RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17322
(414 letters)
>gnl|CDD|215997 pfam00566, RabGAP-TBC, Rab-GTPase-TBC domain. Identification of a
TBC domain in GYP6_YEAST and GYP7_YEAST, which are
GTPase activator proteins of yeast Ypt6 and Ypt7,
implies that these domains are GTPase activator proteins
of Rab-like small GTPases.
Length = 206
Score = 145 bits (367), Expect = 2e-41
Identities = 56/174 (32%), Positives = 90/174 (51%), Gaps = 8/174 (4%)
Query: 237 DAKRREIWLTCSGALNEMLRDPDLYAAMRRRVQNERPNSNLSLSCDEIERDLHRSLPEHP 296
D+ R E+W G L+E + + + + P+ +IE+D+ R+ P H
Sbjct: 1 DSLRGEVWKLLLGNLSESKQRDSVSQYSKLLKLEDSPDEE------QIEKDVPRTFPHHF 54
Query: 297 AFQCEIGINALRRVLTAYAAKNPQIGYCQAMNIVTSVFLIYT-SEQEAFWLLVCLCESLL 355
F+ G LRR+L AY+ NP +GYCQ MN + + L+ E+EAFW V L E LL
Sbjct: 55 FFKNGEGQQQLRRILKAYSIYNPDVGYCQGMNFIAAPLLLVVLDEEEAFWCFVSLLEYLL 114
Query: 356 PDYYNTKVVGALVDQGVMNDLIEEYLPNLHEKLQNMGM-IRMISLSWFLTIFLS 408
D++ G D V +L++++ P L++ LQ +G+ + + WFLT+F
Sbjct: 115 RDFFLPSFPGLQRDLYVFEELLKKHDPELYKHLQKLGLDPSLFASKWFLTLFAR 168
>gnl|CDD|227535 COG5210, COG5210, GTPase-activating protein [General function
prediction only].
Length = 496
Score = 139 bits (352), Expect = 1e-36
Identities = 79/251 (31%), Positives = 129/251 (51%), Gaps = 9/251 (3%)
Query: 161 EKKLSQSSISSSTSSETAEQIQGPLLNLFKPDVGIETRSKEEVKNKQWELHFNRYKRGVS 220
EK S SSS +S + L+L + + R E +K W + +
Sbjct: 141 EKDFSSFKGSSSLNSNPELNKEINELSLK--EEPQKLRYYELAADKLWISYLDPNPLSFL 198
Query: 221 MYRTAEMTNLILRGVPDAKRREIWLTCSGALNEMLRDPDLYAAMRRRVQNERPNSNLSLS 280
+ +++ LI +G+P+ R ++W G ++ ++P LY + + + + +
Sbjct: 199 PVQLSKLRELIRKGIPNELRGDVWEFLLGIGFDLDKNPGLYERLLNLHREAKIPTQEII- 257
Query: 281 CDEIERDLHRSLPEHPAFQCEIGINA--LRRVLTAYAAKNPQIGYCQAMNIVTSVFLIY- 337
+IE+DL R+ P++ FQ EI I A LRRVL AY+ NP++GY Q MN + + L+
Sbjct: 258 -SQIEKDLSRTFPDNSLFQTEISIRAENLRRVLKAYSLYNPEVGYVQGMNFLAAPLLLVL 316
Query: 338 TSEQEAFWLLVCLCE-SLLPDYYNTKVVGALVDQGVMNDLIEEYLPNLHEKLQNMGM-IR 395
SE++AFW LV L + LP Y+ + G D V++DL+EE P L+E L G+ +
Sbjct: 317 ESEEQAFWCLVKLLKNYGLPGYFLKNLSGLHRDLKVLDDLVEELDPELYEHLLREGVVLL 376
Query: 396 MISLSWFLTIF 406
M + WFLT+F
Sbjct: 377 MFAFRWFLTLF 387
>gnl|CDD|214540 smart00164, TBC, Domain in Tre-2, BUB2p, and Cdc16p. Probable
Rab-GAPs. Widespread domain present in Gyp6 and Gyp7,
thereby giving rise to the notion that it performs a
GTP-activator activity on Rab-like GTPases.
