbjct: 29 SYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDIQSIEKYPYEYHHFQS 88
Query: 96 ISPFSVELLSIVRQYDLPNQYFLDMIEAHFFDSYNDSIFDCKQFEHYAFRISSRLIHLAT 155
+ L + + ++ Q F ++I+ + D + + Y + ++ + + T
Sbjct: 89 DRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFETDAELFGYCYGVAGTVGEVLT 148
Query: 156 MILDSERYSASLRVIKYAGIAQFIGQLICQLPIHYHRGQLYFPLDILGAVGLDRESFLSG 215
IL + V + G + + ++ + + ++YF L +D
Sbjct: 149 PILSDHETHQTYDVARRLGESLQLINILRDVGEDFENERIYFSKQRLKQYEVDIAEVYQN 208
Query: 216 QNSDRISLAIKIFAELGLKYLFKAREEMRYILPDVFPA 253
++ + +A + K ++++ + P
Sbjct: 209 GVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIEAQPI 246
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 55.3 bits (133), Expect = 2e-08
Identities = 63/351 (17%), Positives = 102/351 (29%), Gaps = 147/351 (41%)
Query: 2 VLKFLTKNTRKEEKIFSRDSLFVLRNLR------DIDYDRYLACLLSPPLYRIS------ 49
L L + T EK+F++ L +L L D DY LLS P IS
Sbjct: 194 TLSELIRTTLDAEKVFTQ-GLNILEWLENPSNTPDKDY------LLSIP---ISCPLIGV 243
Query: 50 LSFLYYFHTELMRVRDTAR----NPITRDMRLQWWKDIFESST---KGL-----IAESIS 97
+ +Y V TA+ P ++R + +T +GL IAE+ S
Sbjct: 244 IQLAHY------VV--TAKLLGFTP--GELR-----SYLKGATGHSQGLVTAVAIAETDS 288
Query: 98 P--FSVELLSIVRQYDLPNQYFLDMIEAHFFDSYNDSI-FDCKQFEHYAFRISSRLIHLA 154
F + I FF I C + A+ +S L
Sbjct: 289 WESF----------FVS----VRKAITVLFF------IGVRCYE----AYPNTS----LP 320
Query: 155 -TMILDSER-------YSASLRVIKYAGIAQFIGQLICQLPIHYHRGQLYFPLDILGA-- 204
+++ DS S+ + + ++ + LP + L + GA
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQ---VEISL-VNGAKN 376
Query: 205 ----------VGLDRESFL------SGQNSDRISLAIKIFAELGLKYLFKAREEMRYILP 248
GL+ L SG + RI F R+
Sbjct: 377 LVVSGPPQSLYGLNLT--LRKAKAPSGLDQSRIP--------------FSERK------L 414
Query: 249 DVFPAFIPVSI----------TESVLKHAQNHGFKIVSHSHTPNQLVRPWY 289
F+PV+ ++ + K + + P Y
Sbjct: 415 KFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSF-----NAKDIQIPVY 460
Score = 54.9 bits (132), Expect = 2e-08
Identities = 63/368 (17%), Positives = 108/368 (29%), Gaps = 143/368 (38%)
Query: 18 SRDSLFVLRNLRDIDYDRYLACLLSP---------PLYRISL--SFLYYFHTELMRVRDT 66
S F+ L++ ++ L P P L FL Y V +
Sbjct: 23 PTASFFIASQLQE----QFNKILPEPTEGFAADDEPTTPAELVGKFLGYV---SSLVEPS 75
Query: 67 ARNPITRDMRLQWWKDIFESS-TKG-----LIAESISPFSVELL---SIVRQY----DLP 113
+ + L FE+ +G L A+ + L+ +++ Y +
Sbjct: 76 KVGQFDQVLNLCL--TEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMA 133
Query: 114 NQYFLDMIEAHFFDSYND------SIF-------DCKQFEH-------YA-F------RI 146
+ F + F + + +IF D FE Y
Sbjct: 134 KRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY--FEELRDLYQTYHVLVGDLIKFS 191
Query: 147 SSRLIHLATMILDSER-YSASLRVIK------------Y-AGIA-QF--IGQLICQLPIH 189
+ L L LD+E+ ++ L +++ Y I IG +I QL H
Sbjct: 192 AETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIG-VI-QL-AH 248
Query: 190 Y---------HRGQLYFPLDILGAVGLDRESFLSGQ--NSDRISLAIKI--------F-- 228
Y G+L R S+L G +S + A+ I F
Sbjct: 249 YVVTAKLLGFTPGEL-------------R-SYLKGATGHSQGLVTAVAIAETDSWESFFV 294
Query: 229 -AELGLKYLFKAREEMRYI---LPDVFPAFIPVSITESVLKHAQNHGFKIVSHSHTPNQL 284
+ LF +I + +P S+ S+L+ + +
Sbjct: 295 SVRKAITVLF-------FIGVRCYEAYP---NTSLPPSILEDSLENNEG----------- 333
Query: 285 VRPWYMLS 292
P MLS
Sbjct: 334 -VPSPMLS 340
Score = 41.1 bits (96), Expect = 3e-04
Identities = 31/159 (19%), Positives = 53/159 (33%), Gaps = 48/159 (30%)
Query: 98 PFSVELLSIVRQYDLPNQYFLDMIEAHFFDSY----NDSIFDCKQFEHYAFRISSRLIHL 153
PFS L ++ LP + + F +D I K +++ +
Sbjct: 408 PFSERKLKFSNRF-LP-------VASPFHSHLLVPASDLI--NKDLVKNNVSFNAK--DI 455
Query: 154 ATMILDSE-----R-YSASLRVIKYAGIAQFIGQLICQLPIHYHRGQLYFP----LDI-- 201
+ D+ R S S+ + + I +LP+ + F LD
