RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11882
(110 letters)
>gnl|CDD|240182 cd05382, SCP_GAPR-1_like, SCP_GAPR-1_like: SCP-like extracellular
protein domain, golgi-associated plant pathogenesis
related protein (GAPR)-like sub-family. The wider family
of SCP containing proteins includes plant
pathogenesis-related protein 1 (PR-1), CRISPs, mammalian
cysteine-rich secretory proteins, which combine SCP with
a C-terminal cysteine rich domain, and allergen 5 from
vespid venom. It has been proposed that SCP domains may
function as endopeptidases. The human GAPR-1 protein has
been reported to dimerize, and such a dimer may form an
active site containing a catalytic triad. GAPR-1 and
GLIPR-2 appear to be synonyms.
Length = 132
Score = 110 bits (277), Expect = 1e-32
Identities = 49/113 (43%), Positives = 62/113 (54%), Gaps = 21/113 (18%)
Query: 2 AKVAKVAQAWASKLIGSIARGGHLQHRPNNKFGENIWMGSGYKFTDEEAVKNAVKSWYDE 61
++AK AQ WA KL A G LQH + +GEN+ SG + + AV SWY+E
Sbjct: 26 KELAKEAQKWAEKL----ASSGKLQHSSPSGYGENLAYASGSGP--DLTGEEAVDSWYNE 79
Query: 62 I--------------RHFTQVVWKSSSKLGVGIAR-KNGHILVVANYDPPGNY 99
I HFTQVVWKSS++LGVG+A+ K G + VVA Y P GN
Sbjct: 80 IKKYDFNKPGFSSKTGHFTQVVWKSSTELGVGVAKSKKGCVYVVARYRPAGNV 132
>gnl|CDD|240181 cd05381, SCP_PR-1_like, SCP_PR-1_like: SCP-like extracellular
protein domain, PR-1 like subfamily. The wider family of
SCP containing proteins includes plant
pathogenesis-related protein 1 (PR-1), which accumulates
after infections with pathogens, and may act as an
anti-fungal agent or be involved in cell wall loosening.
It also includes CRISPs, mammalian cysteine-rich
secretory proteins, and allergen 5 from vespid venom. It
has been proposed that SCP domains may function as
endopeptidases.
Length = 136
Score = 79.2 bits (196), Expect = 2e-20
Identities = 36/114 (31%), Positives = 58/114 (50%), Gaps = 19/114 (16%)
Query: 3 KVAKVAQAWASKLIGSIARGGHLQHRPNNKFGENIWMGSGYKFTDEEAVKNAV--KSWYD 60
+A AQ +A++ L H +GEN++ GSG ++ +AV + V K +YD
Sbjct: 25 TLAAYAQRYANQR----RGDCALVHSNGP-YGENLFWGSGGNWSAADAVASWVSEKKYYD 79
Query: 61 ----------EIRHFTQVVWKSSSKLGVGIAR--KNGHILVVANYDPPGNYQGQ 102
H+TQVVW++++++G G + ++ NYDPPGNY GQ
Sbjct: 80 YDSNTCAAGKMCGHYTQVVWRNTTRVGCARVTCDNGGGVFIICNYDPPGNYIGQ 133
>gnl|CDD|240180 cd05380, SCP_euk, SCP_euk: SCP-like extracellular protein domain,
as found mainly in eukaryotes. This family includes
plant pathogenesis-related protein 1 (PR-1), CRISPs,
mammalian cysteine-rich secretory proteins, and allergen
5 from vespid venom. It has been proposed that SCP
domains may function as endopeptidases.
