RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6109
(192 letters)
>gnl|CDD|215743 pfam00137, ATP-synt_C, ATP synthase subunit C.
Length = 66
Score = 73.3 bits (181), Expect = 9e-18
Identities = 28/63 (44%), Positives = 38/63 (60%)
Query: 127 FIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIVA 186
LGAGLA+G + L AG IGI G A + A+ P LF M++ AE L +YGL++A
Sbjct: 1 LAALGAGLAIGLAALGAGIGIGIAGAAAIEAIARNPELFGKMLIGAALAEALAIYGLVIA 60
Query: 187 IYL 189
+ L
Sbjct: 61 LLL 63
>gnl|CDD|223709 COG0636, AtpE, F0F1-type ATP synthase, subunit
c/Archaeal/vacuolar-type H+-ATPase, subunit K [Energy
production and conversion].
Length = 79
Score = 68.4 bits (168), Expect = 1e-15
Identities = 32/71 (45%), Positives = 41/71 (57%), Gaps = 4/71 (5%)
Query: 123 AALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPR----LFVGMILILIFAEVL 178
A G +GAGLAVG + L AG GI+G A V A+QP LF M + L E L
Sbjct: 4 AKKGLALIGAGLAVGLAALGAGIGQGIIGAAAVEAVARQPEAAGKLFGKMFIGLALVEAL 63
Query: 179 GLYGLIVAIYL 189
G+YGL++A+ L
Sbjct: 64 GIYGLVIALLL 74
>gnl|CDD|130170 TIGR01100, V_ATP_synt_C, vacuolar ATP synthase 16 kDa proteolipid
subunit. This model describes the vacuolar ATP synthase
16 kDa proteolipid subunit in eukaryotes and includes
members from diverse groups e.g., fungi, plants,
parasites etc. The principal role V-ATPases are the
acidification of intracellular compartments of
eukaryotic cells [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 108
Score = 61.6 bits (150), Expect = 6e-13
Identities = 29/30 (96%), Positives = 29/30 (96%)
Query: 126 GFIHLGAGLAVGFSGLAAGFAIGIVGDAGV 155
GFIHLGAGLAVG SGLAAGFAIGIVGDAGV
Sbjct: 79 GFIHLGAGLAVGLSGLAAGFAIGIVGDAGV 108
Score = 29.7 bits (67), Expect = 0.42
Identities = 18/66 (27%), Positives = 32/66 (48%)
Query: 127 FIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIVA 186
F +GA A+ FS L A + G +P L + I+ ++ A ++ +YGL+VA
Sbjct: 2 FGVMGAAAALVFSALGAAYGTAKSGVGIAAMGVMRPELIMKSIIPVVMAGIIAIYGLVVA 61
Query: 187 IYLYTK 192
+ +
Sbjct: 62 VLIAGS 67
>gnl|CDD|235752 PRK06251, PRK06251, V-type ATP synthase subunit K; Validated.
Length = 102
Score = 47.0 bits (112), Expect = 2e-07
Identities = 22/68 (32%), Positives = 42/68 (61%), Gaps = 2/68 (2%)
Query: 124 ALGF--IHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLY 181
A GF I++GAGLAVG + + AG A+G+ AG+ ++ +F +++ + E + +Y
Sbjct: 30 AQGFAGINIGAGLAVGLAAIGAGIAVGMAAAAGIGVLTERRDMFGTVLIFVAIGEGIAVY 89
Query: 182 GLIVAIYL 189
G++ A+ +
Sbjct: 90 GILFAVLM 97
>gnl|CDD|184068 PRK13469, PRK13469, F0F1 ATP synthase subunit C; Provisional.
Length = 79
Score = 43.9 bits (104), Expect = 2e-06
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 5/69 (7%)
Query: 125 LGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGL 180
+G +GAG+A +G+ AG IGI V +QP ++ M+L AE +
Sbjct: 8 MGMSAIGAGIAA-LAGIGAGIGIGIATGKAVEAVGRQPEASGKIMSTMLLGAALAEATAI 66
Query: 181 YGLIVAIYL 189
YGL++AI L
Sbjct: 67 YGLVIAIIL 75
>gnl|CDD|180501 PRK06271, PRK06271, V-type ATP synthase subunit K; Validated.
