RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254781086|ref|YP_003065499.1| F0F1 ATP synthase subunit B'
[Candidatus Liberibacter asiaticus str. psy62]
(176 letters)
>2cly_A ATP synthase B chain, mitochondrial; mitochondrion, ION
transport, CF(0), stator, transport, acetylation,
hydrogen ION transport; 2.8A {Bos taurus} (A:)
Length = 214
Score = 67.6 bits (165), Expect = 8e-13
Identities = 18/147 (12%), Positives = 44/147 (29%), Gaps = 11/147 (7%)
Query: 26 FWLAIIFGIFYWVTHRFILPRLSSIMEVRRNLISSDQEKMDSAKREVESMISSYEESLAI 85
+ AI F + + + + E++ A + E+S
Sbjct: 57 TFSAISTIGFLVYIVKKYGASVGEFADKLNEQKIAQLEEVKQASIKQIQDAIDMEKSQQA 116
Query: 86 ARAHAKEIIDKVVAAAEQNLEFQREVFEKDLLHKLSN----AQNEIDDMQKKASQEVYSI 141
+ D N+ EV ++ LH++ + +Q Q+
Sbjct: 117 LVQKRHYLFD----VQRNNIAMALEVTYRERLHRVYREVKNRLDYHISVQNMMRQKEQEH 172
Query: 142 VGEVTKDLVRKLGFSVSDADVQKILDR 168
+ + V + S+S ++ + +
Sbjct: 173 MINWVEKRVVQ---SISAQQEKETIAK 196
>1yew_A Particulate methane monooxygenase, B subunit; membrane
protein, copper, zinc, beta barrel, oxidoreductase;
2.80A {Methylococcus capsulatus str} (A:151-230)
Length = 80
Score = 34.0 bits (78), Expect = 0.012
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 25 FFWLAI-IFGIFYWVTHRFILPRLSSIMEVRRNLISSDQEK 64
FW AI + I YW +PRL + R + + S ++
Sbjct: 11 AFWFAIGVAWIGYWSRRPIFIPRLLMVDAGRADELVSATDR 51
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled
receptor, chromophore, glycoprotein, lipoprotein,
membrane, palmitate phosphorylation; HET: BOG RET PLM
TWT PC1; 2.50A {Todarodes pacificus} PDB: 2ziy_A* (A:)
Length = 448
Score = 31.1 bits (68), Expect = 0.083
Identities = 5/62 (8%), Positives = 14/62 (22%), Gaps = 13/62 (20%)
Query: 1 MASSSSSDFSSRFPPFDTSTFLSQFFWLA---------IIFGIFYWVTHRFILPRLSSIM 51
M + + + + + W GIF + ++
Sbjct: 1 MGRDLRDNETW----WYNPSIVVHPHWREFDQVPDAVYYSLGIFIGICGIIGCGGNGIVI 56
Query: 52 EV 53
+
Sbjct: 57 YL 58
>1b9u_A Protein (ATP synthase); membrane protein; HET: GMA; NMR
{Synthetic} (A:)
Length = 34
Score = 29.3 bits (66), Expect = 0.29
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 4/34 (11%)
Query: 18 TSTFLSQFFWLAIIFGIFYWVTHRFILPRLSSIM 51
+T L Q AI F +F +++ P L + +
Sbjct: 4 NATILGQ----AIAFVLFVLFCMKYVWPPLMAAI 33
>1sa0_E Stathmin 4; alpha-tubulin, beta-tubulin, colchicine, GTPase,
microtubule podophyllotoxin, tubulin, cell cycle; HET:
GTP GDP CN2; 3.58A {Rattus norvegicus} (E:1-90)
Length = 90
Score = 26.2 bits (58), Expect = 2.4
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 62 QEKMDSAKREVESMISSYEESLAIARAHAKEIIDKVVAAAEQNLEF 107
Q+K+++A+ + + + LA R H +E+I K A E+N F
Sbjct: 48 QKKLEAAEERRKYQEAELLKHLAEKREHEREVIQK---AIEENNNF 90
>3ezq_A Tumor necrosis factor receptor superfamily member 6;
apoptosis, DISC, FAS, membrane,receptor, transmembrane;
2.73A {Homo sapiens} PDB: 1ddf_A (A:1-62)
Length = 62
Score = 25.8 bits (57), Expect = 3.1
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 6/48 (12%)
Query: 131 QKKASQEVYSIVGEVT----KDLVRKLGFSVSDADVQKILDRKRDGID 174
S+ + +I G +T K VRK G ++A + +I +
