RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780614|ref|YP_003065027.1| F0F1 ATP synthase subunit
epsilon [Candidatus Liberibacter asiaticus str. psy62]
(135 letters)
>2rq6_A ATP synthase epsilon chain; F1FO ATP synthase, F1-ATPase, epsilon
subunit, ATP synthesis, CF1, hydrogen ION transport,
hydrolase; NMR {Thermosynechococcus elongatus} PDB:
2rq7_A
Length = 138
Score = 99.1 bits (247), Expect = 3e-22
Identities = 27/129 (20%), Positives = 57/129 (44%), Gaps = 1/129 (0%)
Query: 7 LHFELVSPEKCVFSGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIHRYV 66
+ +++P+K V+ + V+LPS G + +L HAP+LT +++G++ + E +
Sbjct: 3 MTVRVIAPDKTVWDAPAEEVILPSTTGQLGILSNHAPLLTALETGVMRVRQDREWVA-IA 61
Query: 67 VIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQLLVD 126
++GG ++ + T+L D L+ + + L + + Q
Sbjct: 62 LMGGFAEVENNEVTILVNGAERGDTIDLEKAKAEFAAAQAALAQAEQGESKQAKIQATQA 121
Query: 127 LSCLRRRIQ 135
R R+Q
Sbjct: 122 FRRARARLQ 130
>2qe7_H ATP synthase subunit epsilon; blockage of ATP hydrolysis,
F1-ATPase, single particle analysis, thermoalkaliphilic,
hydrolase; 3.06A {Bacillus SP}
Length = 135
Score = 93.8 bits (233), Expect = 1e-20
Identities = 27/117 (23%), Positives = 55/117 (47%), Gaps = 1/117 (0%)
Query: 7 LHFELVSPEKCVFSGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIHRYV 66
+ ++V+PE+ VF GE V+ G++ V+ GH P++T +K+ V I +E
Sbjct: 4 VQVDIVTPERKVFQGEADIVIARGVEGELGVMAGHIPLVTPLKTAPVRIKQGDKE-TLIA 62
Query: 67 VIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQL 123
V GG ++ P +L++T + ++ +K + L + D+ + +
Sbjct: 63 VSGGFLEVRPDKVNILADTAELPEEIDVERAKKAKARHETILKRLDKTDKDYLRHKR 119
>1aqt_A ATP synthase; hydrolase, ATPase, epsilon subunit; 2.30A
{Escherichia coli} SCOP: a.2.10.1 b.93.1.1 PDB: 1qo1_J
1bsh_A 1bsn_A 1fs0_E
Length = 138
Score = 91.8 bits (228), Expect = 4e-20
Identities = 27/106 (25%), Positives = 54/106 (50%)
Query: 5 NDLHFELVSPEKCVFSGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIHR 64
+ H ++VS E+ +FSG V+ + + G++ + GHAP+LT IK G++ I
Sbjct: 2 STYHLDVVSAEQQMFSGLVEKIQVTGSEGELGIYPGHAPLLTAIKPGMIRIVKQHGHEEF 61
Query: 65 YVVIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNN 110
+ GGI ++ P + TVL++T + + + + +++
Sbjct: 62 IYLSGGILEVQPGNVTVLADTAIRGQDLDEARAMEAKRKAEEHISS 107
>2xok_H ATP synthase; hydrolase, ATP-binding, F(O), F(1), mitochondr inner
membrane, transmembrane; HET: ANP; 3.01A {Saccharomyces
cerevisiae}
Length = 160
Score = 88.9 bits (220), Expect = 4e-19
Identities = 25/121 (20%), Positives = 54/121 (44%), Gaps = 3/121 (2%)
Query: 5 NDLHFELVSPEKCVFSG-EVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIH 63
+ L + P + ++SG EV V LP++ G I VL H P + + G+V +
Sbjct: 30 SGLKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVMEGSNS-K 88