Length = 213
Score = 44.8 bits (106), Expect = 6e-06
Identities = 25/58 (43%), Positives = 33/58 (56%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIVAI 187
+GAGLAVG +GL +G GI G +G A+ P F I+ + GLYG +VAI
Sbjct: 3 IGAGLAVGIAGLGSGIGAGITGASGAGVVAEDPNKFGTAIVFQALPQTQGLYGFLVAI 60
Score = 39.4 bits (92), Expect = 4e-04
Identities = 25/66 (37%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 124 ALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGL 183
A + L AGLAVG +GL+A GI AG+ A+ +F ++ + E +YGL
Sbjct: 69 APEWAMLAAGLAVGLAGLSA-IGQGIAASAGLGAVAEDDSIFGKAMVFSVLPETQAIYGL 127
Query: 184 IVAIYL 189
+VAI L
Sbjct: 128 LVAILL 133
Score = 37.5 bits (87), Expect = 0.002
Identities = 22/58 (37%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIVAI 187
LGAGLAVGF+GL +G GI + TA+ P +++ + E ++GL++AI
Sbjct: 149 LGAGLAVGFAGL-SGIGQGITAAGAIGATARDPDAMGKGLVLAVMPETFAIFGLLIAI 205
>gnl|CDD|184887 PRK14893, PRK14893, V-type ATP synthase subunit K; Provisional.
Length = 161
Score = 42.1 bits (99), Expect = 3e-05
Identities = 22/64 (34%), Positives = 34/64 (53%)
Query: 126 GFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIV 185
G + +GAG A+GF+GL +G GI + V + P +F I+ E +YG ++
Sbjct: 90 GLVAIGAGAAIGFAGLGSGMGQGIASASSVGAVVEDPDMFARGIIFSALPETQAIYGFLI 149
Query: 186 AIYL 189
AI L
Sbjct: 150 AILL 153
Score = 40.2 bits (94), Expect = 2e-04
Identities = 22/60 (36%), Positives = 32/60 (53%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIVAIYL 189
+GAG+AVGF+GL +G GI V A+ +F I+ E +YG ++AI L
Sbjct: 13 IGAGVAVGFAGLGSGLGQGIAAAGSVGAVAEDSDMFARGIIFSALPETQAIYGFLIAILL 72
>gnl|CDD|235830 PRK06558, PRK06558, V-type ATP synthase subunit K; Validated.
Length = 159
Score = 40.7 bits (96), Expect = 9e-05
Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 8/67 (11%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVL----GLYGLIV 185
LGA LAVG SG+ + +G G+A ++P F G LIL ++L GLYG ++
Sbjct: 19 LGAALAVGLSGIGSAKGVGKAGEAAAGLLTEEPEKF-GKALIL---QLLPGTQGLYGFVI 74
Query: 186 AIYLYTK 192
++ K
Sbjct: 75 GFLIWQK 81
Score = 31.1 bits (71), Expect = 0.19
Identities = 16/67 (23%), Positives = 29/67 (43%)
Query: 126 GFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIV 185
G + A L + GL + + G V AG++ A++P F I++ E + +V
Sbjct: 91 GLAYFAACLPIAIVGLFSAISQGKVAAAGIQILAKRPEEFTKGIILAAMVETYAILAFVV 150
Query: 186 AIYLYTK 192
+ L
Sbjct: 151 SFLLLNG 157
>gnl|CDD|180739 PRK06876, PRK06876, F0F1 ATP synthase subunit C; Validated.
Length = 78
Score = 37.6 bits (88), Expect = 3e-04
Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 11/68 (16%)
Query: 125 LGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRL--------FVGMILI---LI 173
+G + A +A+G + L A IG++G + G A+QP L F+G L+ I
Sbjct: 5 MGLTAIAAAIAIGLAALGAAIGIGLLGGKFLEGAARQPELIPMLQTKMFIGAGLVDAIPI 64
Query: 174 FAEVLGLY 181
+ L
Sbjct: 65 IGVGIALL 72
>gnl|CDD|180942 PRK07354, PRK07354, F0F1 ATP synthase subunit C; Validated.
Length = 81
Score = 37.5 bits (87), Expect = 4e-04
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLIV 185
+ A LAVG + + G G V G A+QP ++ ++L L F E L +YGL+V
Sbjct: 11 VAAALAVGLAAIGPGIGQGNAAGGAVEGIARQPEAEGKIRGTLLLSLAFMESLTIYGLVV 70
Query: 186 AIYL 189
A+ L
Sbjct: 71 ALVL 74
>gnl|CDD|177001 CHL00061, atpH, ATP synthase CF0 C subunit.
