RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781220|ref|YP_003065633.1| hypothetical protein
CLIBASIA_05635 [Candidatus Liberibacter asiaticus str. psy62]
(130 letters)
>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 = 34.1 bits (78), Expect = 0.010
Identities = 21/137 (15%), Positives = 38/137 (27%), Gaps = 46/137 (33%)
Query: 12 IEANYEFLSAVNPRMGIEPESNYEVEVIEKLERALKTSK-KLI-----------HFRD-R 58
I+ + S L RA+ +L+ +F + R
Sbjct: 123 IKNYITARIMAKRPFDKKSNSA--------LFRAVGEGNAQLVAIFGGQGNTDDYFEELR 174
Query: 59 TIRT---HILEDLIEEV-NRIIVLAKAHKRRLELKIFE---DNEVWRLLDEAREDCEGCE 111
+ ++ DLI+ + L + K+F + W L
Sbjct: 175 DLYQTYHVLVGDLIKFSAETLSELIRTTLDAE--KVFTQGLNILEW--L----------- 219
Query: 112 NCSEHPDQEHKEDYYAS 128
E+P +DY S
Sbjct: 220 ---ENPSNTPDKDYLLS 233
>2tps_A Protein (thiamin phosphate synthase); thiamin biosynthesis, TIM
barrel; HET: TPS; 1.25A {Bacillus subtilis} SCOP:
c.1.3.1 PDB: 1g4t_A* 1g6c_A* 1g4e_A* 1g69_A* 1g4s_A*
1g4p_A* 1g67_A*
Length = 227
Score = 32.2 bits (72), Expect = 0.040
Identities = 10/59 (16%), Positives = 22/59 (37%)
Query: 28 IEPESNYEVEVIEKLERALKTSKKLIHFRDRTIRTHILEDLIEEVNRIIVLAKAHKRRL 86
I +N + + + +++ALK L FR++ E I+ + +
Sbjct: 23 IMGSNNTKADPVTVVQKALKGGATLYQFREKGGDALTGEARIKFAEKAQAACREAGVPF 81
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 701
Score = 30.0 bits (67), Expect = 0.17
Identities = 16/90 (17%), Positives = 35/90 (38%), Gaps = 28/90 (31%)
Query: 27 GIEPESN--YEVEVI-----EKLERALKTSKKLIHFRDRTI------------RTHILED 67
G+ P + ++ E I + E+A +K LI + + I +TH + D
Sbjct: 12 GLVPRGSHMFKREEIIEMANKDFEKAWIETKDLI--KAKKINESYPRIKPVFGKTHPVND 69
Query: 68 LIEEVNRIIVLAKAHKRRLELKIFEDNEVW 97
IE + + + R+ + + + +
Sbjct: 70 TIENLRQAYL-------RMGFEEYINPVIV 92
>3nl6_A Thiamine biosynthetic bifunctional enzyme; thiamin biosynthesis,
eukaryoyes, transferase; HET: TPS ACP; 2.61A {Candida
glabrata} PDB: 3nl2_A* 3nl5_A* 3nl3_A* 3nm3_A* 3nm1_A*
Length = 540
Score = 29.9 bits (67), Expect = 0.19
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 39 IEKLERALKTSKKLIHFRDRTIRTHILEDLIEEVNRIIVLAKAHKRRL 86
++E L+ L+ R++ T + IEE +I L AH L
Sbjct: 28 YGQVEAGLQNGVTLVQIREKDADT---KFFIEEALQIKELCHAHNVPL 72
>1lqt_A FPRA; NADP+ derivative, oxidoreductase, structural genomics, PSI,
protein structure initiative, TB structural genomics
consortium; HET: FAD ODP; 1.05A {Mycobacterium
tuberculosis} SCOP: c.3.1.1 c.4.1.1 PDB: 1lqu_A* 2c7g_A*
Length = 456
Score = 27.9 bits (61), Expect = 0.66
Identities = 13/99 (13%), Positives = 27/99 (27%), Gaps = 1/99 (1%)
Query: 25 RMGIEPESNYEVEVIEKLERALKTSKKLIHFRDRTIRTHILEDLIEEVNRIIVLAKAHK- 83
R G+ P+ + ++ E+ + + +L E + +I A
Sbjct: 50 RSGVAPDHPKIKSISKQFEKTAEDPRFRFFGNVVVGEHVQPGELSERYDAVIYAVGAQSD 109
Query: 84 RRLELKIFEDNEVWRLLDEAREDCEGCENCSEHPDQEHK 122
R L + + +D PD
Sbjct: 110 RMLNIPGEDLPGSIAAVDFVGWYNAHPHFEQVSPDLSGA 148
>2e3d_A UTP--glucose-1-phosphate uridylyltransferase; UDP-glucose,
carbohydrate, pyrophosphorylase; 1.95A {Escherichia
coli}
Length = 302
Score = 27.3 bits (59), Expect = 1.2
Identities = 11/82 (13%), Positives = 31/82 (37%), Gaps = 1/82 (1%)
