RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780775|ref|YP_003065188.1| undecaprenyl diphosphate
synthase [Candidatus Liberibacter asiaticus str. psy62]
(243 letters)
>1ueh_A Undecaprenyl pyrophosphate synthase; parallel alpha-beta,
rossmann-like fold, transferase; HET: OXN; 1.73A
{Escherichia coli} (A:)
Length = 253
Score = 265 bits (679), Expect = 3e-72
Identities = 92/248 (37%), Positives = 143/248 (57%), Gaps = 11/248 (4%)
Query: 5 MMSSSP-----------PDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEV 53
MM S+ H+ IIMDGNGRWA +G R GH+ G + V+ AA
Sbjct: 1 MMLSATQPLSEKLPAHGCRHVAIIMDGNGRWAKKQGKIRAFGHKAGAKSVRRAVSFAANN 60
Query: 54 GIKNLTIFAFSINNWRRPVSEISELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDI 113
GI+ LT++AFS NW RP E+S L++L L SL ++N+++R+IG+ + +
Sbjct: 61 GIEALTLYAFSSENWNRPAQEVSALMELFVWALDSEVKSLHRHNVRLRIIGDTSRFNSRL 120
Query: 114 LCVLKEAEDQTRLNTGLNLFIAFNYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLIAKY 173
++++E T NTGL L IA NY R +I + ++ + + ++ G++ +D ++ ++
Sbjct: 121 QERIRKSEALTAGNTGLTLNIAANYGGRWDIVQGVRQLAEKVQQGNLQPDQIDEEMLNQH 180
Query: 174 LDTSDVPDPDLIIRTGGEKRLSDFLLWQVAYSEFVFIPEYWPDFSRELFFHALNQYNLRD 233
+ ++ DL+IRTGGE R+S+FLLWQ+AY+E F WPDF + F ALN + R+
Sbjct: 181 VCMHELAPVDLVIRTGGEHRISNFLLWQIAYAELYFTDVLWPDFDEQDFEGALNAFANRE 240
Query: 234 RRFGGLSK 241
RRFGG
Sbjct: 241 RRFGGTEP 248
>2vg3_A Undecaprenyl pyrophosphate synthetase; transferase, cell
WALL biogenesis/degradation, cell cycle, cell shape,
cell division; HET: GPP; 1.8A {Mycobacterium
tuberculosis} PDB: 2vg2_A* 2vg4_A (A:)
Length = 284
Score = 255 bits (651), Expect = 5e-69
Identities = 88/228 (38%), Positives = 138/228 (60%)
Query: 11 PDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRR 70
P+H+ I+MDGNGRWA RGL R GH+ G V +I A E+GIK L+++AFS NW+R
Sbjct: 56 PNHVAIVMDGNGRWATQRGLARTEGHKMGEAVVIDIACGAIELGIKWLSLYAFSTENWKR 115
Query: 71 PVSEISELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQTRLNTGL 130
E+ L+ + +++ +LKK +++R +G+R L ++ L AE+ T+ N +
Sbjct: 116 SPEEVRFLMGFNRDVVRRRRDTLKKLGVRIRWVGSRPRLWRSVINELAVAEEMTKSNDVI 175
Query: 131 NLFIAFNYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLIAKYLDTSDVPDPDLIIRTGG 190
+ NY R EI+ A + I +++ +G + + S IA++L D+PD DL +RT G
Sbjct: 176 TINYCVNYGGRTEITEATREIAREVAAGRLNPERITESTIARHLQRPDIPDVDLFLRTSG 235
Query: 191 EKRLSDFLLWQVAYSEFVFIPEYWPDFSRELFFHALNQYNLRDRRFGG 238
E+R S+F+LWQ AY+E++F + WPD+ R + A +Y R RRFG
Sbjct: 236 EQRSSNFMLWQAAYAEYIFQDKLWPDYDRRDLWAACEEYASRTRRFGS 283
>1f75_A Undecaprenyl pyrophosphate synthetase; parallel beta sheet,
NEW fold for isoprenoid synthase, peptidoglycan
synthesis, transferase; 2.20A {Micrococcus luteus} (A:)
Length = 249
Score = 253 bits (648), Expect = 1e-68
Identities = 103/229 (44%), Positives = 147/229 (64%)
Query: 11 PDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRR 70
P HI IIMDGNGRWA + +PR GH +G++ +I A+++G+K LT++AFS NW R
Sbjct: 21 PKHIAIIMDGNGRWAKQKKMPRIKGHYEGMQTVRKITRYASDLGVKYLTLYAFSTENWSR 80
Query: 71 PVSEISELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQTRLNTGL 130
P E++ L+KL FL L + N+KV IG L D + EA+++T+ NTGL
Sbjct: 81 PKDEVNYLMKLPGDFLNTFLPELIEKNVKVETIGFIDDLPDHTKKAVLEAKEKTKHNTGL 140