Length = 81
Score = 37.0 bits (86), Expect = 6e-04
Identities = 24/64 (37%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLIV 185
+ AGLAVG + + G G V G A+QP ++ ++L L F E L +YGL+V
Sbjct: 11 IAAGLAVGLASIGPGVGQGTAAGQAVEGIARQPEAEGKIRGTLLLSLAFMEALTIYGLVV 70
Query: 186 AIYL 189
A+ L
Sbjct: 71 ALAL 74
>gnl|CDD|236246 PRK08344, PRK08344, V-type ATP synthase subunit K; Validated.
Length = 157
Score = 36.7 bits (85), Expect = 0.002
Identities = 21/63 (33%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 126 GFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP-RLFVGMILILIFAEVLGLYGLI 184
LGAGL VG + L + GI+ +G+ + P + F I++ +AE++G++GL+
Sbjct: 88 ALALLGAGLLVGLAELLSAIPQGIICASGIGALPRTPGKTFTQTIILAAYAELMGIFGLV 147
Query: 185 VAI 187
AI
Sbjct: 148 FAI 150
Score = 35.5 bits (82), Expect = 0.005
Identities = 19/63 (30%), Positives = 31/63 (49%)
Query: 127 FIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIVA 186
++ LGA LA G +G A+ F +GI G A A+ + F +++ +YGLI
Sbjct: 2 YVALGAALAAGLAGAASSFGVGIAGSAAAGAVAEDEKNFRNALILAGLPMTQTIYGLITL 61
Query: 187 IYL 189
+
Sbjct: 62 FLI 64
>gnl|CDD|184069 PRK13471, PRK13471, F0F1 ATP synthase subunit C; Provisional.
Length = 85
Score = 34.8 bits (80), Expect = 0.004
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLF----VGMILILIFAEVLGLYGLIV 185
+GAGL +G + G G +G + A+QP + M+L AE G+Y L++
Sbjct: 18 IGAGLCMGIGAIGPGIGEGNIGAHAMDAMARQPEMVGTITTRMLLADAVAETTGIYSLLI 77
Query: 186 AI 187
A
Sbjct: 78 AF 79
>gnl|CDD|181027 PRK07558, PRK07558, F0F1 ATP synthase subunit C; Validated.
Length = 74
Score = 30.7 bits (70), Expect = 0.088
Identities = 21/75 (28%), Positives = 30/75 (40%), Gaps = 15/75 (20%)
Query: 123 AALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTA--------QQPRLFVGMILILIF 174
AL FI GAGLA A +G + + G Q L +G
Sbjct: 4 EALKFI--GAGLAC-IGMAGAALGVGNIFGNYLSGALRNPSAADSQFGYLLIGAA----L 56
Query: 175 AEVLGLYGLIVAIYL 189
AE LG++ ++A+ L
Sbjct: 57 AEALGIFSFLIALLL 71
>gnl|CDD|184067 PRK13468, PRK13468, F0F1 ATP synthase subunit C; Provisional.
Length = 82
Score = 30.8 bits (70), Expect = 0.090
Identities = 22/68 (32%), Positives = 31/68 (45%), Gaps = 12/68 (17%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPR--------LFVGMILILIFAEVLGLY 181
+ AGLAV + A G A + AQQP LFVG+ +I E + +Y
Sbjct: 11 IAAGLAVSIGAIGPALAEGRAVAAALDAIAQQPDAAGTISRTLFVGLAMI----ESMAIY 66
Query: 182 GLIVAIYL 189
+VA+ L
Sbjct: 67 CFVVAMIL 74
>gnl|CDD|130327 TIGR01260, ATP_synt_c, ATP synthase, F0 subunit c. This model
describes the subunit c in F1/F0-ATP synthase, a
membrane associated multisubunit complex found in
bacteria and organelles of higher eukaryotes, namely,
mitochondria and chloroplast. This enzyme is principally
involved in the synthesis of ATP from ADP and inorganic
phosphate by coupling the energy derived from the proton
electrochemical gradient across the biological membrane.
A brief description of this multisubunit enzyme complex:
F1 and F0 represent two major clusters of subunits. The
functional role of subunit c, which is the part of F0
cluster, has been delineated in-vitro reconstitution
experiments. Overall experimental proof exists that
demonstrate the electrochemical gradient is converted
into a rotational torque that leads to ATP synthesis
[Energy metabolism, ATP-proton motive force
interconversion].