Sbjct: 4 DVDLSKYITTIAGVMTLSQVKGFVRKNGV--NEAKIDEIKNDNVQDTA 49
>3fyq_A CG6831-PA (talin); 5-helix bundle, cell adhesion; 1.95A
{Drosophila melanogaster} (A:)
Length = 199
Score = 25.7 bits (56), Expect = 3.3
Identities = 13/82 (15%), Positives = 29/82 (35%), Gaps = 4/82 (4%)
Query: 59 SSDQEKMDSAKREVESMISSYEESLAIARAHAKEIIDK--VVAAAEQNLEFQREVFE--K 114
S + +A V +I + ++ A A E L+ + + E K
Sbjct: 2 SRGTQACINAAHTVSGIIGDLDTTIXFATAGTLHSDGDGSFADHREHILQTAKALVEDTK 61
Query: 115 DLLHKLSNAQNEIDDMQKKASQ 136
L+ + Q+++ + + A
Sbjct: 62 VLVTGAAGTQDQLANAAQNAVS 83
>1r2j_A Protein FKBI; polyketide synthase, polyketide, acyl-COA
dehydrogenase, , aldehyde dehydrogenase, oxidoreductase;
HET: FAD; 2.10A {Streptomyces hygroscopicus}
(A:1-104,A:210-366)
Length = 261
Score = 25.9 bits (56), Expect = 3.6
Identities = 4/32 (12%), Positives = 13/32 (40%)
Query: 83 LAIARAHAKEIIDKVVAAAEQNLEFQREVFEK 114
+ A +++ A + + E R++ +
Sbjct: 1 MPERDALLTDLVGDRAAEWDTSGELPRDLLVR 32
>3epv_A CNRX, nickel and cobalt resistance protein CNRR; all alpha
helix, coiled coil, periplasm, plasmid, metal binding
protein; HET: MSE; 1.74A {Ralstonia metallidurans CH34}
(A:)
Length = 109
Score = 25.5 bits (56), Expect = 3.8
Identities = 7/68 (10%), Positives = 17/68 (25%)
Query: 46 RLSSIMEVRRNLISSDQEKMDSAKREVESMISSYEESLAIARAHAKEIIDKVVAAAEQNL 105
L + + ++ +A ++ I+ A +E+ L
Sbjct: 19 ILELKEDAFAQRRREIETRLRAANGKLADAIAKNPAWSPEVEAATQEVERAAGDLQRATL 78
Query: 106 EFQREVFE 113
E
Sbjct: 79 VHVFEXRA 86
>3c19_A Uncharacterized protein MK0293; protein structure
initiative, PSI-2, NEW YORK SGX research center for
structural genomics, nysgxrc; 2.50A {Methanopyrus
kandleri AV19} (A:1-10,A:96-186)
Length = 101
Score = 25.6 bits (56), Expect = 4.0
Identities = 16/92 (17%), Positives = 36/92 (39%), Gaps = 11/92 (11%)
Query: 32 FGIFYWVTHRFILPRLSSIMEVRRNLISSDQE---KMDSAK-REVESMISSYEESLAIAR 87
G+ Y + + +P +VR + K+ + EV ++ + ++E I
Sbjct: 3 LGLDYEPSGVYSVPS--RFEDVRVVYGEREWRVSVKIAETEEGEVVTVKAEFDECREIGE 60
Query: 88 AH---AKEIIDKVVAAAEQNLEFQREVFEKDL 116
+E+ V AAA ++ E+++
Sbjct: 61 ETGIPPREVKAMVEAAARV--GGWVDLKEREI 90
>2rh1_A Beta-2-adrenergic receptor/T4-lysozyme chimera; GPCR, 7TM,
fusion, lipidic cubic phase, lipidic, mesophase,
cholesterol, membrane protein; HET: MAL CAU CLR PLM
12P; 2.40A {Homo sapiens} PDB: 3d4s_A*
(A:1-237,A:397-500)
Length = 341
Score = 25.3 bits (54), Expect = 4.4
Identities = 4/39 (10%), Positives = 12/39 (30%), Gaps = 2/39 (5%)
Query: 3 SSSSSDFSSRFPPFDTSTFLSQFF--WLAIIFGIFYWVT 39
+ + S P D + + + + I+ +
Sbjct: 16 AFLLAPNRSHAPDHDVTQQRDEVWVVGMGIVMSLIVLAI 54
>1zbm_A Hypothetical protein AF1704; alpha-beta protein, structural
genomics, PSI, protein structure initiative; 2.30A
{Archaeoglobus fulgidus dsm 4304} (A:1-88,A:179-280)
Length = 190
Score = 25.3 bits (56), Expect = 4.9
Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 13/62 (20%)
Query: 53 VRRNLISSDQEKMDSAKREVESMISSYEESLAIARAHAKEIIDKVVAAAEQNLEFQREVF 112
+RR+L QE+ A RE S+A A + E I+ + + L+ RE