Length = 144
Score = 72.2 bits (177), Expect = 2e-17
Identities = 34/111 (30%), Positives = 48/111 (43%), Gaps = 26/111 (23%)
Query: 5 AKVAQAWASKLIGSIARGGHLQHRPNNKFGENIWMGSGYKFTDEEAVKNAVKSWYDE--- 61
A +AQ WA + H R G+N+ GS T EE ++AV +WY+E
Sbjct: 39 AALAQNWAKTCVF-----EHSPCRNTGGVGQNLAAGSSTGSTVEELAEDAVNAWYNELKD 93
Query: 62 --------------IRHFTQVVWKSSSKLGVGIAR----KNGHILVVANYD 94
I HFTQ+VW ++K+G +AR +VV NY
Sbjct: 94 YGFGSNPTNNFNSGIGHFTQMVWAKTTKVGCAVARCGKDGGNKTVVVCNYS 144
>gnl|CDD|214553 smart00198, SCP, SCP / Tpx-1 / Ag5 / PR-1 / Sc7 family of
extracellular domains. Human glioma
pathogenesis-related protein GliPR and the plant
pathogenesis-related protein represent functional links
between plant defense systems and human immune system.
This family has no known function.
Length = 144
Score = 69.3 bits (170), Expect = 2e-16
Identities = 33/115 (28%), Positives = 47/115 (40%), Gaps = 30/115 (26%)
Query: 3 KVAKVAQAWASKLIGSIARGGHLQH-RPNNKFGENIWMGSGYKFTDEEAVKNAVKSWYDE 61
++A AQ WA++ H P +GEN+ S + AV+ WYDE
Sbjct: 38 ELASSAQNWANQCP--------FGHSTPRPGYGENLAWWSSSTALPDTYASAAVQLWYDE 89
Query: 62 IR-----------------HFTQVVWKSSSKLGVGIAR----KNGHILVVANYDP 95
+ H+TQVVW + K+G G+A +VV NYDP
Sbjct: 90 FQDYGYSSNTCKDTNGKIGHYTQVVWAKTYKVGCGVANCPDGTKKKTVVVCNYDP 144
>gnl|CDD|240185 cd05385, SCP_GLIPR-1_like, SCP_GLIPR-1_like: SCP-like extracellular
protein domain, glioma pathogenesis-related protein
(GLIPR)-like sub-family. The wider family of SCP
containing proteins includes plant pathogenesis-related
protein 1 (PR-1), CRISPs, mammalian cysteine-rich
secretory proteins, and allergen 5 from vespid venom. It
has been proposed that SCP domains may function as
endopeptidases.
Length = 144
Score = 68.9 bits (169), Expect = 3e-16
Identities = 43/117 (36%), Positives = 53/117 (45%), Gaps = 31/117 (26%)
Query: 5 AKVAQAWASKLIGSIARGGHLQHR----PNNKF-GENIWMGSGYKFTDEEAVKNAVKSWY 59
AK A+AWA K +L R P GENIW+GS Y F+ KNAV SWY
Sbjct: 34 AKTARAWAKKCKFK--HNIYLGKRYKCHPKFTSVGENIWLGSIYIFS----PKNAVTSWY 87
Query: 60 DEIR--------------HFTQVVWKSSSKLG--VGIARKNGHI----LVVANYDPP 96
+E + H+TQVVW +S K+G V G I + V NY P
Sbjct: 88 NEGKFYDFDTNSCSRVCGHYTQVVWATSYKVGCAVAFCPNLGGIPNAAIFVCNYAPA 144
>gnl|CDD|240184 cd05384, SCP_PRY1_like, SCP_PRY1_like: SCP-like extracellular
protein domain, PRY1-like sub-family restricted to
fungi. The wider family of SCP containing proteins
includes plant pathogenesis-related protein 1 (PR-1),
CRISPs, mammalian cysteine-rich secretory proteins, and
allergen 5 from vespid venom. It has been proposed that
SCP domains may function as endopeptidases. PRY1 is a
yeast protein that is up-regulated in core ESCRT
mutants. This PRY1-like group also contains fruiting
body proteins SC7/14 from Schizophyllum commune.