Length = 58
Score = 29.3 bits (66), Expect = 0.22
Identities = 12/55 (21%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 139 SGLAAGFAIGIVGDAGVRGTAQQPR----LFVGMILILIFAEVLGLYGLIVAIYL 189
+ + A IGI+G + A+QP L M + + + + + +++A+ L
Sbjct: 1 AAIGAAIGIGILGGKFLESAARQPELKPLLRTTMFIGMGLVDAIPMIAVVIALIL 55
>gnl|CDD|169138 PRK07874, PRK07874, F0F1 ATP synthase subunit C; Validated.
Length = 80
Score = 29.8 bits (67), Expect = 0.23
Identities = 24/57 (42%), Positives = 31/57 (54%), Gaps = 8/57 (14%)
Query: 135 AVGFSGLAA---GFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLI 184
AVG+ GLAA G +GIV + G A+QP +L M L + F E L L GL+
Sbjct: 20 AVGY-GLAAIGPGIGVGIVVGKALEGMARQPEMAGQLRTTMFLGIAFVEALALIGLV 75
>gnl|CDD|153331 cd07647, F-BAR_PSTPIP, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine
Phosphatase-Interacting Proteins. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Vetebrates contain two
Proline-Serine-Threonine Phosphatase-Interacting
Proteins (PSTPIPs), PSTPIP1 and PSTPIP2. PSTPIPs are
mainly expressed in hematopoietic cells and are
involved in the regulation of cell adhesion and
motility. Mutations in PSTPIPs have been shown to cause
autoinflammatory disorders. PSTPIP1 contains an
N-terminal F-BAR domain, PEST motifs, and a C-terminal
SH3 domain, while PSTPIP2 contains only the N-terminal
F-BAR domain. F-BAR domains form banana-shaped dimers
with a positively-charged concave surface that binds to
negatively-charged lipid membranes. They can induce
membrane deformation in the form of long tubules.
Length = 239
Score = 30.9 bits (70), Expect = 0.33
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 44 GKSLQRTSAGAYCKDERGS-TTSWQKLRQQS 73
GK+L + S A DE G+ +SW LR+++
Sbjct: 39 GKALLKLSKSAGPGDEIGTLKSSWDSLRKET 69
>gnl|CDD|235949 PRK07159, PRK07159, F0F1 ATP synthase subunit C; Validated.
Length = 100
Score = 28.7 bits (64), Expect = 0.73
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 120 AKHAALGFIHLGAGLA---VGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAE 176
A + L ++GAGLA V GL G+A G +A R Q ++F + + +E
Sbjct: 24 ADSSGLKAAYIGAGLAMIGVIGVGLGQGYAFGKAVEAIARNPEAQKQVFKLLFIGSAISE 83
Query: 177 VLGLYGLIVAIYL 189
+Y L+VA L
Sbjct: 84 TSSIYALLVAFIL 96
>gnl|CDD|99738 cd00614, CGS_like, CGS_like: Cystathionine gamma-synthase is a PLP
dependent enzyme and catalyzes the committed step of
methionine biosynthesis. This pathway is unique to
microorganisms and plants, rendering the enzyme an
attractive target for the development of antimicrobials
and herbicides. This subgroup also includes
cystathionine gamma-lyases (CGL), O-acetylhomoserine
sulfhydrylases and O-acetylhomoserine thiol lyases.
CGL's are very similar to CGS's. Members of this group
are widely distributed among all three forms of life.
Length = 369
Score = 29.9 bits (68), Expect = 0.78
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 92 RLGLNLGAPPDPFEPWCISRPL-GLNLRKAKH 122
L L LG PF+ W + R L L LR +H
Sbjct: 212 FLRLALGTILSPFDAWLLLRGLKTLPLRMERH 243
>gnl|CDD|181444 PRK08482, PRK08482, F0F1 ATP synthase subunit C; Validated.
