RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy18070
(169 letters)
>gnl|CDD|233695 TIGR02037, degP_htrA_DO, periplasmic serine protease, Do/DeqQ
family. This family consists of a set proteins various
designated DegP, heat shock protein HtrA, and protease
DO. The ortholog in Pseudomonas aeruginosa is designated
MucD and is found in an operon that controls mucoid
phenotype. This family also includes the DegQ (HhoA)
paralog in E. coli which can rescue a DegP mutant, but
not the smaller DegS paralog, which cannot. Members of
this family are located in the periplasm and have
separable functions as both protease and chaperone.
Members have a trypsin domain and two copies of a PDZ
domain. This protein protects bacteria from thermal and
other stresses and may be important for the survival of
bacterial pathogens.// The chaperone function is
dominant at low temperatures, whereas the proteolytic
activity is turned on at elevated temperatures [Protein
fate, Protein folding and stabilization, Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 428
Score = 82.6 bits (205), Expect = 4e-19
Identities = 40/119 (33%), Positives = 59/119 (49%), Gaps = 29/119 (24%)
Query: 11 GNSGGPLVNLDGEVIGINSMKVT-----AGISFAIPIDYAIEFLTNYKRKDIDRTITHKK 65
GNSGGPLVNL GEVIGIN+ ++ GI FAIP + A + +D+ I K
Sbjct: 179 GNSGGPLVNLRGEVIGINTAILSPSGGNVGIGFAIPSNMA--------KNVVDQLIEGGK 230
Query: 66 ----YIGITMLTLNEKLIEQLRRDRHIPYDLTHGVLIWRVMYNSPAYFIKFRTSAGIKP 120
++G+T+ + L + L ++ G L+ +V+ SPA AG+K
Sbjct: 231 VKRGWLGVTIQEVTSDLAKSLGLEK------QRGALVAQVLPGSPA------EKAGLKA 277
>gnl|CDD|223343 COG0265, DegQ, Trypsin-like serine proteases, typically
periplasmic, contain C-terminal PDZ domain
[Posttranslational modification, protein turnover,
chaperones].
Length = 347
Score = 67.2 bits (164), Expect = 1e-13
Identities = 37/119 (31%), Positives = 54/119 (45%), Gaps = 23/119 (19%)
Query: 7 MVKFGNSGGPLVNLDGEVIGINSMKV-----TAGISFAIPIDYAIEFLTNYKRKDIDRTI 61
+ GNSGGPLVN+DGEV+GIN+ + ++GI FAIP++ L K
Sbjct: 190 AINPGNSGGPLVNIDGEVVGINTAIIAPSGGSSGIGFAIPVNLVAPVLDELISKG----K 245
Query: 62 THKKYIGITMLTLNEKLIEQLRRDRHIPYDLTHGVLIWRVMYNSPAYFIKFRTSAGIKP 120
+ Y+G+ L + L + G ++ V+ SPA AGIK
Sbjct: 246 VVRGYLGVIGEPLTADIALGL--------PVAAGAVVLGVLPGSPAA------KAGIKA 290
>gnl|CDD|233696 TIGR02038, protease_degS, periplasmic serine pepetdase DegS. This
family consists of the periplasmic serine protease DegS
(HhoB), a shorter paralog of protease DO (HtrA, DegP)
and DegQ (HhoA). It is found in E. coli and several
other Proteobacteria of the gamma subdivision. It
contains a trypsin domain and a single copy of PDZ
domain (in contrast to DegP with two copies). A critical
role of this DegS is to sense stress in the periplasm
and partially degrade an inhibitor of sigma(E) [Protein
fate, Degradation of proteins, peptides, and
glycopeptides, Regulatory functions, Protein
interactions].