Length = 129
Score = 66.9 bits (164), Expect = 1e-15
Identities = 39/117 (33%), Positives = 56/117 (47%), Gaps = 32/117 (27%)
Query: 3 KVAKVAQAWASKLIGSIARGGHLQHRPNNKFGENIWMGSGYKFTDEEAVKNAVKSWYDEI 62
+A+ AQ +A+ S G+L H +GEN+ +GY + +AV +WYDEI
Sbjct: 27 TLAEYAQDYANSYDCS----GNLAHS-GGPYGENL--AAGY-----PSGTSAVDAWYDEI 74
Query: 63 R--------------HFTQVVWKSSSKLGVGIARKNGH----ILVVANYDPPGNYQG 101
HFTQ+VWKS+++ VG A K+ +V YDP GN G
Sbjct: 75 EDYDYSNPGFSEATGHFTQLVWKSTTQ--VGCAYKDCGGAWGWYIVCEYDPAGNVIG 129
>gnl|CDD|238097 cd00168, SCP, SCP: SCP-like extracellular protein domain, found in
eukaryotes and prokaryotes. This family includes plant
pathogenesis-related protein 1 (PR-1), which accumulates
after infections with pathogens, and may act as an
anti-fungal agent or be involved in cell wall loosening.
This family also includes CRISPs, mammalian
cysteine-rich secretory proteins, which combine SCP with
a C-terminal cysteine rich domain, and allergen 5 from
vespid venom. Roles for CRISP, in response to pathogens,
fertilization, and sperm maturation have been proposed.
One member, Tex31 from the venom duct of Conus textile,
has been shown to possess proteolytic activity sensitive
to serine protease inhibitors. The human GAPR-1 protein
has been reported to dimerize, and such a dimer may form
an active site containing a catalytic triad. SCP has
also been proposed to be a Ca++ chelating serine
protease. The Ca++-chelating function would fit with
various signaling processes that members of this family,
such as the CRISPs, are involved in, and is supported by
sequence and structural evidence of a conserved pocket
containing two histidines and a glutamate. It also may
explain how helothermine, a toxic peptide secreted by
the beaded lizard, blocks Ca++ transporting ryanodine
receptors. Little is known about the biological roles of
the bacterial and archaeal SCP domains.
Length = 122
Score = 65.9 bits (161), Expect = 2e-15
Identities = 34/108 (31%), Positives = 52/108 (48%), Gaps = 25/108 (23%)
Query: 2 AKVAKVAQAWASKLIGSIARGGHLQHRPNNKFGENIWMGSGYKFTDEEAVKNAVKSWYDE 61
A++AK AQ +A++ I H GEN+ GS + AV++WY+E
Sbjct: 25 AELAKTAQNYANRCIFK-----HSGEDGRGFVGENLAAGS-----YDMTGPAAVQAWYNE 74
Query: 62 IR--------------HFTQVVWKSSSKLGVGIARKNGHI-LVVANYD 94
I+ H+TQVVWK+++K+G G+A + VV NY
Sbjct: 75 IKNYNFGQPGFSSGTGHYTQVVWKNTTKIGCGVAFCGSNSYYVVCNYG 122
>gnl|CDD|240186 cd05559, SCP_HrTT-1, SCP_HrTT-1: SCP-like extracellular protein
domain in HrTT-1, a tail-tip epidermis marker in
ascidians. The wider family of SCP containing proteins
includes plant pathogenesis-related protein 1 (PR-1),
CRISPs, mammalian cysteine-rich secretory proteins, and
allergen 5 from vespid venom. It has been proposed that
SCP domains may function as endopeptidases.