Query: 46 LKTSKKLIHFRDRTIRTHILEDLIEE-VNRIIVLAKAHKRRLELKIFEDNEVWRLLDEAR 104
K+++ D+ + +++ + I + I+++ + K +E E+ +L++
Sbjct: 27 KAIPKEMLPLVDKPLIQYVVNECIAAGITEIVLVTHSSKNSIENHFDTSFELEAMLEKRV 86
Query: 105 EDCEGCENCSEHPDQEHKEDYY 126
+ E S P
Sbjct: 87 KRQLLDEVQSICPPHVTIMQVR 108
>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein
biosynthesis, nucleotide-binding, phosphorylation, RNA-
binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces
cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A
Length = 986
Score = 27.0 bits (59), Expect = 1.3
Identities = 15/95 (15%), Positives = 29/95 (30%), Gaps = 6/95 (6%)
Query: 29 EPESNYEVEVIEKLERALKTSKKLIHFRDRTIRTHILEDLIEEVNRIIVLAKAHKRRLEL 88
EP ++ + + L L T +H L II R+ +
Sbjct: 574 EPTNHLDTVNVAWLVNYLNTCGITSIT-----ISHDSVFLDNVCEYIINYEGLKLRKYK- 627
Query: 89 KIFEDNEVWRLLDEAREDCEGCENCSEHPDQEHKE 123
F + +A E+ + + P+ + E
Sbjct: 628 GNFTEFVKKCPAAKAYEELSNTDLEFKFPEPGYLE 662
Score = 25.0 bits (54), Expect = 5.4
Identities = 10/52 (19%), Positives = 19/52 (36%), Gaps = 5/52 (9%)
Query: 29 EPESNYEVEVIEKLERALKTSKKLIHFRDRTIRTHILEDLIEEVNRIIVLAK 80
EP + + + + L +ALK + + I TH E + +
Sbjct: 927 EPTNYLDRDSLGALSKALKEFEGGV-----IIITHSAEFTKNLTEEVWAVKD 973
>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 = 26.9 bits (58), Expect = 1.5
Identities = 5/13 (38%), Positives = 10/13 (76%)
Query: 35 EVEVIEKLERALK 47
E + ++KL+ +LK
Sbjct: 18 EKQALKKLQASLK 30
Score = 25.7 bits (55), Expect = 2.8
Identities = 6/22 (27%), Positives = 11/22 (50%), Gaps = 9/22 (40%)
Query: 84 RRLE--LKIFEDNEVWRLLDEA 103
++L+ LK++ D D A
Sbjct: 23 KKLQASLKLYAD-------DSA 37
>3bh1_A UPF0371 protein DIP2346; structural genomics, unknown function,
protein structure initiative, PSI-2; 2.51A
{Corynebacterium diphtheriae NCTC13129}
Length = 507
Score = 26.6 bits (59), Expect = 1.9
Identities = 12/46 (26%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 64 ILEDLIEEVNRIIVLAKAH----KRRLELKIFEDNEVWRLLDEARE 105
+L+ + +EV ++ + K R +L I + +V RL+D R+
Sbjct: 62 MLDRIKDEVEILVCINAKDLERHKIRADLGISYEEDVLRLVDVFRD 107
>3lx5_A Ferrous iron uptake transporter protein B; G protein, iron
transport, GTP-binding, GTPase, transmembran
nucleotide-binding; HET: AGO; 1.90A {Streptococcus
thermophilus} PDB: 3lx8_A*
Length = 272
Score = 26.4 bits (58), Expect = 1.9
Identities = 21/110 (19%), Positives = 46/110 (41%), Gaps = 14/110 (12%)
Query: 18 FLSAVNPRMGIEPESNYEVEVIEKLERALKTSKKLIHFRDRTIRTHILEDLIEEVNRII- 76
SA+ + G++ +V++K ++ + F I LE I ++ ++
Sbjct: 142 ATSALK-QTGVD-------QVVKKAAHTTTSTVGDLAFP---IYDDRLEAAISQILEVLG 190
Query: 77 -VLAKAHKRRLELKIFE-DNEVWRLLDEAREDCEGCENCSEHPDQEHKED 124
+ + R +K+FE D+ V LD ++ + E+ ++ ED
Sbjct: 191 NSVPQRSARFYAIKLFEQDSLVEAELDLSQFQRKEIEDIIRITEEIFTED 240
>2olt_A Hypothetical protein; NP_719307.1, DUF47, structural genomics,
joint center for structural genomics, JCSG; HET: MSE;
2.00A {Shewanella oneidensis mr-1} PDB: 2iiu_A*
Length = 227
Score = 26.5 bits (58), Expect = 2.2
Identities = 7/59 (11%), Positives = 22/59 (37%)
Query: 36 VEVIEKLERALKTSKKLIHFRDRTIRTHILEDLIEEVNRIIVLAKAHKRRLELKIFEDN 94
++ + ++ + L+ R + +I E++ I + +L ++F
