RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9195
(139 letters)
>gnl|CDD|238740 cd01463, vWA_VGCC_like, VWA Voltage gated Calcium channel like:
Voltage-gated calcium channels are a complex of five
proteins: alpha 1, beta 1, gamma, alpha 2 and delta. The
alpha 2 and delta subunits result from proteolytic
processing of a single gene product and carries at its
N-terminus the VWA and cache domains, The alpha 2 delta
gene family has orthologues in D. melanogaster and C.
elegans but none have been detected in aither A.
thaliana or yeast. The exact biochemical function of the
VWA domain is not known but the alpha 2 delta complex
has been shown to regulate various functional properties
of the channel complex.
Length = 190
Score = 102 bits (255), Expect = 3e-28
Identities = 37/68 (54%), Positives = 45/68 (66%)
Query: 62 RNRQWYIQATTCSKDVVILVDNSGSMAGMRNTTAKLVLHSLLQTFSNNDFINIFKFNLTV 121
RNR WYIQA T KD+VIL+D SGSM G R AK + S+L T S+NDF NI F+ V
Sbjct: 1 RNRSWYIQAATSPKDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDNDFFNIITFSNEV 60
Query: 122 DTIVPCLG 129
+ +VPC
Sbjct: 61 NPVVPCFN 68
>gnl|CDD|219821 pfam08399, VWA_N, VWA N-terminal. This domain is found at the
N-terminus of proteins containing von Willebrand factor
type A (VWA, pfam00092) and Cache (pfam02743) domains.
It has been found in vertebrates, Drosophila and C.
elegans but has not yet been identified in other
eukaryotes. It is probably involved in the function of
some voltage-dependent calcium channel subunits.
Length = 123
Score = 72.8 bits (179), Expect = 2e-17
Identities = 24/42 (57%), Positives = 30/42 (71%)
Query: 6 DVRAGLMWSEGLDEVFRENYMADPTLLWQYFGSAKGFLRTYP 47
++ L WSE LD VF +N+ +DP+L WQYFGSA GF R YP
Sbjct: 78 EILNALNWSEALDSVFADNFESDPSLTWQYFGSATGFFRYYP 119
>gnl|CDD|234353 TIGR03788, marine_srt_targ, marine proteobacterial sortase target
protein. Members of this protein family are restricted
to the Proteobacteria. Each contains a C-terminal
sortase-recognition motif, transmembrane domain, and
basic residues cluster at the the C-terminus, and is
encoded adjacent to a sortase gene. This protein is
frequently the only sortase target in its genome, which
is as unusual its occurrence in Gram-negative rather
than Gram-positive genomes. Many bacteria with this
system are marine. In addition to the LPXTG signal,
members carry a vault protein inter-alpha-trypsin
inhibitor domain (pfam08487) and a von Willebrand factor
type A domain (pfam00092).
Length = 596
Score = 43.1 bits (102), Expect = 1e-05
Identities = 18/52 (34%), Positives = 26/52 (50%)
Query: 75 KDVVILVDNSGSMAGMRNTTAKLVLHSLLQTFSNNDFINIFKFNLTVDTIVP 126
+++V ++D SGSMAG AK L L D NI +F+ V + P
Sbjct: 272 RELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLFP 323
>gnl|CDD|214621 smart00327, VWA, von Willebrand factor (vWF) type A domain. VWA
domains in extracellular eukaryotic proteins mediate
adhesion via metal ion-dependent adhesion sites (MIDAS).
Intracellular VWA domains and homologues in prokaryotes
have recently been identified. The proposed VWA domains
in integrin beta subunits have recently been
substantiated using sequence-based methods.
Length = 175
Score = 40.1 bits (94), Expect = 7e-05
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 76 DVVILVDNSGSMAGMRNTTAKLVLHSLLQTFS---NNDFINIFKFNLTVDTIVPCLGNYS 132
DVV L+D SGSM G R AK + L++ + D + + F+ + P + S
Sbjct: 1 DVVFLLDGSGSMGGNRFELAKEFVLKLVEQLDIGPDGDRVGLVTFSDDARVLFPLNDSRS 60
Query: 133 LVQTLR 138
L
Sbjct: 61 KDALLE 66
>gnl|CDD|222367 pfam13768, VWA_3, von Willebrand factor type A domain.
