RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17001
(295 letters)
>gnl|CDD|219075 pfam06534, RGM_C, Repulsive guidance molecule (RGM) C-terminus.
This family consists of several mammalian and one bird
sequence from Gallus gallus (Chicken). This family
represents the C-terminal region of several sequences
but in others it represents the full protein. All of the
mammalian proteins are hypothetical and have no known
function but RGMA from the chicken is annotated as being
a repulsive guidance molecule (RGM). RGM is a GPI-linked
axon guidance molecule of the retinotectal system. RGM
is repulsive for a subset of axons, those from the
temporal half of the retina. Temporal retinal axons
invade the anterior optic tectum in a superficial layer,
and encounter RGM expressed in a gradient with
increasing concentration along the anterior-posterior
axis. Temporal axons are able to receive
posterior-dependent information by sensing gradients or
concentrations of guidance cues. Thus, RGM is likely to
provide positional information for temporal axons
invading the optic tectum in the stratum opticum.
Length = 213
Score = 108 bits (272), Expect = 1e-28
Identities = 63/196 (32%), Positives = 95/196 (48%), Gaps = 33/196 (16%)
Query: 97 CTNEKTYEAQADSPLPLSFINSGVNSHSKNADNVVLKVESDPSGHHERAEIFIKYIETTI 156
CT++K Y+A+ D LP +F++ N ++ N + VE P H EI +YI TTI
Sbjct: 3 CTDQKVYQAETDD-LPAAFVDGSKNGGDRHGANSLRIVEKVPGRH---VEIHARYIGTTI 58
Query: 157 VVRRVGKYLAVSAKLPEELVEPSIQDPNTLQLCTLGCPPSERLDI--------------- 201
+VR+VG+YL + ++PEE+ + ++ LQLC GCP S+R+D
Sbjct: 59 IVRQVGRYLTFAVRMPEEVAN-AYEESQDLQLCLHGCPTSQRIDFGHFHLRAALTGGSRR 117
Query: 202 ----VTSRGHMTDRDHALAKCKDTEELSNDIINNLTDYYLDWCVFDTMTAGISYDFTAAA 257
V + + + A KCK+ + D Y CVFD +T G +FTAAA
Sbjct: 118 HGPSVPAPPGIFTLETATTKCKEKLPVE--------DLYFQSCVFDLLTTG-DVNFTAAA 168
Query: 258 HSAQADVLRFDPSSLN 273
+ A DV P+
Sbjct: 169 YYALEDVKALHPNKER 184
>gnl|CDD|219076 pfam06535, RGM_N, Repulsive guidance molecule (RGM) N-terminus.
This family consists of the N-terminal region of several
mammalian and one bird sequence from Gallus gallus
(Chicken). All of the mammalian proteins are
hypothetical and have no known function but RGMA from
the chicken is annotated as being a repulsive guidance
molecule (RGM). RGM is a GPI-linked axon guidance
molecule of the retinotectal system. RGM is repulsive
for a subset of axons, those from the temporal half of
the retina. Temporal retinal axons invade the anterior
optic tectum in a superficial layer, and encounter RGM
expressed in a gradient with increasing concentration
along the anterior-posterior axis. Temporal axons are
able to receive posterior-dependent information by
sensing gradients or concentrations of guidance cues.
Thus, RGM is likely to provide positional information
for temporal axons invading the optic tectum in the
stratum opticum.
Length = 207
Score = 106 bits (267), Expect = 6e-28
Identities = 45/87 (51%), Positives = 56/87 (64%), Gaps = 9/87 (10%)
Query: 13 PPTLPPASC----SFHG----TRRFKHCGLFGDPHLKTFNNDYQTCRVRGAWPLIDNPYL 64
+ P C SF + HCGLFGDPHL+TFN+ +QTC+V+GAWPLIDN YL
Sbjct: 120 EASDSPEPCHYEKSFGRGHGRPPNYLHCGLFGDPHLRTFNDHFQTCKVQGAWPLIDNNYL 179
Query: 65 GVQVTNELIREGSPATVTTKKVTVIIK 91
VQVTN + GS AT T+ K+T+I K
Sbjct: 180 SVQVTNTPVVPGSSATATS-KLTIIFK 205
>gnl|CDD|215713 pfam00094, VWD, von Willebrand factor type D domain.