Query: 131 NLFIAFNYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLIAKYLDTSDVPDPDLIIRTGG 190
L A NY R EI A++ I + +SG + ++ + +YL T+++PDP+L+IRT G
Sbjct: 141 TLVFALNYGGRKEIISAVQLIAERYKSGEISLDEISETHFNEYLFTANMPDPELLIRTSG 200
Query: 191 EKRLSDFLLWQVAYSEFVFIPEYWPDFSRELFFHALNQYNLRDRRFGGL 239
E+RLS+FL+WQ +YSEFVFI E+WPDF+ E ++ Y R RRFGGL
Sbjct: 201 EERLSNFLIWQCSYSEFVFIDEFWPDFNEESLAQCISIYQNRHRRFGGL 249
>2d2r_A Undecaprenyl pyrophosphate synthase; prenyltransferase;
1.88A {Helicobacter pylori} PDB: 2dtn_A (A:)
Length = 245
Score = 248 bits (635), Expect = 4e-67
Identities = 86/230 (37%), Positives = 134/230 (58%), Gaps = 1/230 (0%)
Query: 11 PDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRR 70
H+ IIMDGNGRWA + R GH+KG++ +I A ++ LT++AFS NW+R
Sbjct: 16 LKHLAIIMDGNGRWAKLKNKARAYGHKKGVKTLKDITIWCANHKLECLTLYAFSTENWKR 75
Query: 71 PVSEISELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQTRLNTGL 130
P SE+ L+K++K +LK + NNI+ R IG+ ++ + + E+ TR
Sbjct: 76 PKSEVDFLMKMLKKYLKDERSTYLDNNIRFRAIGDLEGFSKELRDTILQLENDTRHFKDF 135
Query: 131 NLFIAFNYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLIAKYLDTSDVPDPDLIIRTGG 190
+A NY S++E+SRA K++ + S + I+ LDT ++P+ DL++RTGG
Sbjct: 136 TQVLALNYGSKNELSRAFKSLLESPPSNISLLE-SLENEISNRLDTRNLPEVDLLLRTGG 194
Query: 191 EKRLSDFLLWQVAYSEFVFIPEYWPDFSRELFFHALNQYNLRDRRFGGLS 240
E RLS+FLLWQ +Y+E F P WPDF+ + + ++ + R R+FG L
Sbjct: 195 EMRLSNFLLWQSSYAELFFTPILWPDFTPKDLENIISDFYKRVRKFGELK 244
>2vg0_A Short-chain Z-isoprenyl diphosphate synthetase;
peptidoglycan synthesis, cell WALL
biogenesis/degradation, secreted, cell shape; HET: GPP;
1.7A {Mycobacterium tuberculosis} PDB: 2vfw_A* 2vg1_A*
(A:)
Length = 227
Score = 224 bits (572), Expect = 7e-60
Identities = 73/227 (32%), Positives = 113/227 (49%), Gaps = 7/227 (3%)
Query: 11 PDHIGIIMDGNGRWAAARGLPRCA-GHRKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWR 69
P HI ++ DGN RWA + G + G+R G E++ E GI+ T++ S N +
Sbjct: 3 PRHIAVLCDGNRRWARSAGYDDVSYGYRMGAAKIAEMLRWCHEAGIELATVYLLSTENLQ 62
Query: 70 RPVSEISELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQTRLNTG 129
R E++ L+++I +++ N+ VR +G+ + ++ L+ A + T
Sbjct: 63 RDPDELAALIEIITDVVEEICA--PANHWSVRTVGDLGLIGEEPARRLRGAVESTPEVAS 120
Query: 130 LNLFIAFNYSSRDEISRAIKNIFQDIESG----SVCSHDVDSSLIAKYLDTSDVPDPDLI 185
++ +A Y R EI A++ + + V I++ L TS PDPDL+
Sbjct: 121 FHVNVAVGYGGRREIVDAVRALLSKELANGATAEELVDAVTVEGISENLYTSGQPDPDLV 180
Query: 186 IRTGGEKRLSDFLLWQVAYSEFVFIPEYWPDFSRELFFHALNQYNLR 232
IRT GE+RLS FLLWQ AYSE F +WP F F AL Y+ R
Sbjct: 181 IRTSGEQRLSGFLLWQSAYSEMWFTEAHWPAFRHVDFLRALRDYSAR 227
>2hj0_A Putative citrate lyase, ALFA subunit; alpha beta protein.,
structural genomics, PSI-2, protein structure
initiative; HET: CIT; 2.70A {Streptococcus mutans UA159}
(A:1-241,A:488-519)
Length = 273
Score = 34.1 bits (78), Expect = 0.016
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 37 RKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRRPVSEISELVKLIKSFLKKGFYS 92
R+G V N ++ A+ GIK+++I SI N P L+ IK+ + S
Sbjct: 74 REGDYVXNXVLDEIAKXGIKDISIAPSSIANVHEP------LIDHIKNGVVTNITS 123
>1xr4_A Putative citrate lyase alpha chain/citrate-ACP transferase;