Length = 156
Score = 40.1 bits (94), Expect = 8e-05
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 75 KDVVILVDNSGSMAGMRNTTAKLVLHSLLQTFSNNDFINIFKF 117
DVVILVD S SM+G K L ++L++ D N+ F
Sbjct: 1 GDVVILVDVSSSMSGEPINLVKDALSAILRSLPPRDKFNVVLF 43
>gnl|CDD|238119 cd00198, vWFA, Von Willebrand factor type A (vWA) domain was
originally found in the blood coagulation protein von
Willebrand factor (vWF). Typically, the vWA domain is
made up of approximately 200 amino acid residues folded
into a classic a/b para-rossmann type of fold. The vWA
domain, since its discovery, has drawn great interest
because of its widespread occurrence and its involvement
in a wide variety of important cellular functions. These
include basal membrane formation, cell migration, cell
differentiation, adhesion, haemostasis, signaling,
chromosomal stability, malignant transformation and in
immune defenses In integrins these domains form
heterodimers while in vWF it forms multimers. There are
different interaction surfaces of this domain as seen by
the various molecules it complexes with. Ligand binding
in most cases is mediated by the presence of a metal ion
dependent adhesion site termed as the MIDAS motif that
is a characteristic feature of most, if not all A
domains.
Length = 161
Score = 39.9 bits (93), Expect = 1e-04
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 76 DVVILVDNSGSMAGMRNTTAKLVLHSLLQTFSN---NDFINIFKFNLTVDTIVP 126
D+V L+D SGSM G + AK L +L+ + S D + + F ++P
Sbjct: 2 DIVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVLP 55
>gnl|CDD|238738 cd01461, vWA_interalpha_trypsin_inhibitor, vWA_interalpha trypsin
inhibitor (ITI): ITI is a glycoprotein composed of three
polypeptides- two heavy chains and one light chain
(bikunin). Bikunin confers the protease-inhibitor
function while the heavy chains are involved in
rendering stability to the extracellular matrix by
binding to hyaluronic acid. The heavy chains carry the
VWA domain with a conserved MIDAS motif. Although the
exact role of the VWA domains remains unknown, it has
been speculated to be involved in mediating
protein-protein interactions with the components of the
extracellular matrix.
Length = 171
Score = 38.4 bits (90), Expect = 3e-04
Identities = 19/55 (34%), Positives = 29/55 (52%)
Query: 74 SKDVVILVDNSGSMAGMRNTTAKLVLHSLLQTFSNNDFINIFKFNLTVDTIVPCL 128
K+VV ++D SGSM+G + K L + L+ D+ NI F+ TV+ P
Sbjct: 2 PKEVVFVIDTSGSMSGTKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEFSPSS 56
>gnl|CDD|238739 cd01462, VWA_YIEM_type, VWA YIEM type: Von Willebrand factor type A
(vWA) domain was originally found in the blood
coagulation protein von Willebrand factor (vWF).
Typically, the vWA domain is made up of approximately
200 amino acid residues folded into a classic a/b
para-rossmann type of fold. The vWA domain, since its
discovery, has drawn great interest because of its
widespread occurrence and its involvement in a wide
variety of important cellular functions. These include
basal membrane formation, cell migration, cell
differentiation, adhesion, haemostasis, signaling,
chromosomal stability, malignant transformation and in
immune defenses In integrins these domains form
heterodimers while in vWF it forms multimers. There are
different interaction surfaces of this domain as seen by
the various molecules it complexes with. Ligand binding
in most cases is mediated by the presence of a metal ion
dependent adhesion site termed as the MIDAS motif that
is a characteristic feature of most, if not all A
domains. Members of this subgroup have a conserved MIDAS
motif, however, their biochemical function is not well
characterised.