Luciferin-2-monooxygenase from Vargula hilgendorfii
contains a vwd domain. Its function is unrelated but
the similarity is very strong by several methods.
Length = 159
Score = 36.7 bits (85), Expect = 0.004
Identities = 18/67 (26%), Positives = 28/67 (41%), Gaps = 6/67 (8%)
Query: 32 CGLFGDPHLKTFNNDYQTCRVRGAWPLI------DNPYLGVQVTNELIREGSPATVTTKK 85
C + GDPH TF+ T ++ L+ P V N+ + +G+ K
Sbjct: 1 CSVSGDPHYTTFDGVSYTFPGNCSYVLVLAQDCSSEPSFKFSVLNKNVNDGAEGVTCLKS 60
Query: 86 VTVIIKG 92
VTVI+
Sbjct: 61 VTVILGN 67
>gnl|CDD|153082 cd00644, HMG-CoA_reductase_classII, Class II
hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase
(HMGR). Hydroxymethylglutaryl-coenzyme A (HMG-CoA)
reductase (HMGR), class II, prokaryotic enzyme is a
homodimer. Class II enzymes are found primarily in
prokaryotes and Archaeoglobus fulgidus and are soluble
as they lack the membrane region. Enzymes catalyze the
synthesis of coenzyme A and mevalonate in isoprenoid
synthesis. Bacteria, such as Pseudomonas mevalonii,
which rely solely on mevalonate for their carbon source,
catalyze the reverse reaction, using an NAD-dependent
HMGR to deacetylate mevalonate into
3-hydroxy-3-methylglutaryl-CoA. Human and bacterial HMGR
differ in their active site architecture.
Length = 417
Score = 31.7 bits (73), Expect = 0.41
Identities = 13/47 (27%), Positives = 22/47 (46%), Gaps = 3/47 (6%)
Query: 194 PPSERLDIVTSRGHMTDRDHALAKCKD--TEELSNDIINN-LTDYYL 237
P ERL I+ +++ D L K EL++ +I N + + L
Sbjct: 7 SPEERLQILAEFAGLSEEDVQLLKSGGALPLELADQMIENVIGTFSL 53
>gnl|CDD|214566 smart00216, VWD, von Willebrand factor (vWF) type D domain. Von
Willebrand factor contains several type D domains: D1
and D2 are present within the N-terminal propeptide
whereas the remaining D domains are required for
multimerisation.
Length = 163
Score = 30.1 bits (68), Expect = 0.74
Identities = 19/65 (29%), Positives = 24/65 (36%), Gaps = 7/65 (10%)
Query: 32 CGLFGDPHLKTFNN---DYQ-TCRVRGAWPLIDNPYLGVQVTNELIREGSPATVTTKKVT 87
C + GDPH TF+ + C A P V + N G AT K V
Sbjct: 12 CSVSGDPHYTTFDGVAYTFPGNCYYVLAQDCSSEPTFSVLLKNV--PCGGGATC-LKSVK 68
Query: 88 VIIKG 92
V + G
Sbjct: 69 VELNG 73
>gnl|CDD|239294 cd02996, PDI_a_ERp44, PDIa family, endoplasmic reticulum protein 44
(ERp44) subfamily; ERp44 is an ER-resident protein,
induced during stress, involved in thiol-mediated ER
retention. It contains an N-terminal TRX domain, similar
to that of PDIa, with a CXFS motif followed by two redox
inactive TRX-like domains, homologous to the b and b'
domains of PDI. The CXFS motif in the N-terminal domain
allows ERp44 to form stable reversible mixed disulfides
with its substrates. Through this activity, ERp44
mediates the ER localization of Ero1alpha, a protein
that oxidizes protein disulfide isomerases into their
active form. ERp44 also prevents the secretion of
unassembled cargo protein with unpaired cysteines. It
also modulates the activity of inositol
1,4,5-triphosphate type I receptor (IP3R1), an
intracellular channel protein that mediates calcium
release from the ER to the cytosol.