Length = 136
Score = 47.5 bits (113), Expect = 4e-08
Identities = 31/115 (26%), Positives = 49/115 (42%), Gaps = 35/115 (30%)
Query: 4 VAKVAQAWASKLIGSIARGGHLQHRPNNKFGENIWMGSGYKFTDEEAVKNAVKSWYDEIR 63
+A +A+A+A K I H R + + GEN+++ +G F AV+ W +E
Sbjct: 31 LAALAEAYARKCIW-----DHNPDRGHLRVGENLFISTGPPFD----ATKAVEDWNNEKL 81
Query: 64 ----------------HFTQVVWKSSSKLGVGIAR---------KNGHILVVANY 93
H+TQVVW ++ K+G G +N +L V NY
Sbjct: 82 DYNYNTNTCAPNKMCGHYTQVVWANTFKIGCGSYFCETLEVLRWENATLL-VCNY 135
>gnl|CDD|215778 pfam00188, CAP, Cysteine-rich secretory protein family. This is a
large family of cysteine-rich secretory proteins,
antigen 5, and pathogenesis-related 1 proteins (CAP)
that are found in a wide range of organisms, including
prokaryotes and non-vertebrate eukaryotes, The nine
subfamilies of the mammalian CAP 'super'family include:
the human glioma pathogenesis-related 1 (GLIPR1), Golgi
associated pathogenesis related-1 (GAPR1) proteins,
peptidase inhibitor 15 (PI15), peptidase inhibitor 16
(PI16), cysteine-rich secretory proteins (CRISPs), CRISP
LCCL domain containing 1 (CRISPLD1), CRISP LCCL domain
containing 2 (CRISPLD2), mannose receptor like and the
R3H domain containing like proteins. Members are most
often secreted and have an extracellular endocrine or
paracrine function and are involved in processes
including the regulation of extracellular matrix and
branching morphogenesis, potentially as either proteases
or protease inhibitors; in ion channel regulation in
fertility; as tumour suppressor or pro-oncogenic genes
in tissues including the prostate; and in cell-cell
adhesion during fertilisation. The overall protein
structural conservation within the CAP 'super'family
results in fundamentally similar functions for the CAP
domain in all members, yet the diversity outside of this
core region dramatically alters the target specificity
and, thus, the biological consequences. The
Ca++-chelating function would fit with the various
signalling processes (e.g. the CRISP proteins) that
members of this family are involved in, and also the
sequence and structural evidence of a conserved pocket
containing two histidines and a glutamate. It also may
explain how helothermine from Heloderma horridum
horridum blocks the Ca++ transporting ryanodine
receptors.
Length = 121
Score = 41.0 bits (96), Expect = 1e-05
Identities = 22/106 (20%), Positives = 37/106 (34%), Gaps = 25/106 (23%)
Query: 5 AKVAQAWASKLIGSIARGGHLQHRPNNKFGENIWMGSGYKFTDEEAVK------------ 52
A AQ A+ + + +GEN+ + S D+ V
Sbjct: 24 AAAAQDHAAYCADN--------GYFGHDYGENLALVSVAGKADDPGVAAVENWYDEAKDY 75
Query: 53 ---NAVKSWYDEIRHFTQVVWKSSSKLGVGIAR--KNGHILVVANY 93
+ +W H T ++W S+K+G +A+ VV NY
Sbjct: 76 DAAVGINAWMSSPGHRTNLLWPKSTKVGCAVAKCGDGSSYYVVCNY 121
>gnl|CDD|240183 cd05383, SCP_CRISP, SCP_CRISP: SCP-like extracellular protein
domain, CRISP-like sub-family. The wider family of SCP
containing proteins includes plant pathogenesis-related
protein 1 (PR-1), CRISPs, mammalian cysteine-rich
secretory proteins, which combine SCP with a C-terminal
cysteine rich domain, and allergen 5 from vespid venom.
Involvement of CRISP in response to pathogens,
fertilization, and sperm maturation have been proposed.
One member, Tex31 from the venom duct of Conus textile,
has been shown to possess proteolytic activity sensitive
to serine protease inhibitors. SCP has also been
proposed to be a Ca++ chelating serine protease. The
Ca++-chelating function would fit with various signaling
processes that members of this family, such as the
CRISPs, are involved in, and is supported by sequence
and structural evidence of a conserved pocket containing
two histidines and a glutamate. It also may explain how
helothermine, a toxic peptide secreted by the beaded
lizard, blocks Ca++ transporting ryanodine receptors.
One member, DE or CRISP-1, has been shown to mediate
gamete fusion by binding to the egg surface; a sequence
motif in the SCP domain plays a role in that binding.