Length = 351
Score = 52.5 bits (126), Expect = 1e-08
Identities = 34/104 (32%), Positives = 51/104 (49%), Gaps = 17/104 (16%)
Query: 11 GNSGGPLVNLDGEVIGINSMKV-------TAGISFAIPIDYAIEFLTNYKRKDIDRTITH 63
GNSGG L+N +GE++GIN+ GI+FAIPI A + + R R I
Sbjct: 198 GNSGGALINTNGELVGINTASFQKGGDEGGEGINFAIPIKLAHKIMGKIIRD--GRVI-- 253
Query: 64 KKYIGITMLTLNEKLIEQLRRDRHIPYDLTHGVLIWRVMYNSPA 107
+ YIG++ +N ++ Q + G++I V N PA
Sbjct: 254 RGYIGVSGEDIN-SVVAQGLGLPDL-----RGIVITGVDPNGPA 291
>gnl|CDD|236802 PRK10942, PRK10942, serine endoprotease; Provisional.
Length = 473
Score = 49.4 bits (118), Expect = 2e-07
Identities = 39/118 (33%), Positives = 55/118 (46%), Gaps = 29/118 (24%)
Query: 11 GNSGGPLVNLDGEVIGINSMKVTA---------GISFAIPIDYAIEFLTNYKRKDIDRTI 61
GNSGG LVNL+GE+IGIN TA GI FAIP + + N + ++
Sbjct: 233 GNSGGALVNLNGELIGIN----TAILAPDGGNIGIGFAIPSN----MVKNLTSQMVEYGQ 284
Query: 62 THKKYIGITMLTLNEKLIEQLRRDRHIPYDLTHGVLIWRVMYNSPAYFIKFRTSAGIK 119
+ +GI LN +L + ++ D G + +V+ NS A AGIK
Sbjct: 285 VKRGELGIMGTELNSELAKAMK------VDAQRGAFVSQVLPNSSA------AKAGIK 330
>gnl|CDD|182820 PRK10898, PRK10898, serine endoprotease; Provisional.
Length = 353
Score = 48.1 bits (115), Expect = 4e-07
Identities = 37/117 (31%), Positives = 51/117 (43%), Gaps = 24/117 (20%)
Query: 11 GNSGGPLVNLDGEVIGINSM--------KVTAGISFAIPIDYAIEFLTNYKRKDIDRTIT 62
GNSGG LVN GE++GIN++ + GI FAIP A + + R R I
Sbjct: 198 GNSGGALVNSLGELMGINTLSFDKSNDGETPEGIGFAIPTQLATKIMDKLIRD--GRVI- 254
Query: 63 HKKYIGITMLTLNEKLIEQLRRDRHIPYDLTHGVLIWRVMYNSPAYFIKFRTSAGIK 119
+ YIGI + I L D G+++ V + PA AGI+
Sbjct: 255 -RGYIGIG-----GREIAPLHAQG-GGIDQLQGIVVNEVSPDGPAA------KAGIQ 298
>gnl|CDD|215708 pfam00089, Trypsin, Trypsin.
Length = 218
Score = 45.5 bits (108), Expect = 2e-06
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 10 FGNSGGPLVNLDGEVIGINSMK----VTAGISFAIPIDYAIEFL 49
G+SGGPLV DGE+IGI S P+ ++++
Sbjct: 175 QGDSGGPLVCSDGELIGIVSWGYGCASGNYPGVYTPVSSYLDWI 218
>gnl|CDD|182262 PRK10139, PRK10139, serine endoprotease; Provisional.
Length = 455
Score = 44.6 bits (105), Expect = 7e-06
Identities = 21/40 (52%), Positives = 28/40 (70%), Gaps = 5/40 (12%)
Query: 11 GNSGGPLVNLDGEVIGINSMKV-----TAGISFAIPIDYA 45
GNSGG L+NL+GE+IGIN+ + + GI FAIP + A
Sbjct: 212 GNSGGALLNLNGELIGINTAILAPGGGSVGIGFAIPSNMA 251
>gnl|CDD|222077 pfam13365, Trypsin_2, Trypsin-like peptidase domain. This family
includes trypsin like peptidase domains.