Query: 64 RYVVIGGICDIVP-SHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQ 122
++ + GG + P S V + P+++ + ++ + E ++++ + Q
Sbjct: 89 KFFISGGFATVQPDSQLCVTAIEAFPLESFSQENIKNLLAEAKKNVSSSDAREAAEAAIQ 148
Query: 123 L 123
+
Sbjct: 149 V 149
>2w6j_H F1-ATPase delta subunit; ATP phosphorylase (H+ transporting),
transit peptide, F1FO ATP synthase, ATP phosphorylase;
3.84A {Bos taurus} PDB: 2w6h_H 2w6i_H
Length = 168
Score = 87.8 bits (217), Expect = 8e-19
Identities = 28/133 (21%), Positives = 57/133 (42%), Gaps = 2/133 (1%)
Query: 5 NDLHFELVSPEKCVF-SGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIH 63
+ F SP + F S V+ V +P++ G +L H P L ++ G+V +
Sbjct: 36 GQMSFTFASPTQVFFNSANVRQVDVPTQTGAFGILAAHVPTLQVLRPGLVVVHAEDGTTS 95
Query: 64 RYVVIGGICDIVPSH-CTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQ 122
+Y V G + +L+E + +D L A + +++ S+L D R +++
Sbjct: 96 KYFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAKANLEKAQSELLGAADEATRAEIQI 155
Query: 123 LLVDLSCLRRRIQ 135
+ L + ++
Sbjct: 156 RIEANEALVKALE 168
>2ck3_H ATP synthase delta chain; ATP phosphorylase, ATP phosphorylase (H+
transporting), F1FO ATP synthase, F1-ATPase, hydrolase,
ATP synthesis; HET: ANP ADP; 1.9A {Bos taurus} SCOP:
a.2.10.1 b.93.1.1 PDB: 1e79_H* 1h8e_H* 2jdi_H* 2v7q_H*
Length = 146
Score = 87.7 bits (217), Expect = 9e-19
Identities = 28/133 (21%), Positives = 57/133 (42%), Gaps = 2/133 (1%)
Query: 5 NDLHFELVSPEKCVF-SGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIH 63
+ F SP + F S V+ V +P++ G +L H P L ++ G+V +
Sbjct: 14 GQMSFTFASPTQVFFNSANVRQVDVPTQTGAFGILAAHVPTLQVLRPGLVVVHAEDGTTS 73
Query: 64 RYVVIGGICDIVPSH-CTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQ 122
+Y V G + +L+E + +D L A + +++ S+L D R +++
Sbjct: 74 KYFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAKANLEKAQSELLGAADEATRAEIQI 133
Query: 123 LLVDLSCLRRRIQ 135
+ L + ++
Sbjct: 134 RIEANEALVKALE 146
>2e5y_A ATP synthase epsilon chain; F1FO ATP synthase, F1-ATPase, epsilon
subunit, hydrolase; HET: ATP; 1.92A {Bacillus SP} PDB:
2e5t_A 2e5u_A
Length = 133
Score = 86.1 bits (213), Expect = 2e-18
Identities = 21/120 (17%), Positives = 52/120 (43%), Gaps = 1/120 (0%)
Query: 5 NDLHFELVSPEKCVFSGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIHR 64
+H +V+P+ V+ +V+ V + ++ G++ +L GH P++ ++ + +
Sbjct: 2 KTIHVSVVTPDGPVYEDDVEMVSVKAKSGELGILPGHIPLVAPLEISAARLKKG-GKTQY 60
Query: 65 YVVIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQLL 124
V GG ++ P T+L++ ++ + + + L + D + E L
Sbjct: 61 IAVSGGFLEVRPDKVTILAQAAERAEDIDVLRAKAAKERAERRLQSQQDDIDFKRAELAL 120
>2hld_H ATP synthase delta chain, mitochondrial; ATP phosphorylase (H+
transporting), F1FO, F1- ATPase, hydrolase; HET: ANP;
2.80A {Saccharomyces cerevisiae} PDB: 3fks_H
Length = 138
Score = 82.3 bits (203), Expect = 4e-17