Length = 108
Score = 28.5 bits (64), Expect = 1.7
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 7/35 (20%)
Query: 227 DIINN----LTDYYLDWCVFDTMTAGISYDFTAAA 257
DI+ + L ++Y DWC F M I F AA
Sbjct: 13 DILQSAELVLVNFYADWCRFSQMLHPI---FEEAA 44
>gnl|CDD|218763 pfam05817, Ribophorin_II, Oligosaccharyltransferase subunit
Ribophorin II. This family contains eukaryotic
Ribophorin II (RPN2) proteins. The mammalian
oligosaccharyltransferase (OST) is a protein complex
that effects the cotranslational N-glycosylation of
newly synthesised polypeptides, and is composed of the
following proteins: ribophorins I and II (RI and RII),
OST48, and Dadl, N33/IAP, OST4, STT3. The family also
includes the SWP1 protein from yeast. In yeast the
oligosaccharyltransferase complex is composed 7 or 8
subunits, SWP1, being one of them.
Length = 636
Score = 29.7 bits (67), Expect = 2.2
Identities = 22/93 (23%), Positives = 37/93 (39%), Gaps = 3/93 (3%)
Query: 58 LIDNPYLGVQVTNELIREGSPATVTTKKVTVIIKGRSTPCTNEKTYEAQADSPLPLSFIN 117
L + P L V+VTN L G P + + K+ +K +ST D + +N
Sbjct: 287 LHEQPVLKVKVTNVL---GKPLSPASVKLVQAVKSKSTKAAVLSKVNLTFDLDGDVFELN 343
Query: 118 SGVNSHSKNADNVVLKVESDPSGHHERAEIFIK 150
+ V++VE D + E+ +K
Sbjct: 344 FMSAKPASGYYTFVVEVEGDHRYIYNTVELKVK 376
>gnl|CDD|226725 COG4275, COG4275, Uncharacterized conserved protein [Function
unknown].
Length = 143
Score = 28.6 bits (64), Expect = 2.6
Identities = 19/62 (30%), Positives = 23/62 (37%), Gaps = 4/62 (6%)
Query: 212 DHALAKCKDTEELSNDIINNLTDYYLDWCVFDTMTAGISYDFTAAAHSAQ----ADVLRF 267
LA K+ + DI + + C FDTM A D A A A AD R
Sbjct: 36 AEVLAVGKEFGAVPFDIDGVELTHVGERCSFDTMLAKFGLDGPALARLAAIVRAADTARL 95
Query: 268 DP 269
D
Sbjct: 96 DL 97
>gnl|CDD|220592 pfam10134, RPA, Replication initiator protein A. Members of this
family of bacterial proteins are single-stranded DNA
binding proteins that are involved in DNA replication,
repair and recombination.
Length = 228
Score = 29.1 bits (66), Expect = 2.6
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 139 SGHHERAEIFIKYIET-TIVVRRVGKYLAVSAKLPEELVEPSIQDPNTLQL 188
+G R F I+ +V R G+ L V L + L ++ + L +
Sbjct: 113 TGGKRRTRGF-GLIDEWEVVTRTTGRMLGVEITLSDWLYR-AVLNALVLTI 161
>gnl|CDD|219399 pfam07396, Porin_O_P, Phosphate-selective porin O and P. This
family represents a conserved region approximately 400
residues long within the bacterial phosphate-selective
porins O and P. These are anion-specific porins, the
binding site of which has a higher affinity for
phosphate than chloride ions. Porin O has a higher
affinity for polyphosphates, while porin P has a higher
affinity for orthophosphate. In P. aeruginosa, porin O
was found to be expressed only under
phosphate-starvation conditions during the stationary
growth phase.
Length = 352
Score = 28.5 bits (64), Expect = 4.0
Identities = 11/42 (26%), Positives = 14/42 (33%)
Query: 39 HLKTFNNDYQTCRVRGAWPLIDNPYLGVQVTNELIREGSPAT 80
N D V ++ L + L QV N R GS
Sbjct: 107 FADYVNADNFQRGVGVSYKLNPDQELQAQVYNSDSRNGSFGK 148
>gnl|CDD|221619 pfam12520, DUF3723, Protein of unknown function (DUF3723). This
family of proteins is found in eukaryotes. Proteins in
this family are typically between 374 and 1069 amino
acids in length. There is a conserved LGF sequence
motif.
