RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy963
(128 letters)
>gnl|CDD|130171 TIGR01101, V_ATP_synt_F, vacuolar ATP synthase F subunit. This
model describes the vacuolar ATP synthase F subunit (14
kDa subunit) in eukaryotes. In some archaeal species
this protein subunit is referred as G subunit [Transport
and binding proteins, Cations and iron carrying
compounds].
Length = 115
Score = 90.3 bits (224), Expect = 1e-24
Identities = 46/96 (47%), Positives = 59/96 (61%), Gaps = 8/96 (8%)
Query: 7 QLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTD 66
+L+ +IGDED+VVGFLLGGIG + N VVDK T EIED F ++R D
Sbjct: 6 KLIAVIGDEDTVVGFLLGGIGEIN-----KNRHPNFLVVDKNTTVSEIEDCFNRFLKRDD 60
Query: 67 VGIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102
+ I+LI + +A+ IRH +D RS P VLEIPS
Sbjct: 61 IAIILINQHIAEMIRHAVDAHTRS---IPAVLEIPS 93
>gnl|CDD|216832 pfam01990, ATP-synt_F, ATP synthase (F/14-kDa) subunit. This
family includes 14-kDa subunit from vATPases, which is
in the peripheral catalytic part of the complex. The
family also includes archaebacterial ATP synthase
subunit F.
Length = 92
Score = 74.2 bits (183), Expect = 1e-18
Identities = 41/94 (43%), Positives = 53/94 (56%), Gaps = 20/94 (21%)
Query: 9 VGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVG 68
+ +IGDED+V GF L GIG V+VV E E E+AF L+ R D+G
Sbjct: 1 IAVIGDEDTVTGFRLAGIGV-------------VYVVSPE----EAEEAFEELLEREDIG 43
Query: 69 IVLITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102
I+LIT +A+ IR T+D R V P +LEIPS
Sbjct: 44 IILITEDIAEEIRETID---RYESVLPAILEIPS 74
>gnl|CDD|224353 COG1436, NtpG, Archaeal/vacuolar-type H+-ATPase subunit F [Energy
production and conversion].
Length = 104
Score = 52.7 bits (127), Expect = 4e-10
Identities = 34/96 (35%), Positives = 48/96 (50%), Gaps = 17/96 (17%)
Query: 7 QLVGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTD 66
+ +IGD D+V GF L G+ V+V D DE+ A R L D
Sbjct: 3 MKIAVIGDRDTVTGFRLAGV-------------RVVYVAD--DEEDELRAALRVLAED-D 46
Query: 67 VGIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102
VGI+LIT +A++IR + R + V P ++EIPS
Sbjct: 47 VGIILITEDLAEKIREEIR-RIIRSSVLPAIVEIPS 81
>gnl|CDD|179685 PRK03957, PRK03957, V-type ATP synthase subunit F; Provisional.
Length = 100
Score = 51.5 bits (124), Expect = 9e-10
Identities = 26/93 (27%), Positives = 47/93 (50%), Gaps = 22/93 (23%)
Query: 9 VGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVG 68
+ ++GD D+V GF L G+ + V+ V +E ++A + LV ++G
Sbjct: 3 IAVVGDRDTVTGFRLAGL-------------TEVYEVKN---PEEAKNAIKELVENDEIG 46
Query: 69 IVLITRLVADRIRHTLDIRERSNQVYPIVLEIP 101
I++IT +A+ IR + + PI++EIP
Sbjct: 47 IIIITERIAEEIRDLISV------ALPIIVEIP 73
>gnl|CDD|179293 PRK01395, PRK01395, V-type ATP synthase subunit F; Provisional.
Length = 104
Score = 43.4 bits (103), Expect = 1e-06
Identities = 30/96 (31%), Positives = 45/96 (46%), Gaps = 24/96 (25%)
Query: 9 VGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVR--RTD 66
+G++GD+DS++ F GI +VF P + ++A TL + D
Sbjct: 6 IGVVGDKDSILPFKALGI--------------DVF------PVIDEQEAINTLRKLAMED 45
Query: 67 VGIVLITRLVADRIRHTLDIRERSNQVYPIVLEIPS 102
GI+ IT +A I T I NQV P ++ IPS
Sbjct: 46 YGIIYITEQIAADIPET--IERYDNQVLPAIILIPS 79
>gnl|CDD|213700 TIGR02310, HpaB-2, 4-hydroxyphenylacetate 3-monooxygenase,
oxygenase component. This gene for this monooxygenase
is found within apparent operons for the degradation of
4-hydroxyphenylacetic acid in Shigella, Photorhabdus and
Pasteurella. The family modelled by This model is
narrowly limited to gammaproteobacteria to exclude other
aromatic hydroxylases involved in various secondary
metabolic pathways. Generally, this enzyme acts with the
assistance of a small flavin reductase domain protein
(HpaC) to provide the cycle the flavin reductant for the
reaction. This family of sequences is a member of a
larger subfamily of monooxygenases (pfam03241).
