RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780549|ref|YP_003064962.1| signal peptide protein
[Candidatus Liberibacter asiaticus str. psy62]
(271 letters)
>1lr0_A TOLA protein; domain-swapping, TONB, protein transport; 1.91A
{Pseudomonas aeruginosa} SCOP: d.212.1.1
Length = 129
Score = 50.0 bits (119), Expect = 6e-07
Identities = 15/102 (14%), Positives = 33/102 (32%), Gaps = 12/102 (11%)
Query: 175 SQDAIAIVRNRVIANWNIPSDFKRFKKLRVKMHFQLNQKGFVLGKINVDVVGGTELVRRM 234
+ ++ N V W P + + V++ ++ G + G +
Sbjct: 27 TGSLDDLIVNLVSQQWRRPPSARN--GMSVEVLIEMLPDGTITNASVSRSSG-----DKP 79
Query: 235 LRENARKAVIKSQAF----RLSPSTY-KSWRNITLFFVPSKM 271
+A AV +L +T+ +R + F P +
Sbjct: 80 FDSSAVAAVRNVGRIPEMQQLPRATFDSLYRQRRIIFKPEDL 121
>1tol_A G3P - TOLA, protein (fusion protein consisting of minor coat
protein, glycine rich linker, TOLA,...; bacteriophage
M13, phage infection; 1.85A {Enterobacteria phage M13}
SCOP: b.37.1.1 d.212.1.1 PDB: 1s62_A
Length = 222
Score = 49.9 bits (119), Expect = 6e-07
Identities = 15/92 (16%), Positives = 34/92 (36%), Gaps = 13/92 (14%)
Query: 180 AIVRNRVIANWNIPSDFKRFKKLRVKMHFQLNQKGFVLGKINVDVVGGTELVRRMLRENA 239
+++ + + + S + + +L G + +++ GG + + A
Sbjct: 134 GQIKSAIESKFYDASSYAG---KTCTLRIKLAPDGML---LDIKPEGGDPALCQ-----A 182
Query: 240 RKAVIKSQAFRLSPS--TYKSWRNITLFFVPS 269
A K PS Y+ ++N L F P+
Sbjct: 183 ALAAAKLAKIPKPPSQAVYEVFKNAPLDFKPA 214
>3hj3_A Chain A, crystal structure of DHFR; TS, enzyme, crossover,
non-active site, oxidoreductase; HET: UMP CB3 MTX NDP;
2.70A {Cryptosporidium hominis} PDB: 1qzf_A* 1sej_A*
3dl5_A* 3dl6_A* 2oip_A*
Length = 521
Score = 35.3 bits (81), Expect = 0.016
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 5/28 (17%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKL 202
A V + I W+I D K F K+
Sbjct: 12 ASVLSSGIGINGQLPWSISEDLKFFSKI 39
>3irm_A Bifunctional dihydrofolate reductase-thymidylate; DHFR-TS
antifolate complex, methyltransfe multifunctional
enzyme, NADP; HET: 1CY; 2.10A {Trypanosoma cruzi} PDB:
3inv_A* 3irn_A* 3iro_A* 2h2q_A* 3cl9_A* 3clb_A* 3hbb_A*
3kjs_A*
Length = 521
Score = 35.0 bits (80), Expect = 0.021
Identities = 9/28 (32%), Positives = 14/28 (50%), Gaps = 5/28 (17%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKL 202
A+ + I + WN+P D K F+ L
Sbjct: 28 AVDEHGGIGDGRSIPWNVPEDMKFFRDL 55
>2h2q_A Bifunctional dihydrofolate reductase-thymidylate synthase;
bifunctional enzyme in complex with NADP and DUMP,
oxidoreductase, transferase; HET: NAP DU; 2.40A
{Trypanosoma cruzi} PDB: 3cl9_A* 3clb_A* 3hbb_A*
Length = 521
Score = 34.6 bits (79), Expect = 0.027
Identities = 13/52 (25%), Positives = 19/52 (36%), Gaps = 7/52 (13%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKLRVKMHFQLNQKGFVLGKINVDVVG 226
A+ I + WN+P D K F+ V + K N V+G
Sbjct: 28 AVDERGGIGDGRSIPWNVPEDMKFFR--DVTTKLRGKNVKPSPAKRNAVVMG 77
>3cse_A Dihydrofolate reductase; protein-ligand complex, oxidoreductase;
HET: NAP N22; 1.60A {Candida glabrata} PDB: 3eej_A*
3eek_A* 3eel_A* 3eem_A*