Length = 216
Score = 129 bits (326), Expect = 2e-35
Identities = 64/184 (34%), Positives = 103/184 (55%), Gaps = 12/184 (6%)
Query: 231 ILRGVPDAKRREIWLTCSGAL-NEMLRDPDLYAAMRRRVQNERPNSNLSLSCDEIERDLH 289
+ +GVP + R +W A + D DLY+ + + + + +IE+DL
Sbjct: 1 VRKGVPPSLRGVVWKLLLNAQPMDTSADKDLYSRLLKETAPDDKSIV-----HQIEKDLR 55
Query: 290 RSLPEHPAFQCE--IGINALRRVLTAYAAKNPQIGYCQAMNIVTSVFLIY-TSEQEAFWL 346
R+ PEH FQ + G +LRRVL AYA NP++GYCQ MN + + L+ E++AFW
Sbjct: 56 RTFPEHSFFQDKEGPGQESLRRVLKAYALYNPEVGYCQGMNFLAAPLLLVMEDEEDAFWC 115
Query: 347 LVCLCESLLPDYYNTKVVGALVDQGVMNDLIEEYLPNLHEKLQNMGMIR--MISLSWFLT 404
LV L E P++Y + G +D ++ L++EY P+L++ L+++G I + +L WFLT
Sbjct: 116 LVKLMERYGPNFYLPDMSGLQLDLLQLDRLVKEYDPDLYKHLKDLG-ITPSLYALRWFLT 174
Query: 405 IFLS 408
+F
Sbjct: 175 LFAR 178
>gnl|CDD|241508 cd13354, PH-GRAM2_TCB1D9_TCB1D9B, TBC1 domain family members 9 and
9B (TBC1D9 and TBC1D9B) Pleckstrin
Homology-Glucosyltransferases, Rab-like GTPase
activators and Myotubularins (PH-GRAM) domain, repeat 2.
TBC1D9 and TCB1D9B may act as a GTPase-activating
proteins for Rab family protein(s). TBC1D9 and TCB1D9B
contain two N-terminal PH-GRAM domain and a C-terminal
Rab-GTPase-TBC (Tre-2, BUB2p, and Cdc16p) domain. This
cd contains the second repeat of the PH-GRAM domain. The
GRAM domain is found in glucosyltransferases,
myotubularins and other putative membrane-associated
proteins. The GRAM domain is part of a larger motif with
a pleckstrin homology (PH) domain fold.
Length = 114
Score = 106 bits (268), Expect = 3e-28
Identities = 38/64 (59%), Positives = 51/64 (79%)
Query: 59 LFRLPATEKLDGSIAAQLYTPYNRSQVNGRMFISQNYICFDSKIENLVSVVIPLRDVQTI 118
LFRLP EKLDGS L+TPYN+ V G++++SQNYICF SK+E+LVS+VIPLR+V ++
Sbjct: 1 LFRLPKDEKLDGSTDCTLWTPYNKRHVWGQLYLSQNYICFTSKVEDLVSLVIPLREVTSV 60
Query: 119 YQVD 122
+ D
Sbjct: 61 EKAD 64
>gnl|CDD|241507 cd13353, PH-GRAM2_TBC1D8, TBC1 domain family member 8 (TBC1D8; also
called Vascular Rab-GAP/TBC-containing protein)
Pleckstrin Homology-Glucosyltransferases, Rab-like
GTPase activators and Myotubularins (PH-GRAM) domain,
repeat 2. TBC1D8 may act as a GTPase-activating protein
for Rab family protein(s). TBC1D8 contains two
N-terminal PH-GRAM domain and a C-terminal
Rab-GTPase-TBC (Tre-2, BUB2p, and Cdc16p) domain. This
cd contains the second repeat of the PH-GRAM domain. The
GRAM domain is found in glucosyltransferases,
myotubularins and other putative membrane-associated
proteins. The GRAM domain is part of a larger motif with
a pleckstrin homology (PH) domain fold.
