RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780934|ref|YP_003065347.1| hypothetical protein
CLIBASIA_04165 [Candidatus Liberibacter asiaticus str. psy62]
(374 letters)
>gnl|CDD|29222 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 = 64.5 bits (156), Expect = 4e-11
Identities = 45/175 (25%), Positives = 69/175 (39%), Gaps = 23/175 (13%)
Query: 172 LDMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIE 231
D++ +LDVS SM K+D A +++ A++ + P + V GLVTF +
Sbjct: 1 ADIVFLLDVSGSMGG------EKLDKAKEALKALVSSLSASPPGDRV---GLVTFGSNAR 51
Query: 232 EFFLLEWGVSH--LQRKIKYLSK-FGVSTNSTPGLKYAYNQIFDMQGMRQHCNTEDANYK 288
L L I L K G TN L+ A + + N +
Sbjct: 52 VVLPLTTDTDKADLLEAIDALKKGLGGGTNIGAALRLALELLKS---------AKRPNAR 102
Query: 289 KIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGIRVIRSHEFLRACASPN 343
++I+ +TDGE E E +K G VY IGI + + L+ A
Sbjct: 103 RVIILLTDGEPNDGPELLAEAA--RELRKLGITVYTIGIGDDANEDELKEIADKT 155
>gnl|CDD|143873 pfam00092, VWA, von Willebrand factor type A domain.
Length = 177
Score = 63.6 bits (155), Expect = 9e-11
Identities = 47/199 (23%), Positives = 81/199 (40%), Gaps = 32/199 (16%)
Query: 173 DMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIEE 232
D++ +LD S S+ + + I ++E + + PD V GLV +S+ +
Sbjct: 1 DIVFLLDGSGSI------GEANFEKVKEFIKKLVENLDIGPDGTRV---GLVQYSSDVTT 51
Query: 233 FFLL----EWG--VSHLQRKIKYLSKFGVSTNSTPGLKYAYNQIFDMQGMRQHCNTEDAN 286
F L +S + R I YL TN+ LKYA +F G R N
Sbjct: 52 EFSLNDYKSKDDLLSAVLRNIYYLGG---GTNTGKALKYALENLFRSAGSRP-------N 101
Query: 287 YKKIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGIRVIRSHEFLRACASPNS-- 344
K+++ +TDG++ + +K G IV+ +G+ + E LR AS
Sbjct: 102 APKVVILLTDGKSNDGGLVPAAAA--ALRRKVGIIVFGVGVGDV-DEEELRLIASEPCSE 158
Query: 345 --FYLVENPHSMYDAFSHI 361
+ V + ++ D +
Sbjct: 159 GHVFYVTDFDALSDIQEEL 177
>gnl|CDD|29223 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 = 52.7 bits (126), Expect = 2e-07
Identities = 41/180 (22%), Positives = 76/180 (42%), Gaps = 22/180 (12%)
Query: 172 LDMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIE 231
LD++ +LD S S+ + I ++E++ + PD V GLV +S+ +
Sbjct: 1 LDIVFLLDGSESV------GPENFEKVKDFIEKLVEKLDIGPDKTRV---GLVQYSDDVR 51
Query: 232 EFFLL--EWGVSHLQRKIKYLSKF-GVSTNSTPGLKYAYNQIFDMQGMRQHCNTEDANYK 288
F L L + +K L G TN+ L+YA Q+F R+ N
Sbjct: 52 VEFSLNDYKSKDDLLKAVKNLKYLGGGGTNTGKALQYALEQLFSESNARE-------NVP 104
Query: 289 KIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGIRVIRSHEFLRACASPNSFYLV 348
K+I+ +TDG + + +++ + K G V+ +G+ E + P+ ++
Sbjct: 105 KVIIVLTDGRSDDGGDPKEAA---AKLKDEGIKVFVVGVGPADEEELREIASCPSERHVF 161