Length = 138
Score = 40.8 bits (96), Expect = 1e-05
Identities = 27/113 (23%), Positives = 44/113 (38%), Gaps = 29/113 (25%)
Query: 5 AKVAQAWASKLIGSIARGGHLQHR--PNNKFGENIWMGSGYKFTDEEAVKNAVKSWYDE- 61
A+ A+ WA+ + + R GENI+M S Y + + ++ +WYDE
Sbjct: 34 AQNAKKWANTCNLTHS---PPNGRTIGGITCGENIFM-SSYPRSWSDVIQ----AWYDEY 85
Query: 62 ---------------IRHFTQVVWKSSSKLGVGIA---RKNGHILVVANYDPP 96
+ H+TQ+VW S +G +A V +Y P
Sbjct: 86 KDFKYGVGATPPGAVVGHYTQIVWYKSYLVGCAVAYCPNSKYKYFYVCHYCPA 138
>gnl|CDD|240369 PTZ00340, PTZ00340, O-sialoglycoprotein endopeptidase-like
protein; Provisional.
Length = 345
Score = 28.8 bits (65), Expect = 0.51
Identities = 14/31 (45%), Positives = 18/31 (58%), Gaps = 7/31 (22%)
Query: 72 SSSKLGVGIARKNGHILVVAN-----YDPPG 97
S++KLGVGI +G IL +N PPG
Sbjct: 9 SANKLGVGIVTSDGEIL--SNVRETYITPPG 37
>gnl|CDD|206661 cd01869, Rab1_Ypt1, Rab GTPase family 1 includes the yeast homolog
Ypt1. Rab1/Ypt1 subfamily. Rab1 is found in every
eukaryote and is a key regulatory component for the
transport of vesicles from the ER to the Golgi
apparatus. Studies on mutations of Ypt1, the yeast
homolog of Rab1, showed that this protein is necessary
for the budding of vesicles of the ER as well as for
their transport to, and fusion with, the Golgi
apparatus. GTPase activating proteins (GAPs) interact
with GTP-bound Rab and accelerate the hydrolysis of GTP
to GDP. Guanine nucleotide exchange factors (GEFs)
interact with GDP-bound Rabs to promote the formation of
the GTP-bound state. Rabs are further regulated by
guanine nucleotide dissociation inhibitors (GDIs), which
facilitate Rab recycling by masking C-terminal lipid
binding and promoting cytosolic localization. Most Rab
GTPases contain a lipid modification site at the
C-terminus, with sequence motifs CC, CXC, or CCX. Lipid
binding is essential for membrane attachment, a key
feature of most Rab proteins. Due to the presence of
truncated sequences in this CD, the lipid modification
site is not available for annotation.
Length = 166
Score = 26.1 bits (58), Expect = 3.0
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 4/37 (10%)
Query: 43 YKFTDEEAVKNAVKSWYDEIRHFTQVVWKSSSKLGVG 79
Y TD+E+ N VK W EI + ++ +KL VG
Sbjct: 82 YDVTDQESFNN-VKQWLQEIDRYAS---ENVNKLLVG 114
>gnl|CDD|167229 PRK01415, PRK01415, hypothetical protein; Validated.
Length = 247
Score = 26.1 bits (57), Expect = 5.0
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 21 RGGHLQHRPNNKFGENIWMGSGYKFTDEEAVKN 53
+GG LQ+ + + N+W G + F D AV +
Sbjct: 203 KGGILQYLEDTQNKNNLWQGECFVFDDRRAVTD 235
>gnl|CDD|187820 cd09689, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily
protein Cas7. CRISPR (Clustered Regularly Interspaced
Short Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Cas7 is a RAMP superfamily protein; Subunit of the
Cascade complex; also known as Csd2 family.
Length = 278
Score = 25.1 bits (55), Expect = 9.2
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 39 MGSGYKFTDEEAVKNAVKSWYDEIRHFTQV 68
G K + EE K +W+D +R F V
Sbjct: 84 EGRAKKASVEEFRKWMCANWFD-VRAFGAV 112
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 0.131 0.408
Gapped
Lambda K H
0.267 0.0690 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,653,758
Number of extensions: 463086
Number of successful extensions: 450
Number of sequences better than 10.0: 1
Number of HSP's gapped: 432
Number of HSP's successfully gapped: 19
Length of query: 110
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 36
Effective length of database: 7,655,406
Effective search space: 275594616
Effective search space used: 275594616
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: 53 (24.3 bits)