Sbjct: 98 IRRDLSVEVQEEFLRAXRE----------SIAFAIENPDEAIEYAXKYS-RGLD--RERA 144
Query: 113 EK 114
++
Sbjct: 145 KR 146
>3eml_A Human adenosine A2A receptor/T4 lysozyme chimera;
caffeine, GPCR, membrane protein, LCP, mesophase,
structural genomics, PSI-2; HET: ZMA STE; 2.60A {Homo
sapiens} (A:1-222,A:380-488)
Length = 331
Score = 24.9 bits (53), Expect = 6.7
Identities = 6/54 (11%), Positives = 11/54 (20%), Gaps = 7/54 (12%)
Query: 3 SSSSSDFSSRFPPFDTSTFLSQFFWLAIIFGIF-----YWVTHRFILPRLSSIM 51
+ PP S+ + I W L ++
Sbjct: 5 DDDAMGQPVGAPPIMGSSVYITVELAIAVLAILGNVLVCWAVWLN--SNLQNVT 56
>1l2p_A ATP synthase B chain; alpha helix, hydrolase; 1.55A
{Escherichia coli} (A:)
Length = 61
Score = 24.9 bits (55), Expect = 7.0
Identities = 16/57 (28%), Positives = 31/57 (54%)
Query: 81 ESLAIARAHAKEIIDKVVAAAEQNLEFQREVFEKDLLHKLSNAQNEIDDMQKKASQE 137
+ L A+A A+ II++ Q L+ + E++ ++ AQ EI+ +K+A +E
Sbjct: 2 DQLKKAKAEAQVIIEQANKRRSQILDEAKAEAEQERTKIVAQAQAEIEAERKRAREE 58
>3dh4_A Sodium/glucose cotransporter; membrane protein, symporter,
sugar transport, SGLT, ION transport, membrane, sodium
transport, symport; HET: GAL; 2.70A {Vibrio
parahaemolyticus} (A:)
Length = 530
Score = 24.6 bits (52), Expect = 7.0
Identities = 3/30 (10%), Positives = 7/30 (23%)
Query: 24 QFFWLAIIFGIFYWVTHRFILPRLSSIMEV 53
+ I + ++ LP
Sbjct: 54 AIASYEWMSAITLIIVGKYFLPIFIEKGIY 83
>2zvf_A Alanyl-tRNA synthetase; C-terminal, oligomerization domain,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase, nucleotide-binding; 3.20A {Archaeoglobus
fulgidus} (A:27-171)
Length = 145
Score = 24.8 bits (54), Expect = 7.2
Identities = 9/68 (13%), Positives = 28/68 (41%)
Query: 92 EIIDKVVAAAEQNLEFQREVFEKDLLHKLSNAQNEIDDMQKKASQEVYSIVGEVTKDLVR 151
++ V E+ + ++E+ + A + ++ S +V + V + ++
Sbjct: 3 KLPKTVERFFEEWKDQRKEIERLKSVIADLWADILXERAEEFDSXKVVAEVVDADXQALQ 62
Query: 152 KLGFSVSD 159
KL +++
Sbjct: 63 KLAERLAE 70
>1u19_A Rhodopsin; G protein-coupled receptor, membrane protein,
retinal protein, photoreceptor, signaling protein; HET:
MAN NAG BMA RET PLM HTO HTG; 2.20A {Bos taurus} (A:)
Length = 348
Score = 24.5 bits (52), Expect = 7.8
Identities = 9/51 (17%), Positives = 15/51 (29%), Gaps = 12/51 (23%)
Query: 1 MASSSSSDFS---------SRFPPFDTSTFLS---QFFWLAIIFGIFYWVT 39
M + +F R P +L+ QF LA + +
Sbjct: 1 MNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLG 51
>1kij_A DNA gyrase subunit B; topoisomerase, gyrase B-coumarin
complex; HET: DNA NOV; 2.30A {Thermus thermophilus}
(A:218-390)
Length = 173
Score = 24.7 bits (53), Expect = 7.8
Identities = 12/68 (17%), Positives = 24/68 (35%), Gaps = 5/68 (7%)
Query: 49 SIMEVRRNLISSDQEKMDSA--KREVESMIS-SYEESLAIARAHAKEIIDKVVAAAE--Q 103
S+ + K+ + V ++ E L AK + +K + AA+ +
Sbjct: 105 SVKLPNPQFEGQTKGKLLNPEAGTAVGQVVYERLLEILEENPRIAKAVYEKALRAAQARE 164
Query: 104 NLEFQREV 111
RE+
Sbjct: 165 AARKAREL 172
>2o71_A Death domain-containing protein cradd; raidd, apoptosis;
2.00A {Homo sapiens} (A:)
Length = 115
Score = 24.5 bits (53), Expect = 8.0
Identities = 6/39 (15%), Positives = 14/39 (35%), Gaps = 2/39 (5%)