Length = 105
Score = 28.2 bits (63), Expect = 1.0
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 5/66 (7%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLIV 185
L AG+ +G + L +G A + GTA+ P +L M + L E +Y L++
Sbjct: 34 LAAGIGLGIAALGGAIGMGNTAAATIAGTARNPGLGGKLMTTMFIALAMIEAQVIYALVI 93
Query: 186 A-IYLY 190
A I LY
Sbjct: 94 ALIALY 99
>gnl|CDD|119320 cd06574, TM_PBP1_branched-chain-AA_like, Transmembrane subunit (TM)
of Periplasmic Binding Protein (PBP)-dependent
ATP-Binding Cassette (ABC) transporters which are
involved in the uptake of branched-chain amino acids
(AAs), as well as TMs of transporters involved in the
uptake of monosaccharides including ribose, galactose,
and arabinose. These transporters generally bind type 1
PBPs. PBP-dependent ABC transporters consist of a PBP,
two TMs, and two cytoplasmic ABCs, and are mainly
involved in importing solutes from the environment. The
solute is captured by the PBP which delivers it to a
gated translocation pathway formed by the two TMs. The
two ABCs bind and hydrolyze ATP and drive the transport
reaction. This group includes Escherichia coli LivM and
LivH, two TMs which heterodimerize to form the
translocation pathway of the E. coli branched-chain AA
LIV-1/LS transporter. This transporter is comprised of
two TMs (LivM and LivH), two ABCs (LivG and LivF), and
one of two alternative PBPs, LivJ (LIV-BP) and LivK
(LS-BP). In addition to transporting branched-chain AAs
including leucine, isoleucine and valine, the E. coli
LIV-1/LS transporter is involved in the uptake of the
aromatic AA, phenylalanine. Included in this group are
proteins from transport systems that contain a single TM
which homodimerizes to generate the transmembrane pore;
for example E. coli RbsC, AlsC, and MglC, the TMs of the
high affinity ribose transporter, the D-allose
transporter and the galactose transporter, respectively.
The D-allose transporter may also to be involved in low
affinity ribose transport.
Length = 266
Score = 29.2 bits (66), Expect = 1.2
Identities = 19/68 (27%), Positives = 28/68 (41%), Gaps = 8/68 (11%)
Query: 125 LGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMI---LILIFAEVLGLY 181
GF + G+ G GLAA I+G A V G +G+I ++ A L L
Sbjct: 192 QGFADVNMGIGTGVIGLAA----VIIGGAIV-GRRTIKASILGVIIGAILYRIALALALG 246
Query: 182 GLIVAIYL 189
++ L
Sbjct: 247 SGLIPSDL 254
>gnl|CDD|180303 PRK05880, PRK05880, F0F1 ATP synthase subunit C; Validated.
Length = 81
Score = 26.7 bits (59), Expect = 2.5
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLF 165
+G GL + + AG G+ G+A + G A+QP RLF
Sbjct: 11 IGGGLIMAGGAIGAGIGDGVAGNALISGVARQPEAQGRLF 50
>gnl|CDD|163654 cd07411, MPP_SoxB_N, Thermus thermophilus SoxB and related
proteins, N-terminal metallophosphatase domain. SoxB
(sulfur oxidation protein B) is a periplasmic
thiosulfohydrolase and an essential component of the
sulfur oxidation pathway in archaea and bacteria. SoxB
has a dinuclear manganese cluster and is thought to
catalyze the release of sulfate from a protein-bound
cysteine S-thiosulfonate. SoxB is expressed from the
sox (sulfur oxidation) gene cluster, which encodes 15
other sox genes, and has two domains, an N-terminal
metallophosphatase domain and a C-terminal
5'-nucleotidase domain. SoxB binds the SoxYZ complex
and is thought to function as a sulfate-thiohydrolase.
SoxB is closely related to the UshA, YchR, and CpdB
proteins, all of which have the same two-domain
architecture. The N-terminal metallophosphatase domain
belongs to a large superfamily of distantly related
metallophosphatases (MPPs) that includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). MPPs are functionally
diverse, but all share a conserved domain with an active
site consisting of two metal ions (usually manganese,
iron, or zinc) coordinated with octahedral geometry by a
cage of histidine, aspartate, and asparagine residues.
The conserved domain is a double beta-sheet sandwich
with a di-metal active site made up of residues located
at the C-terminal side of the sheets. This domain is
thought to allow for productive metal coordination.
Length = 264
Score = 27.6 bits (62), Expect = 3.8
Identities = 9/38 (23%), Positives = 12/38 (31%)
Query: 144 GFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLY 181
G IG++G P F + I E L
Sbjct: 137 GVKIGVIGQTFPYVPIANPPRFTPGLTFGIREEELQEV 174
>gnl|CDD|215864 pfam00335, Tetraspannin, Tetraspanin family.