Identities = 26/132 (19%), Positives = 56/132 (42%), Gaps = 2/132 (1%)
Query: 5 NDLHFELVSPEKCVFSG-EVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIH 63
+ L + P + ++SG EV V LP++ G I VL H P + + G+V +
Sbjct: 8 SGLKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVMEGSNSKK 67
Query: 64 RYVVIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQL 123
++ G S V + P+++ + ++ + E ++++ + Q+
Sbjct: 68 FFISGGFATVQPDSQLCVTAIEAFPLESFSQENIKNLLAEAKKNVSSSDAREAAEAAIQV 127
Query: 124 LVDLSCLRRRIQ 135
V L L+ ++
Sbjct: 128 EV-LENLQSVLK 138
>3oee_H ATP synthase subunit delta; ATP phosphatase, F1F0 ATPase, ATP
synthesis, H ADP, PO4, mitochondria; HET: ANP; 2.74A
{Saccharomyces cerevisiae} PDB: 2wpd_H* 3fks_H 2hld_H*
3oeh_H* 3ofn_H* 3oe7_H*
Length = 138
Score = 82.3 bits (203), Expect = 4e-17
Identities = 25/121 (20%), Positives = 54/121 (44%), Gaps = 3/121 (2%)
Query: 5 NDLHFELVSPEKCVFSG-EVQSVVLPSELGDITVLVGHAPVLTTIKSGIVTISLSCEEIH 63
+ L + P + ++SG EV V LP++ G I VL H P + + G+V +
Sbjct: 8 SGLKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVMEGSNS-K 66
Query: 64 RYVVIGGICDIVP-SHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQRFQMEQ 122
++ + GG + P S V + P+++ + ++ + E ++++ + Q
Sbjct: 67 KFFISGGFATVQPDSQLCVTAIEAFPLESFSQENIKNLLAEAKKNVSSSDAREAAEAAIQ 126
Query: 123 L 123
+
Sbjct: 127 V 127
>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 = 36.8 bits (85), Expect = 0.001
Identities = 34/151 (22%), Positives = 48/151 (31%), Gaps = 65/151 (43%)
Query: 6 DLHFELVS-PEKCVFSGEVQ----SV---VL---PSELGD----ITVLVGHAPVLTTIKS 50
D + L+S P C G +Q V +L P EL T GH S
Sbjct: 227 DKDY-LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT---GH--------S 274
Query: 51 -GIVT-----ISLSCEEIHRYVV--------IGGICDIVPSH----CTVLSETIL----- 87
G+VT + S E V IG V + T L +IL
Sbjct: 275 QGLVTAVAIAETDSWESFFVSVRKAITVLFFIG-----VRCYEAYPNTSLPPSILEDSLE 329
Query: 88 -------PM---DNACLQALEKRIDEVCSDL 108
PM N + ++ +++ S L
Sbjct: 330 NNEGVPSPMLSISNLTQEQVQDYVNKTNSHL 360
>3aj7_A Oligo-1,6-glucosidase; (beta/alpha)8-barrel, hydrolase; 1.30A
{Saccharomyces cerevisiae} PDB: 3a4a_A* 3a47_A
Length = 589
Score = 28.3 bits (62), Expect = 0.59
Identities = 6/35 (17%), Positives = 12/35 (34%)
Query: 19 FSGEVQSVVLPSELGDITVLVGHAPVLTTIKSGIV 53
FS + +P++ + G+ P S
Sbjct: 543 FSSDATDFKIPNDDSSFKLEFGNYPKKEVDASSRT 577
>1mkf_A M3; decoy receptor, PSI, protein structure initiative; 2.10A {Murid
herpesvirus 4} SCOP: b.116.1.1 PDB: 1ml0_A 2nyz_A 2nz1_A
Length = 382
Score = 27.4 bits (60), Expect = 1.2
Identities = 21/80 (26%), Positives = 37/80 (46%), Gaps = 10/80 (12%)
Query: 39 VGHAPVLTTIKSGIVTISLSCEEIHRYVVIGGICDIVPSHCTVLSETILPMDNACLQALE 98
+G AP L+T SG+ T S+ +I R D + +HC +ET + C L+
Sbjct: 3 LGLAPALSTHSSGVSTQSVDLSQIKR-------GDEIQAHCLTPAETEV---TECAGILK 52