Length = 138
Score = 38.3 bits (89), Expect = 4e-04
Identities = 11/17 (64%), Positives = 15/17 (88%)
Query: 11 GNSGGPLVNLDGEVIGI 27
G+SGGP+ + DGEV+GI
Sbjct: 122 GSSGGPVFDADGEVVGI 138
>gnl|CDD|238487 cd00987, PDZ_serine_protease, PDZ domain of tryspin-like serine
proteases, such as DegP/HtrA, which are oligomeric
proteins involved in heat-shock response, chaperone
function, and apoptosis. May be responsible for
substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, though binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins.
Length = 90
Score = 35.7 bits (83), Expect = 0.002
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 12/55 (21%)
Query: 66 YIGITMLTLNEKLIEQLRRDRHIPYDLTHGVLIWRVMYNSPAYFIKFRTSAGIKP 120
++G+T+ L L E+L T GVL+ V SPA AG+KP
Sbjct: 2 WLGVTVQDLTPDLAEEL------GLKDTKGVLVASVDPGSPAA------KAGLKP 44
>gnl|CDD|220767 pfam10459, Peptidase_S46, Peptidase S46. Dipeptidyl-peptidase 7
(DPP-7) is the best characterized member of this family.
It is a serine peptidase that is located on the cell
surface and is predicted to have two N-terminal
transmembrane domains.
Length = 696
Score = 36.8 bits (86), Expect = 0.003
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 11 GNSGGPLVNLDGEVIGIN 28
GNSG P++N GE++G+
Sbjct: 631 GNSGSPVLNGKGELVGLA 648
>gnl|CDD|240000 cd04629, CBS_pair_16, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa
(IMP dehydrogenase-1), and homocystinuria
(cystathionine beta-synthase).
Length = 114
Score = 30.2 bits (69), Expect = 0.20
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 3/32 (9%)
Query: 1 MSLT---GIMVKFGNSGGPLVNLDGEVIGINS 29
MS+T ++K SGGP+V+ +G ++G S
Sbjct: 10 MSVTEAVEKLLKSKISGGPVVDDNGNLVGFLS 41
>gnl|CDD|227501 COG5174, TFA2, Transcription initiation factor IIE, beta subunit
[Transcription].
Length = 285
Score = 30.7 bits (69), Expect = 0.29
Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 7/78 (8%)
Query: 42 IDYAIEFLTNYKRKDIDRTITHKKYIGITMLTLNEKLIEQLRRDRHIPYDLTHGVLIWRV 101
+ AIE+L K DR ++ ++ + L+ + L++ R I D TH +++
Sbjct: 85 LHAAIEYL-----KQHDRPLSFEEIKDYLSIDLHNNYVLLLKKKRRIRIDATHSTFMFKP 139
Query: 102 MYN--SPAYFIKFRTSAG 117
+Y+ S +K S G
Sbjct: 140 LYSIRSVEDLLKVLRSQG 157
>gnl|CDD|182701 PRK10754, PRK10754, quinone oxidoreductase, NADPH-dependent;
Provisional.
Length = 327
Score = 28.9 bits (65), Expect = 1.1
Identities = 11/18 (61%), Positives = 14/18 (77%), Gaps = 2/18 (11%)
Query: 5 GIMVKFGNSGGPL--VNL 20
G+MV FGN+ GP+ VNL
Sbjct: 233 GLMVSFGNASGPVTGVNL 250
>gnl|CDD|161862 TIGR00407, proA, gamma-glutamyl phosphate reductase. The related
model TIGR01092 describes a full-length fusion protein
delta l-pyrroline-5-carboxylate synthetase that includes
a gamma-glutamyl phosphate reductase region as described
by this model. Alternate name: glutamate-5-semialdehyde
dehydrogenase. The prosite motif begins at residue 332
of the seed alignment although not all of the members of
the family exactly obey the motif [Amino acid
biosynthesis, Glutamate family].