Length = 221
Score = 27.4 bits (61), Expect = 4.1
Identities = 16/84 (19%), Positives = 31/84 (36%), Gaps = 8/84 (9%)
Query: 113 LGLNLRKAKHAALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPR----LFVGM 168
+G+ L L + A+ + G I +VG G G ++ R + +
Sbjct: 23 VGIWLLVIAKDYLAIALNDSIRALYILIIVLGVIILLVGFLGCCGAIKESRCLLLTYFIL 82
Query: 169 ILILIFAEVLGLYGLIVAIYLYTK 192
+LIL E+ + ++Y
Sbjct: 83 LLILFILEI----AAGILAFVYRD 102
>gnl|CDD|190601 pfam03323, GerA, Bacillus/Clostridium GerA spore germination
protein.
Length = 468
Score = 27.8 bits (63), Expect = 4.2
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 169 ILILIFAEVLGLYGLIVAIYL 189
+LI A + GLYG+I+ + L
Sbjct: 401 FPLLILAALFGLYGIILGLLL 421
>gnl|CDD|226685 COG4232, COG4232, Thiol:disulfide interchange protein
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 569
Score = 27.7 bits (62), Expect = 4.7
Identities = 27/114 (23%), Positives = 40/114 (35%), Gaps = 5/114 (4%)
Query: 71 QQSIADQLAEVSPTCPTRKTLRLGLNLGAPPDPFEPWCISRPLGLNLRKAKHAALGFIHL 130
QQ AD A + + L LN P + G+ L AK A+
Sbjct: 156 QQEGADSAATLKWSLLLAFLGGLLLNFTPCVLPM----LPLLSGIVLGSAKRASKARAFG 211
Query: 131 GAGLAVGFSGLAAGFAIGIVGDAGVRGTAQ-QPRLFVGMILILIFAEVLGLYGL 183
+ + V LA + AG+ AQ Q +G + L L ++GL
Sbjct: 212 LSFVYVQGMALAYTLLGLVAAAAGLGWQAQLQQPWVLGGLAALFVLLALSMFGL 265
>gnl|CDD|241425 cd13271, PH2_TAPP1_2, Tandem PH-domain-containing proteins 1 and
2 Pleckstrin homology (PH) domain, C-terminal repeat.
The binding of TAPP1 (also called PLEKHA1/pleckstrin
homology domain containing, family A (phosphoinositide
binding specific) member 1) and TAPP2 (also called
PLEKHA2) adaptors to PtdIns(3,4)P(2), but not PI(3,4,
5)P3, function as negative regulators of insulin and
PI3K signalling pathways (i.e. TAPP/utrophin/syntrophin
complex). TAPP1 and TAPP2 contain two sequential PH
domains in which the C-terminal PH domain specifically
binds PtdIns(3,4)P2 with high affinity. The N-terminal
PH domain does not interact with any phosphoinositide
tested. They also contain a C-terminal PDZ-binding
motif that interacts with several PDZ-binding proteins,
including PTPN13 (known previously as PTPL1 or FAP-1)
as well as the scaffolding proteins MUPP1 (multiple
PDZ-domain-containing protein 1), syntrophin and
utrophin. PH domains have diverse functions, but in
general are involved in targeting proteins to the
appropriate cellular location or in the interaction
with a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 114
Score = 26.5 bits (59), Expect = 4.9
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 22 YKSSTGTCEIPSIQMKEVQ----LLAGKSLQR 49
YKS T + +I +KEV L+G L R
Sbjct: 39 YKSETDKEPLRTIPLKEVLKVHECLSGDLLMR 70
>gnl|CDD|200363 TIGR04112, seleno_YedE, putative selenium metabolism protein, YedE
family. For 79 of the first 80 reference genomes in
which a member of this protein family, YedE, is found, a
selenium utilization system is found, spread over a
broad taxonomic range (Firmicutes, spirochetes,
delta-proteobacteria, Fusobacteria, Bacteriodes, etc.
This family is less widespread than YedF, also involved
in selenium metabolism.
Length = 337
Score = 27.5 bits (62), Expect = 4.9
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 7/64 (10%)
Query: 120 AKHAALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRG--TAQQPRLFVGMILILIFAEV 177
+ HA + I L AGL VG LA + +VG G+R + L G + IL+ A +
Sbjct: 180 SMHAPI-LISLAAGLIVGA--LAQRSRLCMVG--GIRDLILFKDTHLLSGFVAILVAALI 234
Query: 178 LGLY 181
L
Sbjct: 235 GNLV 238
>gnl|CDD|206271 pfam14102, Caps_synth_CapC, Capsule biosynthesis CapC. This family
of proteins play a role in capsule biosynthesis. They
are essential for gamma-polyglutamic acid (PGA)
production.