Length = 132
Score = 78.6 bits (194), Expect = 1e-17
Identities = 37/86 (43%), Positives = 53/86 (61%), Gaps = 4/86 (4%)
Query: 45 RDLNARAESEACRILFRLPATEKLDGSIAAQLYTPYNRSQVNGRMFISQNYICFDSKIEN 104
RDL ARA++E R FRLP EKL + L+TP++R G M+ S +Y+CF SK +
Sbjct: 4 RDLEARAQNEFFRAFFRLPRKEKLHEVVDCSLWTPFSRCHTAGTMYTSDSYLCFASKEDG 63
Query: 105 LVSVVIPLRDVQTIYQVDKDMESKSV 130
+V+IPLR+V +I + ME S+
Sbjct: 64 CCNVIIPLREVVSI----EKMEDTSL 85
>gnl|CDD|241372 cd13218, PH-GRAM2_TCB1D8_TCB1D9_family, TCB1D8 and TCB1D9 family
Pleckstrin Homology-Glucosyltransferases, Rab-like
GTPase activators and Myotubularins (PH-GRAM) domain,
repeat 2. TBC1D8, TBC1D8B, TBC1D9 and TBC1D9B may act
as a GTPase-activating proteins for Rab family
protein(s). They all contain an N-terminal PH-GRAM
domain and a C-terminal Rab-GTPase-TBC (Tre-2, BUB2p,
and Cdc16p) domain. This cd contains the second repeat
of the PH-GRAM domain. The GRAM domain is found in
glucosyltransferases, myotubularins and other putative
membrane-associated proteins. The GRAM domain is part of
a larger motif with a pleckstrin homology (PH) domain
fold.
Length = 96
Score = 71.1 bits (174), Expect = 2e-15
Identities = 38/98 (38%), Positives = 50/98 (51%), Gaps = 9/98 (9%)
Query: 66 EKLDGSIAAQLYTPYNRSQVNGRMFISQNYICFDSKIENLVSVVIPLRDVQTIYQV-DKD 124
EKL L+TP++ +G+MFIS+NYICF SK NL SV+IPLR+V I + D
Sbjct: 2 EKLKEVHDCFLWTPFSHFHTHGKMFISENYICFASKEGNLCSVIIPLREVLAIEKTNDSS 61
Query: 125 MESKSVEIVLHPKQYFGCDATTTYVFIVEKDAKRLREK 162
+ K V I + K + F KD L K
Sbjct: 62 VLPKPVIISIKGK--------MAFRFSELKDRDELVAK 91
>gnl|CDD|217271 pfam02893, GRAM, GRAM domain. The GRAM domain is found in in
glucosyltransferases, myotubularins and other putative
membrane-associated proteins.
Length = 60
Score = 54.2 bits (131), Expect = 7e-10
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 62 LPATEKLDGSIAAQLYTPYNRSQVNGRMFISQNYICFDSKIE-NLVSVVIPLRDVQTIY 119
LP EKL + L P + Q GR++++ N +CF S +L +VIPL D++ +
Sbjct: 1 LPPEEKLIADYSCYLQRPISPVQ--GRLYLTNNRLCFRSDKFGDLTVLVIPLADIERVE 57
>gnl|CDD|241506 cd13352, PH-GRAM2_TBC1D8B, TBC1 domain family member 8B (TBC1D8B)
Pleckstrin Homology-Glucosyltransferases, Rab-like
GTPase activators and Myotubularins (PH-GRAM) domain,
repeat 2. TBC1D8B may act as a GTPase-activating
protein for Rab family protein(s). TBC1D8B contains an
N-terminal PH-GRAM domain and a C-terminal
Rab-GTPase-TBC (Tre-2, BUB2p, and Cdc16p) domain. This
cd contains the second repeat of the PH-GRAM domain. The
GRAM domain is found in glucosyltransferases,
myotubularins and other putative membrane-associated
proteins. The GRAM domain is part of a larger motif with
a pleckstrin homology (PH) domain fold.