Length = 398
Score = 28.2 bits (63), Expect = 2.5
Identities = 19/100 (19%), Positives = 40/100 (40%), Gaps = 12/100 (12%)
Query: 3 LTGIMVKFGNSGGPLVNLDGEVIGINSMKVTAGI------SFAIPIDYAIEFLTNYKRKD 56
+ + +K GN+ V L G + S K + +P+ A++ + R+
Sbjct: 121 IASLCLKTGNA----VILRGGKEAVRSNKALVEVIQDALAQTGLPV-GAVQLIETPSREL 175
Query: 57 IDRTITHKKYIGITMLTLNEKLIEQLRRDRHIPYDLTHGV 96
+ + +YI + + L+ +++ IP L HG
Sbjct: 176 VSELLDLDEYIDLLIPRGGNGLVRLIKQTSTIPV-LGHGD 214
>gnl|CDD|225472 COG2920, DsrC, Dissimilatory sulfite reductase (desulfoviridin),
gamma subunit [Inorganic ion transport and metabolism].
Length = 111
Score = 27.0 bits (60), Expect = 2.7
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 75 NEKLIEQLRRDRHIPYDLTHGVLIWRVMYNSPAYFIKFRTSAGIKP 120
+EK+ E L I H W V+ ++ +F TS I+
Sbjct: 26 SEKVAEALAEREGIELTEEH----WEVVRFVREFYEEFNTSPAIRM 67
>gnl|CDD|176071 cd08689, C2_fungal_Pkc1p, C2 domain found in protein kinase C
(Pkc1p) in Saccharomyces cerevisiae. This family is
named after the protein kinase C in Saccharomyces
cerevisiae, Pkc1p. Protein kinase C is a member of a
family of Ser/Thr phosphotransferases that are involved
in many cellular signaling pathways. PKC has two
antiparallel coiled-coiled regions (ACC finger domain)
(AKA PKC homology region 1 (HR1)/ Rho binding domain)
upstream of the C2 domain and two C1 domains
downstream. The C2 domain was first identified in PKC.
C2 domains fold into an 8-standed beta-sandwich that
can adopt 2 structural arrangements: Type I and Type
II, distinguished by a circular permutation involving
their N- and C-terminal beta strands. Many C2 domains,
like those of PKC, are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1.
However, there are a few exceptions to this including
RIM isoforms and some splice variants of
piccolo/aczonin and intersectin which only have a
single C2 domain. C2 domains with a calcium binding
region have negatively charged residues, primarily
aspartates, that serve as ligands for calcium ions.
Length = 109
Score = 26.6 bits (59), Expect = 3.3
Identities = 11/48 (22%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 37 SFAIPIDYAIEFLTNYKRKDIDRTITHKKYIGITMLTLNEKLIEQLRR 84
F IP++ E K D+ + +G+ L L++ + E++R+
Sbjct: 50 DFEIPVEKNNEEEVIVYDKGGDQPVP----VGLLWLRLSD-IAEEIRK 92
>gnl|CDD|235507 PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase;
Reviewed.
Length = 486
Score = 27.5 bits (62), Expect = 3.4
Identities = 9/22 (40%), Positives = 18/22 (81%)
Query: 6 IMVKFGNSGGPLVNLDGEVIGI 27
+M ++G SG P+V+ +G+++GI
Sbjct: 112 LMARYGISGVPVVDENGKLVGI 133
>gnl|CDD|241318 cd13164, PTB_DOK4_DOK5_DOK6, Downstream of tyrosine kinase 4, 5,
and 6 proteins phosphotyrosine-binding domain (PTBi).