Sbjct: 456 QIPVYDTFDGSDLRVLSGSI-------SERIV-DCIIRLPVKWET-TTQFKATHILDFGP 506
Query: 202 LGAVGLDRESFLSGQNSD----RI----SLAIKIFAELG 232
GA GL L+ +N D R+ +L I + G
Sbjct: 507 GGASGL---GVLTHRNKDGTGVRVIVAGTLDINPDDDYG 542
>3iay_A DNA polymerase delta catalytic subunit; protein-DNA complex, DNA
replication, DNA- binding, DNA-directed DNA polymerase,
exonuclease; HET: DNA DOC DCP; 2.00A {Saccharomyces
cerevisiae}
Length = 919
Score = 29.1 bits (64), Expect = 1.1
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 2/54 (3%)
Query: 10 TRKEEKIFSR--DSLFVLRNLRDIDYDRYLACLLSPPLYRISLSFLYYFHTELM 61
+K+++R D LFVL N +D YL L P+ I + M
Sbjct: 863 IGGNDKLYNRAEDPLFVLENNIQVDSRYYLTNQLQNPIISIVAPIIGDKQANGM 916
>1jr2_A Uroporphyrinogen-III synthase; heme biosynthesis, HEAM
biosynthesis, lyase; 1.84A {Homo sapiens} SCOP:
c.113.1.1
Length = 286
Score = 26.7 bits (58), Expect = 6.1
Identities = 22/136 (16%), Positives = 41/136 (30%), Gaps = 9/136 (6%)
Query: 153 LATMILDSERYSASLRVIKYAGIAQFIGQLICQLPIHYHRGQLYFPLDILGAVGLDRESF 212
LA I E + L + + + + I +Y A + +
Sbjct: 146 LAEYICSRESSALPLLFPCGNLKREILPKALKDKGIAMESITVY----QTVAHPGIQGNL 201
Query: 213 LSGQNSDRISLAIKIFAELGLKYLFKAREEMRYILPDVFPAFIPVSITESVLKHAQNHGF 272
S + + +I F+ GL Y K ++ + D +I + + G
Sbjct: 202 NSYYSQQGVPASITFFSPSGLTYSLKH---IQELSGDNIDQIKFAAIGPTTARALAAQGL 258
Query: 273 K--IVSHSHTPNQLVR 286
+ S TP L
Sbjct: 259 PVSCTAESPTPQALAT 274
>3ky7_A TRNA (guanine-N(1)-)-methyltransferase; putative tRNA
(guanine-7-)-methyltransferase, structural genomics,
infectious diseases; 2.35A {Staphylococcus aureus subsp}
Length = 269
Score = 26.3 bits (58), Expect = 8.6
Identities = 10/42 (23%), Positives = 19/42 (45%)
Query: 230 ELGLKYLFKAREEMRYILPDVFPAFIPVSITESVLKHAQNHG 271
+LG + L+ M+ +FP + S++K AQ +
Sbjct: 12 DLGTENLYFQSNAMKIDYLTLFPEMFDGVLNHSIMKRAQENN 53
>1jy1_A TDP1, tyrosyl-DNA phosphodiesterase; PLD superfamily, hydrolase;
1.69A {Homo sapiens} SCOP: d.136.1.3 d.136.1.3 PDB:
1rff_A* 1mu9_A 1nop_A 1mu7_A* 1rfi_A* 1rg1_A* 1rg2_A*
1rgt_A* 1rgu_A* 1rh0_A* 1qzq_A
Length = 464
Score = 26.1 bits (57), Expect = 9.0
Identities = 15/73 (20%), Positives = 26/73 (35%), Gaps = 6/73 (8%)
Query: 52 FLYYFHTELMRVRDTARNPITRDMRLQ----WWKDIFESSTKGL--IAESISPFSVELLS 105
+ + E +RV N I D + W ++ G ES + F L+S
Sbjct: 122 MMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRIADGTHKSGESPTHFKANLIS 181
Query: 106 IVRQYDLPNQYFL 118
+ Y+ P+
Sbjct: 182 YLTAYNAPSLKEW 194
>2r4f_A 3-hydroxy-3-methylglutaryl-coenzyme A reductase; oxidoreductase,
cholesterol, biocynthesis, HMG-COA, NADPH, statin,
alternative splicing; HET: RIE; 1.70A {Homo sapiens}
PDB: 2q1l_A* 2q6c_A* 2q6b_A* 3bgl_A* 3cct_A* 3ccw_A*
3ccz_A* 3cd0_A* 3cd5_A* 3cd7_A* 3cda_A* 3cdb_A* 1dqa_A*
1dq9_A* 1dq8_A* 1hw8_A* 1hw9_A* 1hwi_A* 1hwj_A* 1hwk_A*
...
Length = 441
Score = 26.1 bits (57), Expect = 9.1
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 254 FIPVSITESVLKHAQNHGFKIVSHS 278
+P++ TE L + N G + +
Sbjct: 118 QVPMATTEGCLVASTNRGCRAIGLG 142
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.328 0.141 0.423
Gapped
Lambda K H
0.267 0.0505 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,579,455
Number of extensions: 119204
Number of successful extensions: 416
Number of sequences better than 10.0: 1
Number of HSP's gapped: 412
Number of HSP's successfully gapped: 18
Length of query: 299
Length of database: 5,693,230
Length adjustment: 92
Effective length of query: 207
Effective length of database: 3,462,782
Effective search space: 716795874
Effective search space used: 716795874
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.9 bits)