Query: 99 KRIDEVCSDLNNICDVDQRF 118
+ + +L +C+V +
Sbjct: 53 DVLSKNLHELQGLCNVKNKM 72
>3mml_B Allophanate hydrolase subunit 1; structural genomics, PSI-2,
protein structure initiative, tuberculosis structural
genomics consortium; 2.50A {Mycobacterium smegmatis}
Length = 228
Score = 25.4 bits (55), Expect = 5.0
Identities = 11/50 (22%), Positives = 21/50 (42%)
Query: 68 IGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLNNICDVDQR 117
+ G+ DIVP+ TVL + P A + ++ + + D+
Sbjct: 54 LLGVVDIVPAARTVLVKLAGPRYQAPTRQRLGKLRVRPEAITHQPPGDRV 103
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 24.8 bits (54), Expect = 6.8
Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 9/49 (18%)
Query: 62 IHRYVVIGGICDIVPSHCTVLSETIL---------PMDNACLQALEKRI 101
IHR + G + V + V ++ NA + RI
Sbjct: 29 IHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRI 77
>3gnl_A Uncharacterized protein, DUF633, LMOF2365_1472; structural
genomics, PSI-2, protein structure initiative; 1.50A
{Listeria monocytogenes str}
Length = 244
Score = 24.7 bits (53), Expect = 7.3
Identities = 7/85 (8%), Positives = 19/85 (22%), Gaps = 9/85 (10%)
Query: 50 SGIVTISLSCEEIHRYVVIGGICDIVPSHCTVLSETILPMDNACLQALEKRIDEVCSDLN 109
+ + + + ++V L ++ID +
Sbjct: 32 HAYLPCFAVKNQTASFAIA---GEVVDGPFQS------AQKQVRSSGLTEQIDVRKGNGL 82
Query: 110 NICDVDQRFQMEQLLVDLSCLRRRI 134
+ + + L R I
Sbjct: 83 AVIEKKDAIDTIVIAGMGGTLIRTI 107
>5csm_A Chorismate mutase; chorismate pyruvatemutase, allosteric protein,
complex (isomerase/peptide), transition state analog;
HET: TRP; 2.00A {Saccharomyces cerevisiae} SCOP:
a.130.1.2 PDB: 3csm_A* 2csm_A* 4csm_A* 1csm_A*
Length = 256
Score = 24.3 bits (53), Expect = 8.7
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 90 DNACLQALEKRI 101
D CLQ+L +RI
Sbjct: 147 DIECLQSLSRRI 158
>3c0k_A UPF0064 protein YCCW; PUA domain, adoMet dependent
methyltransferase fold; 2.00A {Escherichia coli K12}
Length = 396
Score = 24.3 bits (52), Expect = 9.2
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 18 VFSGEVQSVVLPSELGDITVLVGH 41
VFSG V + + LG+ +V H
Sbjct: 22 VFSGAVARMEGKASLGETIDIVDH 45
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
0.324 0.139 0.412
Gapped
Lambda K H
0.267 0.0669 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,185,919
Number of extensions: 51731
Number of successful extensions: 212
Number of sequences better than 10.0: 1
Number of HSP's gapped: 205
Number of HSP's successfully gapped: 24
Length of query: 135
Length of database: 5,693,230
Length adjustment: 82
Effective length of query: 53
Effective length of database: 3,705,222
Effective search space: 196376766
Effective search space used: 196376766
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 51 (23.5 bits)