Length = 121
Score = 26.4 bits (59), Expect = 5.6
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 166 VGMILILIFAEVLGLY--GLIVAIYL 189
+G++L L F E GL GL+V YL
Sbjct: 2 IGVVLSLFFYERTGLSPGGLVVPGYL 27
>gnl|CDD|226911 COG4536, CorB, Putative Mg2+ and Co2+ transporter CorB [Inorganic
ion transport and metabolism].
Length = 423
Score = 27.3 bits (61), Expect = 5.6
Identities = 22/56 (39%), Positives = 28/56 (50%), Gaps = 8/56 (14%)
Query: 125 LGFIHLGAGLA-VGFSGLAAGFAIGIVGDAGVR-GTAQQPRLFVGMILILIFAEVL 178
+G I +G L + S LA I + GDAGV T V +IL+FAEVL
Sbjct: 59 IGTILIGNNLVNILASALATILGIRLYGDAGVAIATG------VLTFVILVFAEVL 108
>gnl|CDD|150609 pfam09955, DUF2189, Predicted integral membrane protein (DUF2189).
Members of this family are found in various hypothetical
prokaryotic proteins, as well as putative cytochrome c
oxidases. Their exact function has not, as yet, been
established.
Length = 127
Score = 26.4 bits (59), Expect = 5.7
Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 4/71 (5%)
Query: 123 AALGFIHLGAGLAVGF----SGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVL 178
A GF +G A G L G + GV + L +G++L L+F L
Sbjct: 5 LAAGFALIGPFAAAGLYEISRRLERGEPPSLRDSLGVWSRNLRQLLALGLVLALLFLFWL 64
Query: 179 GLYGLIVAIYL 189
+ LI A++L
Sbjct: 65 RVAALIFALFL 75
>gnl|CDD|236029 PRK07487, PRK07487, amidase; Provisional.
Length = 469
Score = 27.2 bits (61), Expect = 6.2
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 69 LRQQSIADQLAEVS-PTCPTRKTLRLGLNLGAPPDPFEPWCISRPL 113
++ I QL V P T LRL L A PDP +PW + PL
Sbjct: 207 SPERPIGAQLMSVQGPLARTVADLRLALAAMAAPDPRDPWWVPAPL 252
>gnl|CDD|217741 pfam03806, ABG_transport, AbgT putative transporter family.
Length = 502
Score = 27.3 bits (61), Expect = 6.5
Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 4/32 (12%)
Query: 123 AALGFIHLG----AGLAVGFSGLAAGFAIGIV 150
AA+ FI LG AGLA F+G++ GF+ ++
Sbjct: 142 AAMIFIALGRHPLAGLAAAFAGVSGGFSANLL 173
>gnl|CDD|225525 COG2978, AbgT, Putative p-aminobenzoyl-glutamate transporter
[Coenzyme metabolism].
Length = 516
Score = 27.3 bits (61), Expect = 6.7
Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 4/32 (12%)
Query: 123 AALGFIHLG----AGLAVGFSGLAAGFAIGIV 150
AA+ FI LG AGLA F+G++ GF+ ++
Sbjct: 153 AAMIFIALGRHPLAGLAAAFAGVSGGFSANLL 184
>gnl|CDD|223674 COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport
systems, permease components [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 317
Score = 27.1 bits (61), Expect = 6.9
Identities = 16/67 (23%), Positives = 26/67 (38%), Gaps = 16/67 (23%)
Query: 130 LGAGLAVGFSGLAAGFAIGIV------------GDAGVRGTAQ----QPRLFVGMILILI 173
L A L + L +GI D +R + P ++G++LIL+
Sbjct: 95 LPATLELALVALILAVLLGIPLGILAALKRGSWIDRLLRVLSLLGISIPSFWLGLLLILL 154
Query: 174 FAEVLGL 180
F+ LG
Sbjct: 155 FSVKLGW 161
>gnl|CDD|234415 TIGR03955, rSAM_HydG, [FeFe] hydrogenase H-cluster radical SAM
maturase HydG. This model describes the radical SAM
protein HydG. It is part of an enzyme metallocenter
maturation system, working together with GTP-binding
protein HydF and another radical SAM enzyme, HydE, in
H-cluster maturation in [FeFe] hydrogenases [Protein
fate, Protein modification and repair].