Length = 152
Score = 34.2 bits (79), Expect = 0.008
Identities = 19/51 (37%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 75 KDVVILVDNSGSMAGMRNTTAKLVLHSLLQTFS--NNDFINIFKFNLTVDT 123
V++LVD SGSM G AK V +LL+ N D I F+ T
Sbjct: 1 GPVILLVDQSGSMYGAPEEVAKAVALALLRIALAENRDTYLIL-FDSEFQT 50
>gnl|CDD|222192 pfam13519, VWA_2, von Willebrand factor type A domain.
Length = 172
Score = 34.2 bits (79), Expect = 0.010
Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 6/67 (8%)
Query: 76 DVVILVDNSGSMAG-----MRNTTAKLVLHSLLQTFSNNDFINIFKFNLTVDTIVPCLGN 130
D+VI++D SGSM R T AK + LL D + + F + ++P +
Sbjct: 1 DLVIVLDVSGSMNATDLKPSRLTRAKAAIADLLARL-PGDRVGLIAFAGSAYLVLPLTDD 59
Query: 131 YSLVQTL 137
+ +
Sbjct: 60 RAALAAA 66
>gnl|CDD|225281 COG2425, COG2425, Uncharacterized protein containing a von
Willebrand factor type A (vWA) domain [General function
prediction only].
Length = 437
Score = 32.3 bits (74), Expect = 0.066
Identities = 16/67 (23%), Positives = 28/67 (41%), Gaps = 10/67 (14%)
Query: 52 APAEDLIFDCRNRQWYIQATTCSKDVVILVDNSGSMAGMRNTTAKLVLHSLLQTF--SNN 109
+ L + + + V++L+D SGSM+G + AK V +L++ N
Sbjct: 258 VEKKLLTYRLQGKSE--------GPVILLLDKSGSMSGFKEQWAKAVALALMRIALAENR 309
Query: 110 DFINIFK 116
D I
Sbjct: 310 DCYVILF 316
>gnl|CDD|238742 cd01465, vWA_subgroup, VWA subgroup: Von Willebrand factor type A
(vWA) domain was originally found in the blood
coagulation protein von Willebrand factor (vWF).
Typically, the vWA domain is made up of approximately
200 amino acid residues folded into a classic a/b
para-rossmann type of fold. The vWA domain, since its
discovery, has drawn great interest because of its
widespread occurrence and its involvement in a wide
variety of important cellular functions. These include
basal membrane formation, cell migration, cell
differentiation, adhesion, haemostasis, signaling,
chromosomal stability, malignant transformation and in
immune defenses In integrins these domains form
heterodimers while in vWF it forms multimers. There are
different interaction surfaces of this domain as seen by
the various molecules it complexes with. Ligand binding
in most cases is mediated by the presence of a metal ion
dependent adhesion site termed as the MIDAS motif that
is a characteristic feature of most, if not all A
domains. Not much is known about the function of the VWA
domain in these proteins. The members do have a
conserved MIDAS motif. The biochemical function however
is not known.
Length = 170
Score = 31.5 bits (72), Expect = 0.074
Identities = 14/49 (28%), Positives = 25/49 (51%)
Query: 78 VILVDNSGSMAGMRNTTAKLVLHSLLQTFSNNDFINIFKFNLTVDTIVP 126
V ++D SGSM G + K L L+ +D + I ++ +T++P
Sbjct: 4 VFVIDRSGSMDGPKLPLVKSALKLLVDQLRPDDRLAIVTYDGAAETVLP 52
>gnl|CDD|224161 COG1240, ChlD, Mg-chelatase subunit ChlD [Coenzyme metabolism].
Length = 261
Score = 31.6 bits (72), Expect = 0.088
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 76 DVVILVDNSGSMAGMRN-TTAKLVLHSLLQ 104
+V +VD SGSMA R AK SLL+
Sbjct: 80 LIVFVVDASGSMAARRRMAAAKGAALSLLR 109
>gnl|CDD|215711 pfam00092, VWA, von Willebrand factor type A domain.