Length = 519
Score = 30.7 bits (69), Expect = 0.17
Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 10/44 (22%)
Query: 28 HQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVL 71
H + PP +D+ P D+++D + + D GIV+
Sbjct: 154 HAIVNPP----------IDRNKPIDQVKDVYIKIEEERDDGIVV 187
>gnl|CDD|213261 cd03294, ABC_Pro_Gly_Betaine, ATP-binding cassette domain of the
osmoprotectant proline/glycine betaine uptake system.
This family comprises the glycine betaine/L-proline ATP
binding subunit in bacteria and its equivalents in
archaea. This transport system belong to the larger
ATP-Binding Cassette (ABC) transporter superfamily. The
characteristic feature of these transporters is the
obligatory coupling of ATP hydrolysis to substrate
translocation. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 269
Score = 29.1 bits (66), Expect = 0.45
Identities = 12/25 (48%), Positives = 13/25 (52%)
Query: 1 MAEEVLQLVGLIGDEDSVVGFLLGG 25
A E L+LVGL G E L GG
Sbjct: 140 RAAEALELVGLEGWEHKYPDELSGG 164
>gnl|CDD|235447 PRK05409, PRK05409, hypothetical protein; Provisional.
Length = 281
Score = 28.2 bits (64), Expect = 0.92
Identities = 15/33 (45%), Positives = 19/33 (57%), Gaps = 5/33 (15%)
Query: 76 VADRIRHTLDIRERSNQVYPIVLEIPSALDAFH 108
VA+RIR DI R P++LE PS+ AF
Sbjct: 122 VAERIRQVQDILGR-----PLLLENPSSYLAFP 149
>gnl|CDD|176954 CHL00011, ndhD, NADH dehydrogenase subunit 4.
Length = 498
Score = 28.4 bits (64), Expect = 1.1
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 83 TLDIRERSNQVYPIVLEI 100
TL+ +NQ YP+ LEI
Sbjct: 194 TLNFETLANQSYPVALEI 211
>gnl|CDD|131724 TIGR02677, TIGR02677, TIGR02677 family protein. Members of this
protein belong to a conserved gene four-gene
neighborhood found sporadically in a phylogenetically
broad range of bacteria: Nocardia farcinica,
Symbiobacterium thermophilum, and Streptomyces
avermitilis (Actinobacteria), Geobacillus kaustophilus
(Firmicutes), Azoarcus sp. EbN1 and Ralstonia
solanacearum (Betaproteobacteria) [Hypothetical
proteins, Conserved].
Length = 494
Score = 27.5 bits (61), Expect = 2.1
Identities = 11/52 (21%), Positives = 20/52 (38%)
Query: 34 PLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVGIVLITRLVADRIRHTLD 85
PL+ F+ K+ ++D LV R++ L+ L + L
Sbjct: 173 PLEVADYEAFLAYKDRLIAYLQDFIVRLVDRSEQIAQLLRVLAESGVDLLLT 224
>gnl|CDD|184188 PRK13626, PRK13626, transcriptional regulator SgrR; Provisional.
Length = 552
Score = 26.9 bits (60), Expect = 3.4
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 6/32 (18%)
Query: 2 AEEVL------QLVGLIGDEDSVVGFLLGGIG 27
AE++L QLV L+GD+ +V LL +G
Sbjct: 81 AEDLLEQDRIDQLVQLVGDKAAVRQMLLSHLG 112
>gnl|CDD|234804 PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta;
Reviewed.
Length = 791
Score = 26.3 bits (59), Expect = 5.0
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 43 FVVDKETPADEIEDAFR 59
VVD++ PA +I A +
Sbjct: 708 LVVDEDVPAADILKAIK 724
>gnl|CDD|234824 PRK00725, glgC, glucose-1-phosphate adenylyltransferase;
Provisional.
Length = 425
Score = 26.3 bits (59), Expect = 5.1
Identities = 13/23 (56%), Positives = 16/23 (69%), Gaps = 2/23 (8%)
Query: 52 DEIEDAFRTLVRRTDVGIVLITR 74
D EDA R RR++ GIVL+TR
Sbjct: 395 DPEEDAKR--FRRSEEGIVLVTR 415
>gnl|CDD|179387 PRK02228, PRK02228, V-type ATP synthase subunit F; Provisional.
Length = 100
Score = 25.3 bits (56), Expect = 5.8
Identities = 13/64 (20%), Positives = 26/64 (40%), Gaps = 16/64 (25%)
Query: 9 VGLIGDEDSVVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFRTLVRRTDVG 68
+ +IG + GF L GI V +++++A ++ DVG
Sbjct: 3 IAVIGSPEFTTGFRLAGI----------RKVYEV------PDDEKLDEAVEEVLEDDDVG 46
Query: 69 IVLI 72
I+++
Sbjct: 47 ILVM 50
>gnl|CDD|214893 smart00896, FDX-ACB, Ferredoxin-fold anticodon binding domain.