the midwest center for structural genomics, MCSG,
structural genomics; 2.37A {Salmonella typhimurium LT2}
(A:26-119,A:158-238)
Length = 175
Score = 30.5 bits (69), Expect = 0.24
Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 11/68 (16%)
Query: 37 RKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRRPVSEISELVKLIKSFLKKGFYSLKKN 96
R G +V N + A AE G ++LT+ + S+ + P L++ IK+ + + Y
Sbjct: 46 RGGDKVVNXVXAKLAEXGFRDLTLASSSLIDAHWP------LIEHIKNGVVRQIY----- 94
Query: 97 NIKVRVIG 104
NI V +G
Sbjct: 95 NIDVAFLG 102
>7mdh_A Protein (malate dehydrogenase); chloroplastic malate
dehydrogenase (NADP+), activated by light; 2.40A
{Sorghum bicolor} (A:)
Length = 375
Score = 29.9 bits (66), Expect = 0.32
Identities = 3/32 (9%), Positives = 8/32 (25%)
Query: 73 SEISELVKLIKSFLKKGFYSLKKNNIKVRVIG 104
+ + + K + + V G
Sbjct: 8 KDCFGVFCTTYDLKAEDKTKSWKKLVNIAVSG 39
>1xea_A Oxidoreductase, GFO/IDH/MOCA family; structural genomics,
protein structure initiative, NYSGXRC, VCA1048,
GFO/IDH/MOCA family oxidoreductase; 2.65A {Vibrio
cholerae} (A:1-123,A:263-323)
Length = 184
Score = 29.2 bits (65), Expect = 0.59
Identities = 11/60 (18%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 117 LKEAEDQTRL--NTGLNLFIAFNYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLIAKYL 174
+E E+ L L++ FN + +++ Q +G + +H ++ +L + L
Sbjct: 100 AQECENLYELAEKHHQPLYVGFNRLASKGFDAXVQDWLQVAAAGKLPTHIIERNLASHQL 159
>2v1l_A Hypothetical protein; pathogenicity island, unknown
function; 2.13A {Vibrio cholerae} (A:)
Length = 148
Score = 27.8 bits (62), Expect = 1.3
Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 2/39 (5%)
Query: 192 KRLSDFLLWQVAY-SEFVFIPEYWPDFSRELFFHALNQY 229
+ SD W + Y ++F ++ ++P+ R L F
Sbjct: 65 SQSSDGQ-WCIEYITDFAYVGNHFPELERCLDFDFQRGD 102
>1lc0_A Biliverdin reductase A; oxidoreductase, tetrapyrrole, bIle
pigment, heme, bilirubin, NADH; 1.20A {Rattus
norvegicus} (A:1-126,A:244-294)
Length = 177
Score = 26.9 bits (59), Expect = 2.3
Identities = 21/154 (13%), Positives = 46/154 (29%), Gaps = 23/154 (14%)
Query: 5 MMSSSPPDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFA-F 63
M+++S + ++ G GR + R L R + V + L
Sbjct: 1 MITNSGKFGVVVV--GVGRAGSVR-LRDLKDPRSA-----AFLNLIGFVSRRELGSLDEV 52
Query: 64 SINNWRRPVSEISELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQ 123
+ + ++ +++ S + + G + ++ + A++
Sbjct: 53 RQISLE----DALRSQEIDVAYICSESSSHEDYIRQFLQAGKHVLVEYPMTLSFAAAQEL 108
Query: 124 TRL--NTGLNLFIAFNYSSRDEISRAIKNIF-QD 154
L G L KNIF +D
Sbjct: 109 WELAAQKGRVLHEEHVE-------LVNKNIFLKD 135
>2nvw_A Galactose/lactose metabolism regulatory protein GAL80;
transcription, galactose metabolism, repressor; 2.10A
{Kluyveromyces lactis} (A:1-176,A:396-479)
Length = 260
Score = 26.6 bits (58), Expect = 2.9
Identities = 10/68 (14%), Positives = 21/68 (30%), Gaps = 8/68 (11%)
Query: 3 ASMMSSSPPDHIGIIMDGN-GRWAAARGLPRCAGHRKGIEV-------FNEIVAAAAEVG 54
S + SS P +G + + W A ++ + ++
Sbjct: 31 LSTVPSSRPIRVGFVGLTSGKSWVAKTHFLAIQQLSSQFQIVALYNPTLKSSLQTIEQLQ 90
Query: 55 IKNLTIFA 62
+K+ T F
Sbjct: 91 LKHATGFD 98
>2ged_A SR-beta, signal recognition particle receptor beta subunit;
protein transport, G protein, proline isomerization,