The Dok family adapters are phosphorylated by different
protein tyrosine kinases. Dok proteins are involved in
processes such as modulation of cell differentiation and
proliferation, as well as in control of the cell
spreading and migration The Dok protein contains an
N-terminal pleckstrin homology (PH) domain followed by a
central phosphotyrosine binding (PTB) domain, which has
a PH-like fold, and a proline- and tyrosine-rich
C-terminal tail. The PH domain binds to acidic
phospholids and localizes proteins to the plasma
membrane, while the PTB domain mediates protein-protein
interactions by binding to phosphotyrosine-containing
motifs. The C-terminal part of Dok contains multiple
tyrosine phosphorylation sites that serve as potential
docking sites for Src homology 2-containing proteins
such as ras GTPase-activating protein and Nck, leading
to inhibition of ras signaling pathway activation and
the c-Jun N-terminal kinase (JNK) and c-Jun activation,
respectively. There are 7 mammalian Dok members: Dok-1
to Dok-7. Dok-1 and Dok-2 act as negative regulators of
the Ras-Erk pathway downstream of many
immunoreceptor-mediated signaling systems, and it is
believed that recruitment of p120 rasGAP by Dok-1 and
Dok-2 is critical to their negative regulation. Dok-3 is
a negative regulator of the activation of JNK and
mobilization of Ca2+ in B-cell receptor-mediated
signaling, interacting with SHIP-1 and Grb2. Dok-4- 6
play roles in protein tyrosine kinase(PTK)-mediated
signaling in neural cells and Dok-7 is the key
cytoplasmic activator of MuSK (Muscle-Specific Protein
Tyrosine Kinase). PTB domains have a common PH-like fold
and are found in various eukaryotic signaling molecules.
This domain was initially shown to binds peptides with a
NPXY motif with differing requirements for
phosphorylation of the tyrosine, although more recent
studies have found that some types of PTB domains can
bind to peptides lack tyrosine residues altogether. In
contrast to SH2 domains, which recognize phosphotyrosine
and adjacent carboxy-terminal residues, PTB-domain
binding specificity is conferred by residues
amino-terminal to the phosphotyrosine. PTB domains are
classified into three groups: phosphotyrosine-dependent
Shc-like, phosphotyrosine-dependent IRS-like, and
phosphotyrosine-independent Dab-like PTB domains. This
cd is part of the IRS-like subgroup.
Length = 103
Score = 26.6 bits (59), Expect = 3.6
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 127 GECLAQYTTSKLVVWSINHP 146
GECL Q T + +W I++P
Sbjct: 21 GECLLQITHENIYLWDIHNP 40
>gnl|CDD|226403 COG3886, COG3886, Predicted HKD family nuclease [DNA replication,
recombination, and repair].
Length = 198
Score = 26.6 bits (59), Expect = 5.3
Identities = 8/43 (18%), Positives = 15/43 (34%), Gaps = 2/43 (4%)
Query: 43 DYAIEFLTNYKRKDIDRTITHKKYIGITMLTL--NEKLIEQLR 83
N ID + K +++ NEK++ +L
Sbjct: 3 SVQSLLNMNLPFGFIDSDLRSKLNYHPKLISNGYNEKILPRLI 45
>gnl|CDD|145577 pfam02513, Spin-Ssty, Spin/Ssty Family. Spindlin (Spin) is a novel
maternal transcript present in the unfertilised egg and
early embryo. The Y-linked spermiogenesis -specific
transcript (Ssty) is also expressed during gametogenesis
and forms part of this Pfam family. Members of this
family contain three copies of this 50 residue repeat.
The repeat is predicted to contain four beta strands.
Length = 49
Score = 24.9 bits (55), Expect = 5.9
Identities = 9/36 (25%), Positives = 16/36 (44%)
Query: 77 KLIEQLRRDRHIPYDLTHGVLIWRVMYNSPAYFIKF 112
K +E D G+++ +V N Y+IK+
Sbjct: 3 KRVEHTFEDGDGSKSKWKGMVLAQVPVNPSLYYIKY 38
>gnl|CDD|227357 COG5024, COG5024, Cyclin [Cell division and chromosome
partitioning].