Length = 178
Score = 30.8 bits (70), Expect = 0.16
Identities = 13/56 (23%), Positives = 24/56 (42%), Gaps = 7/56 (12%)
Query: 76 DVVILVDNSGSMAG-----MRNTTAKLVLHSLLQTFSNNDFINIFKFNLTVDTIVP 126
D+V L+D SGS+ ++ KLV L + + + +++ V T
Sbjct: 1 DIVFLLDGSGSIGEANFEKVKEFIKKLV--ERLDIGPDGTRVGLVQYSSDVTTEFS 54
>gnl|CDD|233870 TIGR02442, Cob-chelat-sub, cobaltochelatase subunit.
Cobaltochelatase is responsible for the insertion of
cobalt into the corrin ring of coenzyme B12 during its
biosynthesis. Two versions have been well described.
CbiK/CbiX is a monomeric, anaerobic version which acts
early in the biosynthesis (pfam06180). CobNST is a
trimeric, ATP-dependent, aerobic version which acts late
in the biosynthesis (TIGR02257/TIGR01650/TIGR01651). A
number of genomes (actinobacteria, cyanobacteria,
betaproteobacteria and pseudomonads) which apparently
biosynthesize B12, encode a cobN gene but are
demonstrably lacking cobS and cobT. These genomes do,
however contain a homolog (modelled here) of the
magnesium chelatase subunits BchI/BchD family. Aside
from the cyanobacteria (which have a separate magnesium
chelatase trimer), these species do not make chlorins,
so do not have any use for a magnesium chelatase.
Furthermore, in nearly all cases the members of this
family are proximal to either CobN itself or other genes
involved in cobalt transport or B12 biosynthesis.
Length = 633
Score = 30.8 bits (70), Expect = 0.18
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 77 VVILVDNSGSMAGM-RNTTAKLVLHSLLQ 104
V+ +VD SGSMA R AK + SLL+
Sbjct: 468 VIFVVDASGSMAARGRMAAAKGAVLSLLR 496
>gnl|CDD|147747 pfam05762, VWA_CoxE, VWA domain containing CoxE-like protein. This
family is annotated by SMART as containing a VWA (von
Willebrand factor type A) domain. The exact function of
this family is unknown. It is found as part of a CO
oxidising (Cox) system operon is several bacteria.
Length = 223
Score = 30.4 bits (69), Expect = 0.19
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 76 DVVILVDNSGSMAGMRNTTAKLVLHSLLQTFS 107
+V+L+D SGSMA L LH+LL
Sbjct: 59 RLVLLLDVSGSMADYSRIFLAL-LHALLAGRP 89
>gnl|CDD|233692 TIGR02031, BchD-ChlD, magnesium chelatase ATPase subunit D. This
model represents one of two ATPase subunits of the
trimeric magnesium chelatase responsible for insertion
of magnesium ion into protoporphyrin IX. This is an
essential step in the biosynthesis of both chlorophyll
and bacteriochlorophyll. This subunit is found in green
plants, photosynthetic algae, cyanobacteria and other
photosynthetic bacteria. Unlike subunit I (TIGR02030),
this subunit is not found in archaea [Biosynthesis of
cofactors, prosthetic groups, and carriers, Chlorophyll
and bacteriochlorphyll].