circular permutation; 2.20A {Saccharomyces cerevisiae}
(A:)
Length = 193
Score = 25.9 bits (56), Expect = 4.8
Identities = 6/32 (18%), Positives = 11/32 (34%)
Query: 74 EISELVKLIKSFLKKGFYSLKKNNIKVRVIGN 105
+IS+ + I L G + + G
Sbjct: 25 KISQWREWIDEKLGGGSGGGGSYQPSIIIAGP 56
>1lc5_A COBD, L-threonine-O-3-phosphate decarboxylase; PLP-dependent
decarboxylase, cobalamin, lyase; 1.46A {Salmonella
enterica} (A:36-260)
Length = 225
Score = 25.9 bits (55), Expect = 4.8
Identities = 10/80 (12%), Positives = 25/80 (31%), Gaps = 4/80 (5%)
Query: 142 DEISRAIKNIFQDIESGSVCSHDVDSSLIAKYLDTSDVPDPDLIIRTGGEKRLSDFLLWQ 201
+ RA+ + IE + +A++ I+ GE +
Sbjct: 5 VSVKRALIDNLDCIERYPDADYFHLHQALARHHQV----PASWILAGNGETESIFTVASG 60
Query: 202 VAYSEFVFIPEYWPDFSREL 221
+ + + + ++ R L
Sbjct: 61 LKPRRAMIVTPGFAEYGRAL 80
>2wss_S ATP synthase subunit O, mitochondrial; hydrogen ION
transport, ATP synthesis, phosphoprotein, UBL
conjugation, transit peptide; HET: ANP ADP; 3.20A {Bos
taurus} PDB: 2bo5_A 2jmx_A (S:1-113)
Length = 113
Score = 26.1 bits (57), Expect = 4.9
Identities = 23/125 (18%), Positives = 41/125 (32%), Gaps = 15/125 (12%)
Query: 1 MVASMMSSSPPDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTI 60
+V + GI GR+A A L A + +E + + ++ +K
Sbjct: 4 LVRPPVQIY-----GIE----GRYATA--LYSAASKQNKLEQVEKELLRVGQI-LKEPKX 51
Query: 61 FAFSINNWRRPVSEISELVKLIKSFLKKGFYSLKKNNIKVRVIGNRLSLDDDILCVLKEA 120
A +N V ++ L K+ F L N I + RL+ ++
Sbjct: 52 AASLLNP---YVKRSVKVKSLSDXTAKEKFSPLTSNLINLLAENGRLTNTPAVISAFSTX 108
Query: 121 EDQTR 125
R
Sbjct: 109 XSVHR 113
>1saz_A Probable butyrate kinase 2; askha (acetate and sugar
kinases, HSC70, actin) superfamily, acetate kinase,
isobutyrate kinase; HET: ACP; 2.50A {Thermotoga
maritima} (A:1-172,A:333-381)
Length = 221
Score = 25.8 bits (57), Expect = 5.0
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 215 PDFSRELFFHALNQ 228
P++ R+ FHALNQ
Sbjct: 145 PNYQRKSIFHALNQ 158
>2qlw_A RHAU; mutarotase, isomerase; HET: MSE; 1.60A {Rhizobium
leguminosarum BV} PDB: 2qlx_A* (A:)
Length = 144
Score = 25.6 bits (56), Expect = 7.1
Identities = 5/21 (23%), Positives = 11/21 (52%)
Query: 41 EVFNEIVAAAAEVGIKNLTIF 61
E++ E+V + G + +I
Sbjct: 64 EIWPELVDLLHQSGASDYSIH 84
>1p4x_A Staphylococcal accessory regulator A homologue; winged-helix
protein, transcription; 2.20A {Staphylococcus aureus}
(A:47-97)
Length = 51
Score = 24.9 bits (54), Expect = 9.7
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 76 SELVKLIKSFLKKGFYSLKKNNIKVRVI 103
S+LV+ IK +K + S ++ I R
Sbjct: 19 SDLVQHIKVLVKHSYISKVRSKIDERNT 46
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.322 0.139 0.413
Gapped
Lambda K H
0.267 0.0454 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,937,221
Number of extensions: 88277
Number of successful extensions: 258
Number of sequences better than 10.0: 1
Number of HSP's gapped: 254
Number of HSP's successfully gapped: 24
Length of query: 243
Length of database: 4,956,049
Length adjustment: 86
Effective length of query: 157
Effective length of database: 2,048,819
Effective search space: 321664583
Effective search space used: 321664583
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: 53 (24.9 bits)