Length = 506
Score = 27.7 bits (62), Expect = 7.8
Identities = 8/39 (20%), Positives = 11/39 (28%), Gaps = 3/39 (7%)
Query: 8 STPEPPPTLPPASCSFHGTRRFKHCGLFGDPHLKTFNND 46
S P P + R + CG P + D
Sbjct: 436 SRPREERPSPELLTDSEVSLRERRCGR---PSRSAYRQD 471
>gnl|CDD|189000 cd08662, M13, Peptidase family M13 includes neprilysin,
endothelin-converting enzyme I. M13 family of
metallopeptidases includes neprilysin (neutral
endopeptidase, NEP, enkephalinase, CD10, CALLA, EC
3.4.24.11), endothelin-converting enzyme I (ECE-1, EC
3.4.24.71), erythrocyte surface antigen KELL (ECE-3),
phosphate-regulating gene on the X chromosome (PHEX),
soluble secreted endopeptidase (SEP), and damage-induced
neuronal endopeptidase (DINE)/X-converting enzyme (XCE).
These proteins consist of a short N-terminal cytoplasmic
domain, a single transmembrane helix, and a larger
C-terminal extracellular domain containing the active
site. Proteins in this family fulfill a broad range of
physiological roles due to the greater variation in the
S2' subsite allowing substrate specificity. NEP is
expressed in a variety of tissues including kidney and
brain, and is involved in many physiological and
pathological processes, including blood pressure and
inflammatory response. It degrades a wide array of
substrates such as substance P, enkephalins,
cholecystokinin, neurotensin and somatostatin. It is an
important enzyme in the regulation of amyloid-beta
(Abeta) protein that forms amyloid plaques that are
associated with Alzeimers disease (AD). ECE-1 catalyzes
the final rate-limiting step in the biosynthesis of
endothelins via post-translational conversion of the
biologically inactive big endothelins. Like NEP, it also
hydrolyses bradykinin, substance P, neurotensin and
Abeta. Endothelin-1 overproduction has been implicated
in various diseases, including stroke, asthma,
hypertension, and cardiac and renal failure. Kell is a
homolog of NEP and constitutes a major antigen on human
erythrocytes; it preferentially cleaves big endothelin-3
to produce bioactive endothelin-3, but is also known to
cleave substance P and neurokinin A. PHEX forms a
complex interaction with fibroblast growth factor 23
(FGF23) and matrix extracellular phosphoglycoprotein,
causing bone mineralization. A loss-of-function mutation
in PHEX disrupts this interaction leading to
hypophosphatemic rickets; X-linked hypophosphatemic
(XLH) rickets is the most common form of metabolic
rickets. ECEL1 is a brain metalloprotease involved in
the critical role in the nervous regulation of the
respiratory system, while DINE (damage induced neuronal
endopeptidase) is abundantly expressed in the
hypothalamus and its expression responds to nerve injury
as well. Thus, majority of these M13 proteases are prime
therapeutic targets for selective inhibition.
Length = 611
Score = 27.7 bits (62), Expect = 8.6
Identities = 16/86 (18%), Positives = 28/86 (32%), Gaps = 5/86 (5%)
Query: 97 CTNEKTYEAQADSPLPLSFINSGVNSHSKNADNVVLKVESD----PSGHHERAEIFIKYI 152
C + + EA PL GV+ KN+ +L ++ P + E K
Sbjct: 70 CMDTEAIEALGLKPLLPLLFGLGVSPDLKNSSRNILYLDQPGLGLPDRDYYLDEKSKKIR 129
Query: 153 ETTIV-VRRVGKYLAVSAKLPEELVE 177
+ ++ + E L E
Sbjct: 130 AAYKAYLAKLLVLAGEDEEDAEALAE 155
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
0.316 0.132 0.402
Gapped
Lambda K H
0.267 0.0684 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,985,682
Number of extensions: 1391087
Number of successful extensions: 1044
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1039
Number of HSP's successfully gapped: 16
Length of query: 295
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 199
Effective length of database: 6,679,618
Effective search space: 1329243982
Effective search space used: 1329243982
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.6 bits)