Length = 589
Score = 30.5 bits (69), Expect = 0.24
Identities = 25/97 (25%), Positives = 47/97 (48%), Gaps = 12/97 (12%)
Query: 49 KEDAPAED--LIF---DCRNRQWYIQATTCSKDVVILVDNSGSMAGMRNTTAKLVLHSLL 103
+E+ PA LI D R +++ ++ ++ +VD SGS A R + AK + LL
Sbjct: 380 REENPAGTRGLIVEASDIRIKRYRRKSGRL---LIFVVDASGSAAVARMSEAKGAVELLL 436
Query: 104 Q-TFSNNDFINIFKFNLT-VDTIVPCLGNYSLVQTLR 138
+ + D +++ F T + ++P + S+ Q R
Sbjct: 437 GEAYVHRDQVSLIAFRGTAAEVLLP--PSRSVEQAKR 471
>gnl|CDD|184200 PRK13640, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 282
Score = 30.2 bits (68), Expect = 0.27
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 14/80 (17%)
Query: 45 TYPDKEDAPAEDLIFDCRNRQWYIQATTCSKDVVILVDNSGSMAGMRNTTAKLVLHSLLQ 104
TYPD + D+ F W T L+ ++GS ++T +KL+ LL
Sbjct: 14 TYPDSKKPALNDISFSIPRGSW----TA-------LIGHNGS---GKSTISKLINGLLLP 59
Query: 105 TFSNNDFINIFKFNLTVDTI 124
+ N I + LT T+
Sbjct: 60 DDNPNSKITVDGITLTAKTV 79
>gnl|CDD|205703 pfam13525, YfiO, Outer membrane lipoprotein. This outer membrane
lipoprotein carries a TPR-like region towards its
N-terminal. YfiO in E.coli is one of three outer
membrane lipoproteins that form a multicomponent YaeT
complex in the outer membrane of Gram-negative bacteria
that is involved in the targeting and folding of
beta-barrel outer membrane proteins. YfiO is the only
essential lipoprotein component of the complex. It is
required for the proper assembly and/or targeting of
outer membrane proteins to the outer membrane. Through
its interactions with NlpB it maintains the functional
integrity of the YaeT complex.
Length = 203
Score = 29.9 bits (68), Expect = 0.29
Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 3/56 (5%)
Query: 10 GLMWSEGLDEVFRENYMADPTLLWQYFGSAKGFLRTYPDKEDAP-AEDLIFDCRNR 64
GL + + + DP+ + F +R YPD E AP A+ + RNR
Sbjct: 86 GLSNYKQDRSLDQ--SDRDPSYAREAFRDFAELIRRYPDSEYAPDAKARMIYLRNR 139
>gnl|CDD|226082 COG3552, CoxE, Protein containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 395
Score = 30.1 bits (68), Expect = 0.34
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 4/72 (5%)
Query: 67 YIQATTCSKDVVILVDNSGSMAGMRNTTAKLVLHSLLQTFSNNDFINIFKFNLTVDTIVP 126
+ +V+L D SGSM+G L LH+L Q S +++F F + +
Sbjct: 211 RRRPRRRKPPLVVLCDVSGSMSGYSRIFLHL-LHALRQQRSR---VHVFLFGTRLTRVTH 266
Query: 127 CLGNYSLVQTLR 138
L L LR
Sbjct: 267 MLRERDLEDALR 278
>gnl|CDD|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and
ADP-ribosylation factor-5 (Arf5). The Arf1-Arf5-like
subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and
related proteins. Arfs1-5 are soluble proteins that are
crucial for assembling coat proteins during vesicle
formation. Each contains an N-terminal myristoylated
amphipathic helix that is folded into the protein in the
GDP-bound state. GDP/GTP exchange exposes the helix,
which anchors to the membrane. Following GTP hydrolysis,
the helix dissociates from the membrane and folds back
into the protein. A general feature of Arf1-5 signaling
may be the cooperation of two Arfs at the same site.
Arfs1-5 are generally considered to be interchangeable
in function and location, but some specific functions
have been assigned. Arf1 localizes to the
early/cis-Golgi, where it is activated by GBF1 and
recruits the coat protein COPI. It also localizes to the
trans-Golgi network (TGN), where it is activated by
BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA
proteins. Humans, but not rodents and other lower
eukaryotes, lack Arf2. Human Arf3 shares 96% sequence
identity with Arf1 and is believed to generally function
interchangeably with Arf1. Human Arf4 in the activated
(GTP-bound) state has been shown to interact with the
cytoplasmic domain of epidermal growth factor receptor
(EGFR) and mediate the EGF-dependent activation of
phospholipase D2 (PLD2), leading to activation of the
activator protein 1 (AP-1) transcription factor. Arf4
has also been shown to recognize the C-terminal sorting
signal of rhodopsin and regulate its incorporation into
specialized post-Golgi rhodopsin transport carriers
(RTCs). There is some evidence that Arf5 functions at
the early-Golgi and the trans-Golgi to affect
Golgi-associated alpha-adaptin homology Arf-binding
proteins (GGAs).