>gnl|CDD|29244 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 = 49.1 bits (117), Expect = 2e-06
Identities = 43/189 (22%), Positives = 79/189 (41%), Gaps = 31/189 (16%)
Query: 172 LDMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIE 231
LD+ +++D S S+ + + ++ ++ + + PD N+ LVTFS +
Sbjct: 1 LDLYLLVDGSGSI-----GYSNWVTHVVPFLHTFVQNLNISPDEINL---YLVTFSTNAK 52
Query: 232 EFFLLEWGVS-------HLQRKIKYLSKFGVSTNSTPGLKYAYNQIFDMQGMRQHCNTED 284
E L S + R + L STN+T L +FD +G R++
Sbjct: 53 ELIRLSSPNSTNKDLALNAIRALLSLYYPNGSTNTTSALLVVEKHLFDTRGNRENAP--- 109
Query: 285 ANYKKIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGIRVIRSHEFLRACA---- 340
++++ MTDG ++L + ++RG I+ +G+ +HE R+
Sbjct: 110 ----QLVIIMTDGI---PDSKFRTLKEARKLRERGVIIAVLGVGQGVNHEENRSLVGCDP 162
Query: 341 --SPNSFYL 347
SP YL
Sbjct: 163 DDSPCPLYL 171
>gnl|CDD|29229 cd01456, vWA_ywmD_type, VWA ywmD 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. Not much is known about the function of the
members of this subgroup. All members of this subgroup
however have a conserved MIDAS motif. .
Length = 206
Score = 43.9 bits (103), Expect = 8e-05
Identities = 38/185 (20%), Positives = 65/185 (35%), Gaps = 19/185 (10%)
Query: 154 IVMPITSSVKVNSQTDARLDMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIP 213
+ P + V ++ ++ IVLD S SM T++D A +++ +P
Sbjct: 3 LGSPAFALEPVETEPQLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETAN---ALP 59
Query: 214 DVNNVVQSGLVTFSNKIEEFFLLEWGVSHLQRKIKYLSKFGVSTNSTPGLKYAYNQIFDM 273
D + GL TFS + L+ V + + G + L A N +
Sbjct: 60 DGTRL---GLWTFSGDGDN--PLDVRVLVPKGCLTA-PVNGFPSAQRSALDAALNSLQTP 113
Query: 274 QG---MRQHCNTEDANYKK----IIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIG 326
G + A ++V +TDGE+ + + E KR I
Sbjct: 114 TGWTPLAAALAEAAAYVDPGRVNVVVLITDGEDTCGPDPCEVA---RELAKRRTPAPPIK 170
Query: 327 IRVIR 331
+ VI
Sbjct: 171 VNVID 175
>gnl|CDD|29249 cd01476, VWA_integrin_invertebrates, VWA_integrin (invertebrates):
Integrins are a family of cell surface receptors that
have diverse functions in cell-cell and
cell-extracellular matrix interactions. Because of their
involvement in many biologically important adhesion
processes, integrins are conserved across a wide range
of multicellular animals. Integrins from invertebrates
have been identified from six phyla. There are no data
to date to suggest any immunological functions for the
invertebrate integrins. The members of this sub-group
have the conserved MIDAS motif that is charateristic of
this domain suggesting the involvement of the integrins
in the recognition and binding of multi-ligands..