This is the anticodon binding domain found in some
phenylalanyl tRNA synthetases. The domain has a
ferredoxin fold, consisting of an alpha+beta sandwich
with anti-parallel beta-sheets (beta-alpha-beta x2).
Length = 93
Score = 25.1 bits (56), Expect = 6.2
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 43 FVVDKETPADEIEDAFR 59
FVVD++ PA E+ DA R
Sbjct: 12 FVVDEDVPAAELLDAIR 28
>gnl|CDD|202554 pfam03147, FDX-ACB, Ferredoxin-fold anticodon binding domain.
This is the anticodon binding domain found in some
phenylalanyl tRNA synthetases. The domain has a
ferredoxin fold.
Length = 94
Score = 25.1 bits (56), Expect = 6.9
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 43 FVVDKETPADEIEDAFR 59
FVVD++ PA +I D R
Sbjct: 12 FVVDEDVPAADILDVIR 28
>gnl|CDD|179820 PRK04313, PRK04313, 30S ribosomal protein S4e; Validated.
Length = 237
Score = 25.6 bits (57), Expect = 7.4
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 36 QTVTSNVFVVDKETPADEIE 55
+T+ VFV+ KE P ++
Sbjct: 217 ETILDYVFVIGKEKPVIKLP 236
>gnl|CDD|181329 PRK08258, PRK08258, enoyl-CoA hydratase; Provisional.
Length = 277
Score = 25.7 bits (57), Expect = 7.6
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 53 EIEDAFRTLVRRTDVGIVLIT 73
E+ D FR LV DV V++T
Sbjct: 48 ELRDLFRELVYADDVKAVVLT 68
>gnl|CDD|213231 cd03264, ABC_drug_resistance_like, ABC-type multidrug transport
system, ATPase component. The biological function of
this family is not well characterized, but display ABC
domains similar to members of ABCA subfamily. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 211
Score = 25.6 bits (57), Expect = 8.4
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 20/89 (22%)
Query: 2 AEEVLQLVGLIGDEDSVVGFLLGG------IGHQTITPPLQTVTSNVFVVDKET----PA 51
+EVL+LV L +G L GG I + P ++ +VD+ T P
Sbjct: 111 VDEVLELVNLGDRAKKKIGSLSGGMRRRVGIAQALVGDP------SILIVDEPTAGLDPE 164
Query: 52 DEIEDAFRTLVRR--TDVGIVLITRLVAD 78
+ I FR L+ D ++L T +V D
Sbjct: 165 ERI--RFRNLLSELGEDRIVILSTHIVED 191
>gnl|CDD|236433 PRK09259, PRK09259, putative oxalyl-CoA decarboxylase; Validated.
Length = 569
Score = 25.7 bits (57), Expect = 8.6
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 11 LIGDEDSVVGFLLGGIGHQTITPP 34
++GD SV+ LL G+ T P
Sbjct: 321 VVGDIGSVMQALLAGLKQNTFKAP 344
>gnl|CDD|129913 TIGR00833, actII, Transport protein. The
Resistance-Nodulation-Cell Division (RND) Superfamily-
MmpL sub family (TC 2.A.6.5)Characterized members of the
RND superfamily all probably catalyze substrate efflux
via an H+ antiport mechanism. These proteins are found
ubiquitously in bacteria, archaea and eukaryotes. This
sub-family includes the S. coelicolor ActII3 protein,
which may play a role in drug resistance, and the M.
tuberculosis MmpL7 protein, which catalyzes export of an
outer membrane lipid, phthiocerol dimycocerosate
[Transport and binding proteins, Unknown substrate].
Length = 910
Score = 25.7 bits (56), Expect = 8.8
Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 4/63 (6%)
Query: 18 VVGFLLGGIGHQTITPPLQTVTSNVFVVDKETPADEIEDAFR---TLVRRTDVGIVLITR 74
VG L+ + T+TP L T+ + K +I +R T V R I++ T
Sbjct: 311 AVGVLVALLNAVTLTPALLTLEGR-EGLMKPGRKSKIRFIWRRLGTAVVRRPWPILVTTL 369
Query: 75 LVA 77
+++
Sbjct: 370 IIS 372
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.321 0.139 0.391
Gapped
Lambda K H
0.267 0.0879 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,746,836
Number of extensions: 622806
Number of successful extensions: 683
Number of sequences better than 10.0: 1
Number of HSP's gapped: 672
Number of HSP's successfully gapped: 59
Length of query: 128
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 42
Effective length of database: 7,123,158
Effective search space: 299172636
Effective search space used: 299172636
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: 53 (23.9 bits)