Length = 227
Score = 33.2 bits (75), Expect = 0.059
Identities = 7/45 (15%), Positives = 18/45 (40%), Gaps = 5/45 (11%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKLRVKMHFQLNQKGFVLGK 219
A++ I W + + K F+++ + Q ++G+
Sbjct: 12 ALLPEMGIGFQGNLPWRLAKEMKYFREVTTLTNDNSKQNVVIMGR 56
>3ix9_A Dihydrofolate reductase; central beta sheet surrounded by 4 alpha
helices, oxidoreductase; HET: NDP MTX; 1.95A
{Streptococcus pneumoniae}
Length = 190
Score = 33.4 bits (76), Expect = 0.061
Identities = 11/50 (22%), Positives = 20/50 (40%), Gaps = 13/50 (26%)
Query: 161 LLSKVEKSSRKRIPSQDAIAIV---RNRVIAN-----WNIPSDFKRFKKL 202
L+ + K+I +AI VI W +P++ + FK+
Sbjct: 13 LVPRGSHGMTKKI-----VAIWAQDEEGVIGKDNRLPWYLPAELQHFKET 57
>3jwk_A Dihydrofolate reductase; oxidoreductase; HET: NAP 5WB; 2.08A
{Bacillus anthracis} PDB: 3jw5_A* 3jwf_A* 3jwc_A*
3jvx_A* 3jwm_A* 3jw3_A* 3e0b_A* 3dat_A* 2qk8_A* 3fl8_A*
3fl9_A* 2kgk_A*
Length = 168
Score = 33.3 bits (76), Expect = 0.063
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 5/28 (17%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKL 202
A+ NRVI W +PS+ + KK
Sbjct: 14 AMDENRVIGKDNNLPWRLPSELQYVKKT 41
>3dl5_A Dihydrofolate reductase, DHFR; enzyme active site mutant,
enzyme-ligand complex, , oxidoreductase; HET: UMP CB3
DHF NDP; 2.74A {Cryptosporidium hominis} PDB: 3dl6_A*
1qzf_A* 1sej_A* 2oip_A*
Length = 521
Score = 33.0 bits (75), Expect = 0.064
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 5/28 (17%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKL 202
A V + I W+I D K F K+
Sbjct: 12 ASVLSSGIGINGQLPWSISEDLKFFSKI 39
>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 = 33.0 bits (75), Expect = 0.083
Identities = 61/382 (15%), Positives = 99/382 (25%), Gaps = 180/382 (47%)
Query: 18 LLLLYFNFNVQLLVPISRREMLSVDNIYNEDYHSSKYKKIEEPVVQFKG----SSQENLV 73
L L + + LLVP + + + E ++ + EP F ++ LV
Sbjct: 9 LTLSHGSLEHVLLVPTA---SFFIASQLQEQFNKI----LPEPTEGFAADDEPTTPAELV 61
Query: 74 RDF------SVQENG----------------DRFSDQTKTHA------TENETK------ 99
F V+ + + + + HA EN+T
Sbjct: 62 GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKE 121
Query: 100 ------------RSSSSKGEQALKESALLRMPVSPYDKQKISKATNKEQDL------QGI 141
+ K SAL R L QG
Sbjct: 122 LIKNYITARIMAKRPFDKKSN----SALFR------------AVGEGNAQLVAIFGGQGN 165
Query: 142 S---FAEKKSI-DTVVVRPDKKELLSKV---------EKSSRKRIPSQ--DAIAIVRNRV 186
+ F E + + T +L+ +++ +Q +
Sbjct: 166 TDDYFEELRDLYQTY--HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN--------- 214
Query: 187 IANW-----NIPS-DFKRFKKL---RVKM---------HFQLNQKGFVLGKINVDVVGGT 228
I W N P D+ L + H+ V K ++G T
Sbjct: 215 ILEWLENPSNTPDKDY-----LLSIPISCPLIGVIQLAHYV------VTAK----LLGFT 259
Query: 229 --ELVRRMLR-------------------------ENARKAV-----I--KSQ-AF---R 250
EL R L+ + RKA+ I + A+
Sbjct: 260 PGEL-RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS 318
Query: 251 LSPSTYK-SWRNITLFFVPSKM 271
L PS + S N VPS M
Sbjct: 319 LPPSILEDSLENN--EGVPSPM 338
>3dfr_A Dihydrofolate reductase; oxido-reductase; HET: NDP MTX; 1.70A