Length = 163
Score = 43.7 bits (103), Expect = 8e-05
Identities = 30/130 (23%), Positives = 54/130 (41%), Gaps = 21/130 (16%)
Query: 172 LDMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIE 231
LD++ VLD S S+ F+ K I ++E +++ P V L+T+S +
Sbjct: 1 LDLLFVLDSSGSVRGKFEKY-------KKYIERIVEGLEIGPTATRV---ALITYSGRGR 50
Query: 232 EFFLLEWGVS----HLQRKIKYLSKFGVSTNSTPGLKYAYNQIFDMQGMRQHCNTEDANY 287
+ L K+ L G +T + ++ A Q+ +G R+
Sbjct: 51 QRVRFNLPKHNDGEELLEKVDNLRFIGGTTATGAAIEVALQQLDPSEGRRE-------GI 103
Query: 288 KKIIVFMTDG 297
K++V +TDG
Sbjct: 104 PKVVVVLTDG 113
>gnl|CDD|29242 cd01469, vWA_integrins_alpha_subunit, Integrins are a class of
adhesion receptors that link the extracellular matrix to
the cytoskeleton and cooperate with growth factor
receptors to promote celll survival, cell cycle
progression and cell migration. Integrins consist of an
alpha and a beta sub-unit. Each sub-unit has a large
extracellular portion, a single transmembrane segment
and a short cytoplasmic domain. The N-terminal domains
of the alpha and beta subunits associate to form the
integrin headpiece, which contains the ligand binding
site, whereas the C-terminal segments traverse the
plasma membrane and mediate interaction with the
cytoskeleton and with signalling proteins.The VWA
domains present in the alpha subunits of integrins seem
to be a chordate specific radiation of the gene family
being found only in vertebrates. They mediate
protein-protein interactions..
Length = 177
Score = 40.2 bits (94), Expect = 9e-04
Identities = 36/159 (22%), Positives = 71/159 (44%), Gaps = 22/159 (13%)
Query: 172 LDMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIE 231
+D++ VLD S S+ ++ +++++ + P GLV +S
Sbjct: 1 MDIVFVLDGSGSIYP------DDFQKVKNFLSTVMKKLDIGPTKTQF---GLVQYSESFR 51
Query: 232 -EFFLLEW-GVSHLQRKIKYLSKFGVSTNSTPGLKYAYNQIFDMQ-GMRQHCNTEDANYK 288
EF L E+ +K++S+ TN+ ++Y ++F G R+ +
Sbjct: 52 TEFTLNEYRTKEEPLSLVKHISQLLGLTNTATAIQYVVTELFSESNGARK-------DAT 104
Query: 289 KIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGI 327
K++V +TDGE+ + + +A++ G I YAIG+
Sbjct: 105 KVLVVITDGESHDDPLLKDVI---PQAEREGIIRYAIGV 140
>gnl|CDD|29245 cd01472, vWA_collagen, von Willebrand factor (vWF) type A domain;
equivalent to the I-domain of integrins. This domain
has a variety of functions including: intermolecular
adhesion, cell migration, signalling, transcription, and
DNA repair. In integrins these domains form heterodimers
while in vWF it forms homodimers and multimers. There
are different interaction surfaces of this domain as
seen by its complexes with collagen with either integrin
or human vWFA. In integrins collagen binding occurs via
the metal ion-dependent adhesion site (MIDAS) and
involves three surface loops located on the upper
surface of the molecule. In human vWFA, collagen binding
is thought to occur on the bottom of the molecule and
does not involve the vestigial MIDAS motif..
Length = 164
Score = 40.2 bits (94), Expect = 0.001
Identities = 39/178 (21%), Positives = 73/178 (41%), Gaps = 26/178 (14%)
Query: 173 DMMIVLDVSRSM-ESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIE 231
D++ ++D S S+ S F+ + ++ ++ + V+ G+V +S+
Sbjct: 2 DIVFLVDGSESIGLSNFNLVKDFVKRVVERLD----------IGPDGVRVGVVQYSDDPR 51
Query: 232 -EFFLLEWG-VSHLQRKIKYLSKFGVSTNSTPGLKYAYNQIF-DMQGMRQHCNTEDANYK 288
EF+L + + +K L G TN+ LKY +F + G R+
Sbjct: 52 TEFYLNTYRSKDDVLEAVKNLRYIGGGTNTGKALKYVRENLFTEASGSRE-------GVP 104
Query: 289 KIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGIRVIRSHEFLRACASPNSFY 346
K++V +TDG K E K+ G V+A+G++ E + + P Y
Sbjct: 105 KVLVVITDG-----KSQDDVEEPAVELKQAGIEVFAVGVKNADEEELKQIASDPKELY 157
>gnl|CDD|37564 KOG2353, KOG2353, KOG2353, L-type voltage-dependent Ca2+ channel,
alpha2/delta subunit [Inorganic ion transport and
metabolism, Signal transduction mechanisms].