Length = 440
Score = 26.7 bits (59), Expect = 6.4
Identities = 14/73 (19%), Positives = 26/73 (35%), Gaps = 7/73 (9%)
Query: 64 KKYIGITMLTLNEKLIEQLRRDRHIPYDLTHGVLIWRVMYNSPAYFIKFRTSAGIKPTSS 123
K + T I + R Y L VL + + + SP F++ + A S
Sbjct: 278 KDLVYATDGAFTRDDIIRAER-----YMLE--VLDFNISWPSPMSFLRRISKASDYDIFS 330
Query: 124 RLLGECLAQYTTS 136
R + ++ +
Sbjct: 331 RTPAKFSSEISPV 343
>gnl|CDD|178038 PLN02417, PLN02417, dihydrodipicolinate synthase.
Length = 280
Score = 26.5 bits (59), Expect = 6.5
Identities = 18/65 (27%), Positives = 24/65 (36%), Gaps = 21/65 (32%)
Query: 101 VMYNSPAYFIKFRTSAGIKPTS-------SRLLG--EC-----LAQYTTSKLVVWSINHP 146
++YN P RT I P G EC + QYT +++WS N
Sbjct: 129 IIYNVPG-----RTGQDIPPEVIFKIAQHPNFAGVKECTGNDRVKQYTEKGILLWSGNDD 183
Query: 147 SITCH 151
CH
Sbjct: 184 --ECH 186
>gnl|CDD|109901 pfam00863, Peptidase_C4, Peptidase family C4. This peptidase is
present in the nuclear inclusion protein of potyviruses.
Length = 233
Score = 26.4 bits (59), Expect = 6.5
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 6 IMVKFGNSGGPLVNL-DGEVIGINSMK 31
I K G G PLV+ DG+++GI+S+
Sbjct: 144 ISTKDGMCGLPLVSTKDGKIVGIHSLA 170
>gnl|CDD|220663 pfam10266, Strumpellin, Hereditary spastic paraplegia protein
strumpellin. This is a family of proteins conserved
from plants to humans, in which two closely situated
point mutations in the human protein lead to the
condition of hereditary spastic paraplegia. Strumpellin
contains one known domain called a spectrin repeat that
consists of three alpha-helices of a characteristic
length wrapped in a left-handed coiled coil. The
spectrin proteins have multiple copies of this repeat,
which can then form multimers in the cell. Spectrin
associates with the cell membrane via spectrin repeats
in the ankyrin protein. The spectrin repeat is a
structural platform for cytoskeletal protein assemblies.
Length = 1077
Score = 26.9 bits (60), Expect = 7.4
Identities = 13/55 (23%), Positives = 20/55 (36%), Gaps = 6/55 (10%)
Query: 120 PTSSRLLGECLAQYT--TSKLVV----WSINHPSITCHILLRLYLLVCSELTKFL 168
P ++ L Y T K V+ +S ++ L L L+ L K L
Sbjct: 808 PKTTVYLDSYGGWYDRKTHKEVLGIRTFSRICEAVGPAGLTGLDRLLSFMLAKEL 862
>gnl|CDD|234520 TIGR04246, nitrous_NosZ_Gp, nitrous-oxide reductase, Sec-dependent.
This model represents the nitrous-oxide reductase
protein NosZ as characterized in Geobacillus
thermodenitrificans. In contrast to the related form in
Pseudomonas stutzeri, this version lacks a recognizable
twin-arginine translocation (TAT) signal at the
N-terminus. Consequently, its accessory protein may
differ. Some members of this family have an additional
cytochrome c-like domain at the C-terminus.
Length = 578
Score = 26.6 bits (59), Expect = 7.4
Identities = 18/68 (26%), Positives = 27/68 (39%), Gaps = 18/68 (26%)
Query: 11 GNSGGPLVNLDGEVIGINSMKVTAGISFAIPIDYAIEFLTNYKRKDIDRTITHKKYIG-I 69
GN G P V N+ V A F++P+ A + YK +KY G +
Sbjct: 121 GNHGSPFVTP-------NTEYVVAATRFSVPLPQAYVPIEEYK----------EKYRGVL 163
Query: 70 TMLTLNEK 77
T + + K
Sbjct: 164 TFVKFDPK 171
>gnl|CDD|236533 PRK09474, malE, maltose ABC transporter periplasmic protein;
Reviewed.