Length = 159
Score = 28.9 bits (65), Expect = 0.54
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 58 IFDCRNRQWYIQAT 71
+ RNR WYIQAT
Sbjct: 128 LHSLRNRNWYIQAT 141
>gnl|CDD|238728 cd01451, vWA_Magnesium_chelatase, Magnesium chelatase: Mg-chelatase
catalyses the insertion of Mg into protoporphyrin IX
(Proto). In chlorophyll biosynthesis, insertion of Mg2+
into protoporphyrin IX is catalysed by magnesium
chelatase in an ATP-dependent reaction. Magnesium
chelatase is a three sub-unit (BchI, BchD and BchH)
enzyme with a novel arrangement of domains: the
C-terminal helical domain is located behind the
nucleotide binding site. The BchD domain contains a AAA
domain at its N-terminus and a VWA domain at its
C-terminus. The VWA domain has been speculated to be
involved in mediating protein-protein interactions.
Length = 178
Score = 28.4 bits (64), Expect = 0.91
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 77 VVILVDNSGSMAGM-RNTTAKLVLHSLLQ 104
V+ +VD SGSMA R AK + SLL+
Sbjct: 3 VIFVVDASGSMAARHRMAAAKGAVLSLLR 31
>gnl|CDD|238743 cd01466, vWA_C3HC4_type, VWA C3HC4-type: Von Willebrand factor type
A (vWA) domain was originally found in the blood
coagulation protein von Willebrand factor (vWF).
Typically, the vWA domain is made up of approximately
200 amino acid residues folded into a classic a/b
para-rossmann type of fold. The vWA domain, since its
discovery, has drawn great interest because of its
widespread occurrence and its involvement in a wide
variety of important cellular functions. These include
basal membrane formation, cell migration, cell
differentiation, adhesion, haemostasis, signaling,
chromosomal stability, malignant transformation and in
immune defenses In integrins these domains form
heterodimers while in vWF it forms multimers. There are
different interaction surfaces of this domain as seen by
the various molecules it complexes with. Ligand binding
in most cases is mediated by the presence of a metal ion
dependent adhesion site termed as the MIDAS motif that
is a characteristic feature of most, if not all A
domains. Membes of this subgroup belong to Zinc-finger
family as they are found fused to RING finger domains.
The MIDAS motif is not conserved in all the members of
this family. The function of vWA domains however is not
known.
Length = 155
Score = 27.7 bits (62), Expect = 1.3
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 11/45 (24%)
Query: 76 DVVILVDNSGSMAG----MRNTTAKLVLHSL-------LQTFSNN 109
D+V ++D SGSMAG + + V+ SL + TFS +
Sbjct: 2 DLVAVLDVSGSMAGDKLQLVKHALRFVISSLGDADRLSIVTFSTS 46
>gnl|CDD|238727 cd01450, vWFA_subfamily_ECM, Von Willebrand factor type A (vWA)
domain was originally found in the blood coagulation
protein von Willebrand factor (vWF). Typically, the vWA
domain is made up of approximately 200 amino acid
residues folded into a classic a/b para-rossmann type of
fold. The vWA domain, since its discovery, has drawn
great interest because of its widespread occurrence and
its involvement in a wide variety of important cellular
functions. These include basal membrane formation, cell
migration, cell differentiation, adhesion, haemostasis,
signaling, chromosomal stability, malignant
transformation and in immune defenses In integrins
these domains form heterodimers while in vWF it forms
multimers. There are different interaction surfaces of
this domain as seen by the various molecules it
complexes with. Ligand binding in most cases is mediated
by the presence of a metal ion dependent adhesion site
termed as the MIDAS motif that is a characteristic
feature of most, if not all A domains .
Length = 161
Score = 28.0 bits (63), Expect = 1.4
Identities = 8/33 (24%), Positives = 14/33 (42%)
Query: 76 DVVILVDNSGSMAGMRNTTAKLVLHSLLQTFSN 108
D+V L+D S S+ K + L++
Sbjct: 2 DIVFLLDGSESVGPENFEKVKDFIEKLVEKLDI 34
>gnl|CDD|237478 PRK13709, PRK13709, conjugal transfer nickase/helicase TraI;
Provisional.