{Lactobacillus casei} SCOP: c.71.1.1 PDB: 1ao8_A*
1bzf_A* 1dis_A* 1diu_A* 1lud_A* 2hm9_A* 2hqp_A*
Length = 162
Score = 32.8 bits (74), Expect = 0.088
Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 5/28 (17%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKL 202
A RN +I W++P D F+
Sbjct: 6 AQNRNGLIGKDGHLPWHLPDDLHYFRAQ 33
>2w3w_A Dihydrofolate reductase; nonclassical antifolates, one-carbon
metabolism, lipophilic antifolates, NADP,
oxidoreductase; HET: VG9 NDP; 1.60A {Mycobacterium
avium} PDB: 2w3v_A*
Length = 167
Score = 32.4 bits (73), Expect = 0.12
Identities = 9/28 (32%), Positives = 14/28 (50%), Gaps = 5/28 (17%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKL 202
A + VI W++P D RFK++
Sbjct: 11 AQSTSGVIGRGGDIPWSVPEDLTRFKEV 38
>1aoe_A DHFR, dihydrofolate reductase; oxidoreductase, antifungal target;
HET: NDP GW3; 1.60A {Candida albicans} SCOP: c.71.1.1
PDB: 1ai9_A* 1ia1_A* 1ia2_A* 1ia3_A* 1ia4_A* 1m78_A*
1m79_A* 1m7a_A*
Length = 192
Score = 31.8 bits (71), Expect = 0.18
Identities = 6/47 (12%), Positives = 16/47 (34%), Gaps = 5/47 (10%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKLRVKMHFQLNQKGFVLGKIN 221
A+ I W + + + FK + + + ++G+
Sbjct: 12 ALKPALGIGYKGKMPWRLRKEIRYFKDVTTRTTKPNTRNAVIMGRKT 58
>3e0b_A Dihydrofolate reductase; oxidoreductase; HET: NAP N22; 2.25A
{Bacillus anthracis} PDB: 3dat_A* 2qk8_A* 3fl8_A*
3fl9_A* 2kgk_A*
Length = 166
Score = 31.9 bits (72), Expect = 0.18
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 5/28 (17%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKL 202
A+ NRVI W +PS+ + KK
Sbjct: 12 AMDENRVIGKDNNLPWRLPSELQYVKKT 39
>2fzi_A Dihydrofolate reductase; trimethoprim derivatives, ring stacking
interactions, oxidoreductase; HET: NAP DH3; 1.60A
{Pneumocystis carinii} SCOP: c.71.1.1 PDB: 1daj_A*
1cd2_A* 1e26_A* 1klk_A* 1ly3_A* 1ly4_A* 1s3y_A* 2cd2_A*
2fzh_A* 1dyr_A* 3cd2_A* 4cd2_A* 1vj3_A*
Length = 206
Score = 31.0 bits (69), Expect = 0.28
Identities = 5/29 (17%), Positives = 12/29 (41%), Gaps = 5/29 (17%)
Query: 179 IAIVRNRVIAN-----WNIPSDFKRFKKL 202
+A+ + I W + + FK++
Sbjct: 11 VALTTSYGIGRSNSLPWKLKKEISYFKRV 39
>1df7_A DHFR, dihydrofolate reductase; structure-based inhibitor design,
folateanalogs, rossmann fold, nicotinamide adenine
dinucleotide; HET: NDP MTX; 1.70A {Mycobacterium
tuberculosis} SCOP: c.71.1.1 PDB: 1dg5_A* 1dg7_A*
1dg8_A* 2cig_A*
Length = 159
Score = 30.4 bits (68), Expect = 0.40
Identities = 7/27 (25%), Positives = 11/27 (40%), Gaps = 5/27 (18%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKK 201
A + VI W +P D F++
Sbjct: 7 AQATSGVIGRGGDIPWRLPEDQAHFRE 33
>1zdr_A Dihydrofolate reductase; DHFR, NADP, oxidoreductase; 2.00A
{Geobacillus stearothermophilus}
Length = 164
Score = 30.5 bits (68), Expect = 0.40
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 5/27 (18%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKK 201
A+ NRVI W++P+D FK+
Sbjct: 7 AMDENRVIGKDNRLPWHLPADLAYFKR 33