Length = 471
Score = 27.0 bits (60), Expect = 7.8
Identities = 8/19 (42%), Positives = 9/19 (47%)
Query: 49 RTSAGAYCKDERGSTTSWQ 67
RTS G Y + E S Q
Sbjct: 341 RTSVGGYAEPEPEDENSAQ 359
>gnl|CDD|213761 TIGR03041, PS_antenn_a_b, chlorophyll a/b binding light-harvesting
protein. This model represents a family of proteins
from the Cyanobacteria, closely homologous to and yet
distinct from PbsC, a chlorophyll a antenna protein of
photosystem II. Members are not univerally present in
Cyanobacteria, while the family has several members per
genome in Prochlorococcus marinus, with seven members in
a strain adapted to low light conditions. These antenna
proteins may deliver light energy to photosystem I
and/or photosystem II [Energy metabolism,
Photosynthesis].
Length = 321
Score = 26.9 bits (60), Expect = 7.9
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 143 AGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIVAIY 188
A IG +AGV T P + IL LI + VLG GL+ ++
Sbjct: 59 ATLGIG-FDEAGVW-TDTYPVFVIA-ILHLISSAVLGAGGLLHSLL 101
>gnl|CDD|224208 COG1289, COG1289, Predicted membrane protein [Function unknown].
Length = 674
Score = 27.0 bits (60), Expect = 8.3
Identities = 18/67 (26%), Positives = 25/67 (37%), Gaps = 8/67 (11%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLF-VGMILILIFAEVLGL-------Y 181
GA L+ G L V V AQ+P LF + + L L +G Y
Sbjct: 51 SGAVLSKGLKRLIGTLIGFAVALLLVALLAQEPWLFLLLLTLWLGLCTAIGSLYRTIASY 110
Query: 182 GLIVAIY 188
++A Y
Sbjct: 111 AFVLAGY 117
>gnl|CDD|223744 COG0672, FTR1, High-affinity Fe2+/Pb2+ permease [Inorganic ion
transport and metabolism].
Length = 383
Score = 26.6 bits (59), Expect = 8.7
Identities = 13/49 (26%), Positives = 18/49 (36%)
Query: 135 AVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGL 183
V +GLA +G + G Q + L+L A L GL
Sbjct: 175 LVAVAGLAVALVLGFLIYWGGIKLNLQAFFLLTGFLLLFVAAGLFSGGL 223
>gnl|CDD|237537 PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional.
Length = 440
Score = 26.8 bits (60), Expect = 9.2
Identities = 15/31 (48%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 129 HLGAGLAVGFSGLAAGFAIGIVGDAGVRGTA 159
LGAG AVG +GLAAG + AG A
Sbjct: 268 QLGAGAAVG-TGLAAG-GAAVAAAAGAGLAA 296
>gnl|CDD|164765 MTH00222, ATP9, ATP synthase F0 subunit 9; Provisional.
Length = 77
Score = 25.2 bits (55), Expect = 9.8
Identities = 23/65 (35%), Positives = 35/65 (53%), Gaps = 7/65 (10%)
Query: 130 LGAGLA-VGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLI 184
+GAG A +G +G AG IG V + G A+ P +LF IL +E +GL+ L+
Sbjct: 11 VGAGAATIGAAGSGAG--IGTVFGNLIIGYARNPSLKQQLFTYAILGFAISEAMGLFCLM 68
Query: 185 VAIYL 189
+A +
Sbjct: 69 MAFLI 73
>gnl|CDD|221854 pfam12920, TcdA_TcdB_pore, TcdA/TcdB pore forming domain. This
family represents the most conserved region within the
C. difficile Toxin A and Toxin B pore forming region.
Length = 654
Score = 26.5 bits (59), Expect = 9.9
Identities = 14/38 (36%), Positives = 15/38 (39%), Gaps = 3/38 (7%)
Query: 113 LGLNLRKAKHAALGFIHLG---AGLAVGFSGLAAGFAI 147
LG L A AA G AG+A G L F I
Sbjct: 230 LGAGLAGASTAAAVLGGAGVPLAGIAAGIPALVNNFLI 267
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 0.138 0.411
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,859,652
Number of extensions: 940707
Number of successful extensions: 1387
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1355
Number of HSP's successfully gapped: 146
Length of query: 192
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 100
Effective length of database: 6,857,034
Effective search space: 685703400
Effective search space used: 685703400
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: 56 (25.3 bits)