Length = 93
Score = 54.4 bits (131), Expect = 1e-09
Identities = 30/66 (45%), Positives = 42/66 (63%), Gaps = 4/66 (6%)
Query: 76 LYTPYNRSQVNGRMFISQNYICFDSKIENLVSVVIPLRDVQTIYQVDK-DMESKSVEIVL 134
L+ P++ +G+M IS+NYICF S+ +L SV+IPLR+V VDK D SK+V I +
Sbjct: 12 LWVPFSHFNTHGKMCISENYICFASQDGSLCSVIIPLREV---LAVDKTDDSSKAVIISI 68
Query: 135 HPKQYF 140
K F
Sbjct: 69 KGKTAF 74
>gnl|CDD|214725 smart00568, GRAM, domain in glucosyltransferases, myotubularins and
other putative membrane-associated proteins.
Length = 60
Score = 47.2 bits (113), Expect = 2e-07
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 6/63 (9%)
Query: 61 RLPATEKLDGSIAAQLYTPYNRSQ-VNGRMFISQNYICFDSKIE-NLVSVVIPLRDVQTI 118
+LP EKL + +R+ V GR++IS +CF S + L VVIPL D+ I
Sbjct: 1 KLPEEEKLIADYSC----YLSRTGPVQGRLYISNYRLCFRSNLPGKLTKVVIPLADITRI 56
Query: 119 YQV 121
+
Sbjct: 57 EKS 59
>gnl|CDD|241374 cd13220, PH-GRAM_GRAMDC, GRAM domain-containing protein (GRAMDC)
Pleckstrin Homology-Glucosyltransferases, Rab-like
GTPase activators and Myotubularins (PH-GRAM) domain.
The GRAMDC proteins are membrane proteins. Nothing is
known about its function. Members include: GRAMDC1A,
GRAMDC1B, GRAMDC1C, GRAMDC2, GRAMDC3, GRAMDC4, and
GRAMDC-like proteins. All of the members, except for
GRAMDC4 are included in this hierarchy. Each contains a
single PH-GRAM domain at their N-terminus. The GRAM
domain is found in glucosyltransferases, myotubularins
and other putative membrane-associated proteins. The
GRAM domain is part of a larger motif with a pleckstrin
homology (PH) domain fold.
Length = 111
Score = 48.3 bits (116), Expect = 3e-07
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 10/66 (15%)
Query: 57 RILFRLPATEKL--DGSIAAQLYTPYNRS-QVNGRMFISQNYICFDSKIENLVS-VVIPL 112
++ LP E+L D S A R + GR++IS+N+ICF S I + +VIP
Sbjct: 1 KLFKSLPDDERLIDDYSCA------LQRDILLQGRLYISENHICFYSNIFGWETKLVIPF 54
Query: 113 RDVQTI 118
+D+ +I
Sbjct: 55 KDITSI 60
>gnl|CDD|241370 cd13216, PH-GRAM2_AGT26, Autophagy-related protein 26/Sterol
3-beta-glucosyltransferase Pleckstrin homology (PH)
domain, repeat 2. ATG26 (also called
UGT51/UDP-glycosyltransferase 51), a member of the
glycosyltransferase 28 family, resulting in the
biosynthesis of sterol glucoside. ATG26 in decane
metabolism and autophagy. There are 32 known
autophagy-related (ATG) proteins, 17 are components of
the core autophagic machinery essential for all
autophagy-related pathways and 15 are the additional
components required only for certain pathways or
species. The core autophagic machinery includes 1) the
ATG9 cycling system (ATG1, ATG2, ATG9, ATG13, ATG18, and
ATG27), 2) the phosphatidylinositol 3-kinase complex
(ATG6/VPS30, ATG14, VPS15, and ATG34), and 3) the
ubiquitin-like protein system (ATG3, ATG4, ATG5, ATG7,
ATG8, ATG10, ATG12, and ATG16). Less is known about how
the core machinery is adapted or modulated with
additional components to accommodate the nonselective
sequestration of bulk cytosol (autophagosome formation)
or selective sequestration of specific cargos (Cvt
vesicle, pexophagosome, or bacteria-containing
autophagosome formation). The pexophagosome-specific
additions include the ATG30-ATG11-ATG17
receptor-adaptors complex, the coiled-coil protein
ATG25, and the sterol glucosyltransferase ATG26. ATG26
is necessary for the degradation of medium peroxisomes.