Query: 136 QEVYSIVGEVTKDLVRKLGFSVSDADVQKILDRKRDGID 174
++ +G + +V LG S D+ + +
Sbjct: 28 NQLAQRLGPEWEPMVLSLGL--SQTDIYRCKANHPHNVQ 64
>2qiz_A Ubiquitin conjugation factor E4; helical hairpin, ligase;
2.56A {Saccharomyces cerevisiae} PDB: 2qj0_A (A:187-482)
Length = 296
Score = 24.4 bits (53), Expect = 9.2
Identities = 14/81 (17%), Positives = 27/81 (33%), Gaps = 3/81 (3%)
Query: 12 RFPPFDTSTFLSQFFWLAI-IFGIFYWVTHRFILPRLSSIMEVRRNL--ISSDQEKMDSA 68
R F+S F+L + T F S I ++ + + D
Sbjct: 207 RKTADSKPNFISDCFFLTLTYLHYGLGGTLSFEEKMGSEIKALKEEIEKVKKIAANHDVF 266
Query: 69 KREVESMISSYEESLAIARAH 89
R + + +S E++L +
Sbjct: 267 ARFITAQLSKMEKALKTTESL 287
>2v8i_A Pectate lyase; periplasm, beta-elimination, pectin
degradation; 1.50A {Yersinia enterocolitica} PDB:
2v8k_A* 2v8j_A (A:1-183,A:462-543)
Length = 265
Score = 24.5 bits (53), Expect = 9.3
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 33 GIFYWVTHRFI 43
G+ YW HRF+
Sbjct: 99 GLLYWGGHRFV 109
>2khk_A ATP synthase subunit B; F1FO ATP synthase, spectroscopy,
ATP synthesis, cell inner membrane, cell membrane,
CF(0), hydrogen ION transport; NMR {Escherichia coli
k-12} (A:)
Length = 53
Score = 24.2 bits (53), Expect = 9.7
Identities = 11/47 (23%), Positives = 25/47 (53%)
Query: 49 SIMEVRRNLISSDQEKMDSAKREVESMISSYEESLAIARAHAKEIID 95
+ +E R+ I+ + A ++++ +S + L A+A A+ II+
Sbjct: 2 AAIEKRQKEIADGLASAERAHKDLDLAKASATDQLKKAKAEAQVIIE 48
>3ilv_A Glutamine-dependent NAD(+) synthetase; protein structure
initiative II(PSI II), NYSGXRC, structural genomics;
1.79A {Cytophaga hutchinsonii atcc 33406} (A:274-519)
Length = 246
Score = 24.4 bits (52), Expect = 9.7
Identities = 4/36 (11%), Positives = 11/36 (30%), Gaps = 4/36 (11%)
Query: 138 VYSIVGEVTKDLVRKL----GFSVSDADVQKILDRK 169
+ + V KD +R + + + +
Sbjct: 206 GIAPIAGVDKDFIRSWLRWAEKNRNQHGLHIVNKLA 241
>1j27_A Hypothetical protein TT1725; structural genomics,
hypothetical protein from thermus thermophilus HB8, MAD;
1.70A {Thermus thermophilus HB8} (A:)
Length = 102
Score = 24.2 bits (53), Expect = 9.8
Identities = 11/81 (13%), Positives = 25/81 (30%), Gaps = 15/81 (18%)
Query: 41 RFILPRLSSIMEVRRNLISSDQEKMDSAKREVESMISSYEESLAIA-----RAHAKEIID 95
R ++ ++ R + ++ +D+ EV + A +E +
Sbjct: 23 RALIKPALERLKARFPVSAARLYGLDAWGYEV----------VGFTLLGNDPAWVEETMR 72
Query: 96 KVVAAAEQNLEFQREVFEKDL 116
+ FQ + E L
Sbjct: 73 AAARFLAEAGGFQVALEEFRL 93
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
0.319 0.132 0.359
Gapped
Lambda K H
0.267 0.0650 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,215,011
Number of extensions: 48614
Number of successful extensions: 295
Number of sequences better than 10.0: 1
Number of HSP's gapped: 290
Number of HSP's successfully gapped: 76
Length of query: 176
Length of database: 4,956,049
Length adjustment: 83
Effective length of query: 93
Effective length of database: 2,150,234
Effective search space: 199971762
Effective search space used: 199971762
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 (21.8 bits)
S2: 51 (23.6 bits)