>3ia4_A Dihydrofolate reductase; NADPH, methotrexate, oxidoreductase; HET:
NDP MTX; 1.70A {Moritella profunda} PDB: 3ia5_A
Length = 162
Score = 30.3 bits (68), Expect = 0.43
Identities = 9/27 (33%), Positives = 16/27 (59%), Gaps = 5/27 (18%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKK 201
A+ NRVI W++P++ + FK+
Sbjct: 8 ALANNRVIGLDNKMPWHLPAELQLFKR 34
>1cz3_A Dihydrofolate reductase; dimer, hyperthermophIle, oxidoreductase;
2.10A {Thermotoga maritima} SCOP: c.71.1.1 PDB: 1d1g_A*
Length = 168
Score = 30.6 bits (68), Expect = 0.45
Identities = 8/33 (24%), Positives = 17/33 (51%), Gaps = 4/33 (12%)
Query: 179 IAIVRNRVIAN----WNIPSDFKRFKKLRVKMH 207
+A+ + IA+ W+ D K F+K+ ++
Sbjct: 7 LAMDVSGKIASSVESWSSFEDRKNFRKITTEIG 39
>3nrr_A Dihydrofolate reductase-thymidylate synthase; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid, niaid, DHFR; HET: NAP D16 UMP; 1.80A
{Babesia bovis} PDB: 3kjr_A* 3i3r_A* 3k2h_A*
Length = 515
Score = 30.3 bits (68), Expect = 0.45
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 6/29 (20%)
Query: 180 AIVRNRVIAN-----W-NIPSDFKRFKKL 202
A+ N+VI + W +I DF+ +
Sbjct: 20 AVALNKVIGHKNQIPWPHITHDFRFLRNG 48
>2w9h_A DHFR, dihydrofolate reductase; NADP, trimethoprim, oxidoreductase,
one-carbon metabolism; HET: TOP; 1.48A {Staphylococcus
aureus} PDB: 2w9g_A* 3fyw_X* 3fyv_X* 3fy8_X* 3fy9_X*
3fq0_A* 3f0b_X* 3fqc_A* 3fqz_A* 3f0u_X* 3fqf_A* 3fqo_A*
3fqv_A* 2w9s_A* 2w9t_A
Length = 159
Score = 30.0 bits (67), Expect = 0.52
Identities = 10/27 (37%), Positives = 13/27 (48%), Gaps = 5/27 (18%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKK 201
A RVI W++P+D K KK
Sbjct: 8 AHDLQRVIGFENQLPWHLPNDLKHVKK 34
>3kjr_A Dihydrofolate reductase/thymidylate synthase; microfluidics,
slipchip,structural genomics, PSI-2, protein structure
initiative; HET: NAP NHE; 1.95A {Babesia bovis T2BO}
PDB: 3i3r_A* 3k2h_A*
Length = 511
Score = 30.0 bits (67), Expect = 0.53
Identities = 11/54 (20%), Positives = 20/54 (37%), Gaps = 8/54 (14%)
Query: 179 IAIVRNRVIAN-----W-NIPSDFKRFKKLRVKMHFQLNQKGFVLGKINVDVVG 226
+A+ N+VI + W +I DF+ + + NV + G
Sbjct: 15 VAVALNKVIGHKNQIPWPHITHDFRFLR--NGTTYIPPEVLSKNPDIQNVVIFG 66
>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 = 30.0 bits (66), Expect = 0.54
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 11/32 (34%)
Query: 107 EQALKE-SALLRMPVSPY-DKQ----KISKAT 132
+QALK+ A L++ Y D I KAT
Sbjct: 19 KQALKKLQASLKL----YADDSAPALAI-KAT 45
Score = 28.4 bits (62), Expect = 1.7
Identities = 8/27 (29%), Positives = 16/27 (59%), Gaps = 5/27 (18%)
Query: 158 KKELLSKVEKSSRKRIPSQD---AIAI 181
+K+ L K++ S ++ + D A+AI
Sbjct: 18 EKQALKKLQAS--LKLYADDSAPALAI 42
>3dau_A Dihydrofolate reductase; oxidoreductase, pseudo-rossmann fold,
adenine nucleotide binding domain, antibiotic
resistance; HET: MTX NAP; 1.50A {Escherichia coli K12}
PDB: 1ddr_A* 1dds_A* 1ra9_A* 1dre_A* 1drh_A* 1dyi_A*
1dyh_A* 1jol_A* 1jom_A* 1ra1_A* 1dyj_A* 1ra3_A* 1ra8_A*
1ra2_A* 1rb2_A* 1rb3_A* 1rc4_A* 1rd7_A* 1re7_A* 1rf7_A*
...