It contains 2 GRAM domains and a single PH domain. PH
domains are only found in eukaryotes. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. PH domains also have
diverse functions. They are often involved in targeting
proteins to the plasma membrane, but 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 = 117
Score = 44.0 bits (105), Expect = 1e-05
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 8/63 (12%)
Query: 60 FRLPATEKLDGSIAAQLYTPYNRS-QVNGRMFISQNYICFDSKIENLVS--VVIPLRDVQ 116
F LP +EKL A L R V G+++IS NY CF S + +++PL+D++
Sbjct: 7 FALPESEKLLAYYYAYLQ----RVLPVYGKLYISDNYFCFRSLLP-GTRTKMILPLKDIE 61
Query: 117 TIY 119
+
Sbjct: 62 NVE 64
>gnl|CDD|241306 cd10570, PH-GRAM, Pleckstrin Homology-Glucosyltransferases,
Rab-like GTPase activators and Myotubularins (PH-GRAM)
domain. Myotubularin-related proteins are a subfamily
of protein tyrosine phosphatases (PTPs) that
dephosphorylate D3-phosphorylated inositol lipids.
Mutations in this family cause the human neuromuscular
disorders myotubular myopathy and type 4B
Charcot-Marie-Tooth syndrome. 6 of the 13 MTMRs (MTMRs
5, 9-13) contain naturally occurring substitutions of
residues required for catalysis by PTP family enzymes.
Although these proteins are predicted to be
enzymatically inactive, they are thought to function as
antagonists of endogenous phosphatase activity or
interaction modules. Most MTMRs contain a N-terminal
PH-GRAM domain, a Rac-induced recruitment domain (RID)
domain, a PTP domain (which may be active or inactive),
a SET-interaction domain, and a C-terminal coiled-coil
region. In addition some members contain DENN domain
N-terminal to the PH-GRAM domain and FYVE, PDZ, and PH
domains C-terminal to the coiled-coil region. The GRAM
domain, found in myotubularins, glucosyltransferases,
and other putative membrane-associated proteins, is part
of a larger motif with a pleckstrin homology (PH) domain
fold.
Length = 94
Score = 39.6 bits (93), Expect = 2e-04
Identities = 14/65 (21%), Positives = 28/65 (43%), Gaps = 10/65 (15%)
Query: 76 LYTPYNRSQVNGRMFISQNYICFDSKI-ENLVSVVIPLRDVQTIYQVDK------DMESK 128
P++ V G ++++ + F SK ++ + +PL I +V+K S
Sbjct: 8 YICPFHVGPVEGTLYLTNYRLYFKSKERDSPTELDVPLGV---ISRVEKVGGSSSGENSY 64
Query: 129 SVEIV 133
+EI
Sbjct: 65 GLEIT 69
>gnl|CDD|241375 cd13221, PH-GRAM_GRAMDC4, GRAM domain-containing protein 4
(GRAMDC4) Pleckstrin Homology-Glucosyltransferases,
Rab-like GTPase activators and Myotubularins (PH-GRAM)
domain. GRAMDC4 is a membrane protein. Nothing is known
about its function. Paralogs include: GRAMDC1A,
GRAMDC1B, GRAMDC1C, GRAMDC2, GRAMDC3, and GRAMDC-like
proteins. It contains a single PH-GRAM domain at its
N-terminus. The GRAM domain is found in
glucosyltransferases, myotubularins and other putative
membrane-associated proteins. The GRAM domain is part of
a larger motif with a pleckstrin homology (PH) domain
fold.
Length = 121
Score = 32.7 bits (75), Expect = 0.091
Identities = 15/34 (44%), Positives = 25/34 (73%), Gaps = 1/34 (2%)
Query: 86 NGRMFISQNYICFD-SKIENLVSVVIPLRDVQTI 118
NGR+++++NY+CF+ S + +VVIPL D+ I
Sbjct: 33 NGRLYLTENYLCFESSSSSSKKNVVIPLTDITRI 66
>gnl|CDD|241373 cd13219, PH-GRAM_C2-GRAM, C2 and GRAM domain-containing protein
Pleckstrin Homology-Glucosyltransferases, Rab-like
GTPase activators and Myotubularins (PH-GRAM) domain.