Length = 396
Score = 26.5 bits (59), Expect = 7.7
Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 32 VTAGISFAIP-IDYAIEFLTNY 52
++AGI+ A P + A EFL NY
Sbjct: 288 LSAGINAASPNKELAKEFLENY 309
>gnl|CDD|224957 COG2046, MET3, ATP sulfurylase (sulfate adenylyltransferase)
[Inorganic ion transport and metabolism].
Length = 397
Score = 26.5 bits (59), Expect = 7.8
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 27 INSMKVTAGISFAIPIDYAIEFLTNYKRKDIDRTITHKKYIGITMLTLNEK 77
+ SM++ G + IPI + + DR + K I +LT+ E
Sbjct: 65 VESMRLANGTLWPIPITLDVSEEEAEELSVGDRILLTYKGDPIAVLTVEEV 115
>gnl|CDD|236458 PRK09293, PRK09293, fructose-1,6-bisphosphatase; Provisional.
Length = 327
Score = 26.4 bits (59), Expect = 8.5
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 70 TMLTLNEKLIEQLRRDRHIPYDLTH 94
+M TL E L+EQ R H +LT
Sbjct: 1 SMKTLGEFLVEQQREFPHATGELTA 25
>gnl|CDD|239974 cd04601, CBS_pair_IMPDH, This cd contains two tandem repeats of
the cystathionine beta-synthase (CBS pair) domains in
the inosine 5' monophosphate dehydrogenase (IMPDH)
protein. IMPDH is an essential enzyme that catalyzes
the first step unique to GTP synthesis, playing a key
role in the regulation of cell proliferation and
differentiation. CBS is a small domain originally
identified in cystathionine beta-synthase and
subsequently found in a wide range of different
proteins. CBS domains usually come in tandem repeats,
which associate to form a so-called Bateman domain or a
CBS pair which is reflected in this model. The
interface between the two CBS domains forms a cleft
that is a potential ligand binding site. The CBS pair
coexists with a variety of other functional domains. It
has been proposed that the CBS domain may play a
regulatory role, although its exact function is
unknown. Mutations of conserved residues within this
domain in IMPDH have been associated with retinitis
pigmentosa.
Length = 110
Score = 25.5 bits (57), Expect = 9.2
Identities = 10/22 (45%), Positives = 18/22 (81%)
Query: 6 IMVKFGNSGGPLVNLDGEVIGI 27
+M ++G SG P+V+ DG+++GI
Sbjct: 19 LMAEYGISGLPVVDDDGKLVGI 40
>gnl|CDD|216210 pfam00949, Peptidase_S7, Peptidase S7, Flavivirus NS3 serine
protease. The viral genome is a positive strand RNA
that encodes a single polyprotein precursor. Processing
of the polyprotein precursor into mature proteins is
carried out by the host signal peptidase and by NS3
serine protease, which requires NS2B (pfam01002) as a
cofactor.
Length = 144
Score = 25.7 bits (57), Expect = 10.0
Identities = 7/17 (41%), Positives = 14/17 (82%)
Query: 11 GNSGGPLVNLDGEVIGI 27
G+SG P+ N +G+++G+
Sbjct: 109 GSSGSPIFNQNGQIVGL 125
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
0.325 0.140 0.420
Gapped
Lambda K H
0.267 0.0828 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,689,804
Number of extensions: 806661
Number of successful extensions: 876
Number of sequences better than 10.0: 1
Number of HSP's gapped: 869
Number of HSP's successfully gapped: 52
Length of query: 169
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 79
Effective length of database: 6,945,742
Effective search space: 548713618
Effective search space used: 548713618
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 (21.6 bits)
S2: 55 (24.8 bits)