Length = 159
Score = 29.3 bits (65), Expect = 0.95
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 5/28 (17%)
Query: 180 AIVRNRVIAN-----WNIPSDFKRFKKL 202
A+ +RVI WN+P+D FK+
Sbjct: 7 ALAVDRVIGMENAMPWNLPADLAWFKRN 34
>3jsu_A Dihydrofolate reductase-thymidylate synthase; rossmann fold,
oxidoreductase, transferase; HET: KA5 NDP UMP; 2.70A
{Plasmodium falciparum}
Length = 608
Score = 27.7 bits (61), Expect = 2.5
Identities = 7/56 (12%), Positives = 18/56 (32%), Gaps = 1/56 (1%)
Query: 190 WN-IPSDFKRFKKLRVKMHFQLNQKGFVLGKINVDVVGGTELVRRMLRENARKAVI 244
W I D K F+ + ++ +K ++ + + + V+
Sbjct: 48 WKCISLDMKYFRAVTTYVNESKYEKLKYKRCKYLNKETVDNVNDMPNSKKLQNVVV 103
>1kmv_A DHFR, dihydrofolate reductase; oxidoreductase, antiparasitic drugs,
lipophilic antifolates; HET: LII NDP; 1.05A {Homo
sapiens} SCOP: c.71.1.1 PDB: 1dhf_A* 1hfr_A* 1drf_A*
1kms_A* 1ohj_A* 1ohk_A* 1pd8_A* 1pd9_A* 1pdb_A 1s3u_A*
1s3v_A* 1s3w_A* 1u72_A* 1yho_A* 2c2s_A* 2c2t_A* 2dhf_A*
3ghw_A* 3fs6_A* 1mvs_A* ...
Length = 186
Score = 27.4 bits (60), Expect = 3.9
Identities = 9/46 (19%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 180 AIVRNRVIAN-----W-NIPSDFKRFKKLRVKMHFQLNQKGFVLGK 219
A+ +N I W + ++F+ F+++ + Q ++GK
Sbjct: 9 AVSQNMGIGKNGDLPWPPLRNEFRYFQRMTTTSSVEGKQNLVIMGK 54
>2grx_C Protein TONB; beta barrel, outer membrane, heterocomplex,
inter-protein beta sheet, protein-protein, metal
transport; HET: GCN KDO GMH FTT DAO MYR FCI; 3.30A
{Escherichia coli} SCOP: d.212.1.2 PDB: 1xx3_A
Length = 229
Score = 26.4 bits (57), Expect = 6.6
Identities = 9/60 (15%), Positives = 21/60 (35%), Gaps = 6/60 (10%)
Query: 152 VVVRPDKKELLSKVEKSSRKRIPSQDAIAIVRNRVIANWNIPSDFKRFKKLRVKMHFQLN 211
V PD + ++ + + ++ +R W K + V + F++N
Sbjct: 170 FDVTPDGRVDNVQILSAKPANMFEREVKNAMR-----RWR-YEPGKPGSGIVVNILFKIN 223
>1vdr_A DHFR, dihydrofolate reductase; oxidoreductase, halophilic enzyme;
2.55A {Haloferax volcanii} SCOP: c.71.1.1 PDB: 2ith_A
2jyb_A
Length = 162
Score = 25.9 bits (56), Expect = 10.0
Identities = 9/28 (32%), Positives = 15/28 (53%), Gaps = 6/28 (21%)
Query: 180 AIVRNRVIAN------WNIPSDFKRFKK 201
A+ NRVI +IP+D K+++
Sbjct: 8 ALAENRVIGRDGELPWPSIPADKKQYRS 35
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 0.131 0.359
Gapped
Lambda K H
0.267 0.0571 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,158,960
Number of extensions: 95709
Number of successful extensions: 253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 252
Number of HSP's successfully gapped: 37
Length of query: 271
Length of database: 5,693,230
Length adjustment: 91
Effective length of query: 180
Effective length of database: 3,487,026
Effective search space: 627664680
Effective search space used: 627664680
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 (21.7 bits)
S2: 56 (25.7 bits)