C2GRAM contains two N-terminal C2 domains followed by a
single PH-GRAM domain. Since it contains both of these
domains it is assumed that this gene cross-links both
calcium and phosphoinositide signaling pathways. In
general he C2 domain is involved in binding
phospholipids in a calcium dependent manner or calcium
independent manner. The GRAM domain is found in
glucosyltransferases, myotubularins and other putative
membrane-associated proteins. The GRAM domain is part of
a larger motif with a pleckstrin homology (PH) domain
fold.
Length = 161
Score = 30.3 bits (69), Expect = 0.98
Identities = 19/65 (29%), Positives = 24/65 (36%), Gaps = 12/65 (18%)
Query: 59 LFRLPATEKLDGSIAAQLYTPYNRS-QVNGRMFISQNYICFDSKIENLVS----VVIPLR 113
LF LP E L L R + GR+F+S I F S NL
Sbjct: 25 LFGLPPEEFLINDFTCAL----KRKFPLQGRLFLSARIIGFYS---NLFGHKTKFFFLWE 77
Query: 114 DVQTI 118
D++ I
Sbjct: 78 DIEEI 82
>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional.
Length = 857
Score = 31.0 bits (70), Expect = 1.4
Identities = 26/106 (24%), Positives = 45/106 (42%), Gaps = 14/106 (13%)
Query: 208 WELHFNRYKRGVSMYRTAEMT----NLILRGVPDAKRRE--IWLTCSGALNEMLRDPDLY 261
W H + RG+S+ ++ + N LR + + E + L S + D D Y
Sbjct: 30 WNFHGRKRSRGLSVAASSSSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAY 89
Query: 262 AAMRRRVQNERPNSNLSLSCDEIERDLHRSLPEHPAFQCEIGINAL 307
A+ R + +R + +E R R+L HP+ +G NA+
Sbjct: 90 VALFRLCEWKR-------AVEEGSRVCSRALSSHPSLGVRLG-NAM 127
>gnl|CDD|173881 cd08516, PBP2_NikA_DppA_OppA_like_11, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 457
Score = 29.1 bits (66), Expect = 4.2
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 8/62 (12%)
Query: 216 KRGVSMYRTAEMTNLILRG---VPDAKRREIWLTCSGALNEM-----LRDPDLYAAMRRR 267
K Y E+ L+ +G +AKR+EI+ L E L Y AM +
Sbjct: 394 KLNFFNYSNPEVDELLAQGRAETDEAKRKEIYKELQQILAEDVPWVFLYWRSQYYAMNKN 453
Query: 268 VQ 269
VQ
Sbjct: 454 VQ 455
>gnl|CDD|237416 PRK13532, PRK13532, nitrate reductase catalytic subunit;
Provisional.
Length = 830
Score = 28.7 bits (65), Expect = 6.4
Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 9/54 (16%)
Query: 190 KPDVGIETRSKE-EVKNKQWELHFNRYKRGVSMY---RTAEMTNLILRGVPDAK 239
+P +E +K K + F +K+ V+ Y +TA+M+ GVP +
Sbjct: 305 RPTHPLEKAAKNPGTAGKSEPISFEEFKKFVAPYTLEKTAKMS-----GVPKEQ 353
>gnl|CDD|144583 pfam01043, SecA_PP_bind, SecA preprotein cross-linking domain. The
SecA ATPase is involved in the insertion and retraction
of preproteins through the plasma membrane. This domain
has been found to cross-link to preproteins, thought to
indicate a role in preprotein binding. The pre-protein
cross-linking domain is comprised of two sub domains
that are inserted within the ATPase domain.
Length = 113
Score = 27.1 bits (61), Expect = 6.8
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 237 DAKRREIWLTCSGA--LNEMLRDPDLYAA 263
D K R++ LT G ++L +LY
Sbjct: 28 DEKSRQVELTEEGIEKAEKLLGIENLYDP 56
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
0.320 0.134 0.393
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,923,801
Number of extensions: 2004962
Number of successful extensions: 1709
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1692
Number of HSP's successfully gapped: 25
Length of query: 414
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 315
Effective length of database: 6,546,556
Effective search space: 2062165140
Effective search space used: 2062165140
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: 60 (26.8 bits)