Length = 1747
Score = 27.8 bits (62), Expect = 2.2
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 75 KDVVILVDNSGSMAGMRNTTAKLVLHSLLQ 104
+ + +V G AG R A+LV+ + Q
Sbjct: 429 RPSLAIVSGQGGAAGQRERVAELVMMAREQ 458
>gnl|CDD|234208 TIGR03436, acidobact_VWFA, VWFA-related Acidobacterial domain.
Members of this family are bacterial domains that
include a region related to the von Willebrand factor
type A (VWFA) domain (pfam00092). These domains are
restricted to, and have undergone a large paralogous
family expansion in, the Acidobacteria, including
Solibacter usitatus and Acidobacterium capsulatum ATCC
51196.
Length = 296
Score = 27.3 bits (61), Expect = 2.8
Identities = 19/93 (20%), Positives = 32/93 (34%), Gaps = 19/93 (20%)
Query: 48 DKEDAPAEDL------IFDCRNRQWYI----QATTCSKDVVILVDNSGSMAG----MRNT 93
DK+ P L + + Q I + T V +++D SGSM R
Sbjct: 18 DKKGRPVTGLTKDDFTVLEDGKPQ-TIASFRRETDLPLTVGLVIDTSGSMRNDLDRARAA 76
Query: 94 TAKLVLHSLLQTFSNNDFINIFKFNLTVDTIVP 126
+ + L ND + + FN + +
Sbjct: 77 AIRFLKTVL----RPNDRVFVVTFNTRLRLLQD 105
>gnl|CDD|216925 pfam02194, PXA, PXA domain. This domain is associated with PX
domains pfam00787.
Length = 182
Score = 26.8 bits (60), Expect = 3.5
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 95 AKLVLHSLLQTFSNNDFIN 113
A VL L+ S+ DFIN
Sbjct: 154 ACAVLLPLVSKLSDPDFIN 172
>gnl|CDD|227122 COG4783, COG4783, Putative Zn-dependent protease, contains TPR
repeats [General function prediction only].
Length = 484
Score = 26.2 bits (58), Expect = 6.3
Identities = 10/43 (23%), Positives = 12/43 (27%)
Query: 33 WQYFGSAKGFLRTYPDKEDAPAEDLIFDCRNRQWYIQATTCSK 75
W A L + A AE R Q I S+
Sbjct: 411 WDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFLMRASQ 453
>gnl|CDD|238741 cd01464, vWA_subfamily, VWA subfamily: Von Willebrand factor type A
(vWA) domain was originally found in the blood
coagulation protein von Willebrand factor (vWF).
Typically, the vWA domain is made up of approximately
200 amino acid residues folded into a classic a/b
para-rossmann type of fold. The vWA domain, since its
discovery, has drawn great interest because of its
widespread occurrence and its involvement in a wide
variety of important cellular functions. These include
basal membrane formation, cell migration, cell
differentiation, adhesion, haemostasis, signaling,
chromosomal stability, malignant transformation and in
immune defenses In integrins these domains form
heterodimers while in vWF it forms multimers. There are
different interaction surfaces of this domain as seen by
the various molecules it complexes with. Ligand binding
in most cases is mediated by the presence of a metal ion
dependent adhesion site termed as the MIDAS motif that
is a characteristic feature of most, if not all A
domains. Members of this subgroup have no assigned
function. This subfamily is typified by the presence of
a conserved MIDAS motif.
Length = 176
Score = 26.1 bits (58), Expect = 6.4
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 6/56 (10%)
Query: 77 VVILVDNSGSMAGMRNTTAKLVLHSLLQTFSNNDF------INIFKFNLTVDTIVP 126
+ +L+D SGSMAG L L + + I++ F+ IVP
Sbjct: 6 IYLLLDTSGSMAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAARVIVP 61
>gnl|CDD|238748 cd01471, vWA_micronemal_protein, Micronemal proteins: The
Toxoplasma lytic cycle begins when the parasite actively
invades a target cell. In association with invasion, T.
gondii sequentially discharges three sets of secretory
organelles beginning with the micronemes, which contain
adhesive proteins involved in parasite attachment to a
host cell. Deployed as protein complexes, several
micronemal proteins possess vertebrate-derived adhesive
sequences that function in binding receptors. The VWA
domain likely mediates the protein-protein interactions
of these with their interacting partners.