Sbjct: 130 IDAVGLAQQVINELDDLLEAGFRGREVDFVAKMINELDIIEEDTDDLQIQLRRQLFALE 188
>1mc3_A Glucose-1-phosphate thymidylyltransferase; glucose-1-phosphate
thymidylytransferase, RFFH; HET: TTP; 2.60A
{Escherichia coli} SCOP: c.68.1.6
Length = 296
Score = 25.8 bits (57), Expect = 3.2
Identities = 8/55 (14%), Positives = 23/55 (41%), Gaps = 1/55 (1%)
Query: 46 LKTSKKLIHFRDRTIRTHILEDLIEE-VNRIIVLAKAHKRRLELKIFEDNEVWRL 99
SK+L+ D+ + + L L+ + I+++ + ++ D + +
Sbjct: 22 RGVSKQLLPIYDKPMIYYPLSVLMLAGIREILIITTPEDKGYFQRLLGDGSEFGI 76
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 685
Score = 25.3 bits (55), Expect = 4.6
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 10/46 (21%)
Query: 40 EKLERALKTSKKLIHFR--DRTI--------RTHILEDLIEEVNRI 75
+ E+A +K LI + + + +TH + D IE + +
Sbjct: 32 KDFEKAWIETKDLIKAKKINESYPRIKPVFGKTHPVNDTIENLRQA 77
>3dk5_A Bifunctional protein GLMU; acetyltransferase, pyrophosphorylase,
rossmann-like fold, LEFT-handed-beta-helix, trimer,
cell shape; 2.23A {Mycobacterium tuberculosis} PDB:
3d8v_A 3d98_A* 3dj4_A 3foq_A 2qkx_A*
Length = 495
Score = 24.7 bits (52), Expect = 6.1
Identities = 11/51 (21%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 48 TSKKLIHFRDRTIRTHILEDLIE-EVNRIIVLAKAHKRRLELKIFEDNEVW 97
T K L R++ +H+L + + R+IV+ +R+ + E +
Sbjct: 24 TPKVLHTLAGRSMLSHVLHAIAKLAPQRLIVVLGHDHQRIAPLVGELADTL 74
>1hv9_A UDP-N-acetylglucosamine pyrophosphorylase; LEFT-handed parallel
beta-helix, transferase; HET: COA UD1; 2.10A
{Escherichia coli} SCOP: b.81.1.4 c.68.1.5 PDB: 2oi5_A*
2oi6_A* 2oi7_A* 3fww_A 1fxj_A* 1fwy_A*
Length = 456
Score = 24.7 bits (52), Expect = 6.7
Identities = 6/51 (11%), Positives = 19/51 (37%), Gaps = 2/51 (3%)
Query: 47 KTSKKLIHFRDRTIRTHILEDLIE-EVNRIIVLAKAHKRRLELKIFEDNEV 96
K L + + H+++ E + ++ L+ + +D+ +
Sbjct: 22 DLPKVLHTLAGKAMVQHVIDAANELGAAHVHLVYGHGGDLLK-QALKDDNL 71
>2ux8_A Glucose-1-phosphate uridylyltransferase; UGPG, GALU
pyrophosphorylase, nucleotidyltransferase; HET: G1P;
2.65A {Sphingomonas elodea}
Length = 297
Score = 24.6 bits (52), Expect = 7.1
Identities = 7/76 (9%), Positives = 22/76 (28%)
Query: 47 KTSKKLIHFRDRTIRTHILEDLIEEVNRIIVLAKAHKRRLELKIFEDNEVWRLLDEARED 106
K+++ DR + + +++ +E ++ + F+ AR
Sbjct: 34 AMPKEMLPVVDRPLIQYAVDEAVEAGIEQMIFVTGRGKSALEDHFDIAYELEATMAARGK 93
Query: 107 CEGCENCSEHPDQEHK 122
+ +
Sbjct: 94 SLDVLDGTRLKPGNIA 109
>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane,
membrane, transmembrane, transport, ATP- binding,
hydrolase, nucleotide-binding, periplasm; HET: 1PE;
2.60A {Escherichia coli} PDB: 1l7v_C*
Length = 249
Score = 24.5 bits (53), Expect = 7.5
Identities = 10/54 (18%), Positives = 21/54 (38%), Gaps = 6/54 (11%)
Query: 29 EPESNYEVEVIEKLERALKTSKKLIHFRDRTI--RTHILEDLIEEVNRIIVLAK 80
EP ++ +V L++ L + + I +H L + +R +L
Sbjct: 159 EPMNSLDVAQQSALDKILS----ALSQQGLAIVMSSHDLNHTLRHAHRAWLLKG 208
>1xi3_A Thiamine phosphate pyrophosphorylase; structural genomics,
southeast collaboratory for structural genomics,
hyperthermophIle; 1.70A {Pyrococcus furiosus} SCOP:
c.1.3.1
Length = 215
Score = 24.5 bits (52), Expect = 8.0
Identities = 8/48 (16%), Positives = 17/48 (35%), Gaps = 3/48 (6%)