Length = 186
Score = 25.8 bits (57), Expect = 6.8
Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 4/42 (9%)
Query: 76 DVVILVDNSGSMAGMRNTTAKLV--LHSLLQTFS-NNDFINI 114
D+ +LVD SGS+ G N +V LH+ +Q + + D IN+
Sbjct: 2 DLYLLVDGSGSI-GYSNWVTHVVPFLHTFVQNLNISPDEINL 42
>gnl|CDD|219852 pfam08457, Sfi1, Sfi1 spindle body protein. This is a family of
fungal spindle pole body proteins that play a role in
spindle body duplication. They contain binding sites for
calmodulin-like proteins called centrins which are
present in microtubule-organising centres.
Length = 537
Score = 26.2 bits (58), Expect = 7.5
Identities = 9/32 (28%), Positives = 12/32 (37%)
Query: 13 WSEGLDEVFRENYMADPTLLWQYFGSAKGFLR 44
W E L E+ A+ G+A LR
Sbjct: 466 WKERLQEIKELEQQAEDLRRQHAEGTANNALR 497
>gnl|CDD|239052 cd02137, Nitroreductase_1, Nitroreductase-like family 1. A
subfamily of the nitroreductase family containing
uncharacterized proteins that are similar to
nitroreductase. Nitroreductase catalyzes the reduction
of nitroaromatic compounds such as nitrotoluenes,
nitrofurans and nitroimidazoles. This process requires
NAD(P)H as electron donor in an obligatory two-electron
transfer and uses FMN as cofactor. The enzyme is
typically a homodimer. Members of this family are also
called NADH dehydrogenase, oxygen-insensitive NAD(P)H
nitrogenase or dihydropteridine reductase.
Length = 148
Score = 25.6 bits (57), Expect = 7.6
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 69 QATTCSKDVVILVDNSGSMAGM 90
Q TT S +++L D + +A M
Sbjct: 66 QVTTASAVILVLGDLNAGLAAM 87
>gnl|CDD|235946 PRK07143, PRK07143, hypothetical protein; Provisional.
Length = 279
Score = 25.7 bits (57), Expect = 8.0
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 77 VVILVDNSGSMAGMRNTTAKLV-LHSLLQTFSNNDFINIF--KFNLTV 121
V+++ N ++ +NT K L+S LQT +N F NI FN +
Sbjct: 46 VIVIFKNPENLP--KNTNKKFSDLNSRLQTLANLGFKNIILLDFNEEL 91
>gnl|CDD|219152 pfam06728, PIG-U, GPI transamidase subunit PIG-U. Many eukaryotic
proteins are anchored to the cell surface via
glycosylphosphatidylinositol (GPI), which is
posttranslationally attached to the carboxyl-terminus by
GPI transamidase. The mammalian GPI transamidase is a
complex of at least four subunits, GPI8, GAA1, PIG-S,
and PIG-T. PIG-U is thought to represent a fifth subunit
in this complex and may be involved in the recognition
of either the GPI attachment signal or the lipid portion
of GPI.
Length = 373
Score = 25.7 bits (57), Expect = 9.8
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 93 TTAKLVLHSLLQTFSNNDFINIFKFNLTVDTIVPCLGNY 131
T L+L S L T S + + F LTV + P LG +
Sbjct: 215 TLLALLLLSFLITGSWDFLEATYGFILTVSDLTPNLGLW 253
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
0.323 0.137 0.422
Gapped
Lambda K H
0.267 0.0660 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,012,918
Number of extensions: 605469
Number of successful extensions: 509
Number of sequences better than 10.0: 1
Number of HSP's gapped: 508
Number of HSP's successfully gapped: 39
Length of query: 139
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 52
Effective length of database: 7,078,804
Effective search space: 368097808
Effective search space used: 368097808
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 (22.0 bits)
S2: 54 (24.7 bits)