Query: 39 IEKLERALKTSKKLIHFRDRTIRTHILEDLIEEVNRIIVLAKAHKRRL 86
+E + AL+ I R + T ++ E + L + +
Sbjct: 29 VESVREALEGGATAIQMRIKNAPT---REMYEIGKTLRQLTREYDALF 73
>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural genomics,
joint center for structural genomics, JCSG; 2.10A
{Thermotoga maritima MSB8} SCOP: c.37.1.12
Length = 256
Score = 24.5 bits (53), Expect = 8.2
Identities = 9/52 (17%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 29 EPESNYEVEVIEKLERALKTSKKLIHFRDRTIRTHILEDLIEEVNRIIVLAK 80
EP S +V ++ + LK + + + +H + ++ +RI ++
Sbjct: 172 EPTSGLDVLNAREVRKILKQASQ--EGLTILVSSHNMLEVEFLCDRIALIHN 221
>1aor_A Aldehyde ferredoxin oxidoreductase; HET: PTE; 2.30A {Pyrococcus
furiosus} SCOP: a.110.1.1 d.152.1.1
Length = 605
Score = 24.5 bits (53), Expect = 8.2
Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 3/63 (4%)
Query: 66 EDLIEEVNRIIVLAKAHKRRLELKIFEDNEV-WRLLDEAREDCEGCENCSEHPDQEHKED 124
ED ++ RI + + L D+ + R L+E EG +E
Sbjct: 521 EDYLKIGERIWNAERLFNLKAGLDPARDDTLPKRFLEEPMP--EGPNKGHTVRLKEMLPR 578
Query: 125 YYA 127
YY
Sbjct: 579 YYK 581
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 665
Score = 24.5 bits (53), Expect = 8.3
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 10/46 (21%)
Query: 40 EKLERALKTSKKLIHFR--DRTI--------RTHILEDLIEEVNRI 75
+ E+A +K LI + + + +TH + D IE + +
Sbjct: 32 KDFEKAWIETKDLIKAKKINESYPRIKPVFGKTHPVNDTIENLRQA 77
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 24.3 bits (52), Expect = 8.5
Identities = 11/52 (21%), Positives = 24/52 (46%), Gaps = 5/52 (9%)
Query: 29 EPESNYEVEVIEKLERALKTSKKLIHFRDRTI--RTHILEDLIEEVNRIIVL 78
EP + +VE + RA++ L+ ++T H + + +R++V
Sbjct: 427 EPSAYLDVEQRLAVSRAIR---HLMEKNEKTALVVEHDVLMIDYVSDRLMVF 475
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 648
Score = 24.2 bits (52), Expect = 9.5
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 10/46 (21%)
Query: 40 EKLERALKTSKKLIHFR--DRTI--------RTHILEDLIEEVNRI 75
+ E+A +K LI + + + +TH + D IE + +
Sbjct: 32 KDFEKAWIETKDLIKAKKINESYPRIKPVFGKTHPVNDTIENLRQA 77
>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur
cluster, adenosine diphosphate, nucleotide-binding; HET:
ADP; 2.80A {Pyrococcus abyssi}
Length = 607
Score = 24.2 bits (52), Expect = 10.0
Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 5/52 (9%)
Query: 29 EPESNYEVEVIEKLERALKTSKKLIHFRDRTI--RTHILEDLIEEVNRIIVL 78
EP + +VE + RA++ L+ ++T H + + +R+IV
Sbjct: 497 EPSAYLDVEQRLAVSRAIR---HLMEKNEKTALVVEHDVLMIDYVSDRLIVF 545
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
0.317 0.135 0.385
Gapped
Lambda K H
0.267 0.0588 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,221,105
Number of extensions: 56783
Number of successful extensions: 283
Number of sequences better than 10.0: 1
Number of HSP's gapped: 282
Number of HSP's successfully gapped: 65
Length of query: 130
Length of database: 5,693,230
Length adjustment: 82
Effective length of query: 48
Effective length of database: 3,705,222
Effective search space: 177850656
Effective search space used: 177850656
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: 51 (23.7 bits)