Length = 1104
Score = 37.6 bits (87), Expect = 0.006
Identities = 47/215 (21%), Positives = 88/215 (40%), Gaps = 43/215 (20%)
Query: 142 CTFIPWYTNSRHIVMPITSSVKVNSQTDARLDMMIVLDVSRSMESFFDSSITKIDMAIKS 201
C WY + +S K D++I+LDVS SM ++D+A ++
Sbjct: 212 CRNRSWYIQA-------ATSPK---------DIVILLDVSGSMSGL------RLDLAKQT 249
Query: 202 INAMLEEVKLIPDVNNVVQSGLVTFSNK----IEEFF--LLEWGVSHLQ---RKIKYLSK 252
+N +L+ + VN ++TF+++ F L++ + + + I+ L
Sbjct: 250 VNEILDTLSDNDFVN------ILTFNSEVNPVSPCFNGTLVQATMRNKKVFKEAIETLDA 303
Query: 253 FGVSTNSTPGLKYAYNQIFDMQGMRQHCNTEDANYKKIIVFMTDGENLSTKEDQQSLYYC 312
G+ N T L+YA++ + D R + I++ TDG + + KE + +
Sbjct: 304 KGI-ANYTAALEYAFSLLRDYNDSR-ANTQRSPCNQAIMLI-TDGVDENAKEIFEKYNWP 360
Query: 313 NEAKKRGAIVYAIGIRVI-RSHEFLRACASPNSFY 346
+ KK + IG V ACA+ +
Sbjct: 361 D--KKVRVFTFLIGDEVYDLDEIQWMACANKGYYV 393
>gnl|CDD|29234 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 = 37.5 bits (87), Expect = 0.006
Identities = 33/175 (18%), Positives = 66/175 (37%), Gaps = 30/175 (17%)
Query: 173 DMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIEE 232
+++ V+D S SM TKI+ +++ L+ D+ ++ FS+ +EE
Sbjct: 4 EVVFVIDTSGSMSG------TKIEQTKEALLTALK------DLPPGDYFNIIGFSDTVEE 51
Query: 233 FF--LLEWGVSHLQRKIKYLSKFGVS--TNSTPGLKYAYNQIFDMQGMRQHCNTEDANYK 288
F + ++ I+Y+++ TN L+ A + G
Sbjct: 52 FSPSSVSATAENVAAAIEYVNRLQALGGTNMNDALEAALELLNSSPGSVP---------- 101
Query: 289 KIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGIRVIRSHEFLRACASPN 343
I+ +TDGE + + +++ EA ++ GI + L A
Sbjct: 102 -QIILLTDGEVTNESQILKNV---REALSGRIRLFTFGIGSDVNTYLLERLAREG 152
>gnl|CDD|34568 COG4961, TadG, Flp pilus assembly protein TadG [Intracellular
trafficking and secretion].
Length = 185
Score = 37.4 bits (86), Expect = 0.007
Identities = 26/174 (14%), Positives = 51/174 (29%), Gaps = 20/174 (11%)
Query: 8 IRNFFYNYKGGMTILTAIFLPIIFLVLGMIIEVSHIFFMKTVLHSMIDRSLVHAATQIMN 67
+R F + +G + A+ P + L++ I+E F K L + D + AA + +
Sbjct: 12 LRRFRRDRRGAAAVEFALVAPPLLLLVFGIVEFGIAFLAKQSLQNAAD-AAARAAARGLT 70
Query: 68 EGNGNNRKKLKGGDILCRIKNTWNMSF---RNELRDNGFVN---DIDDIVRSTSLDIVVV 121
+ +F ++ G V ++ D + V
Sbjct: 71 TDAADLDTIQAAATAFLN-AIAPANAFLTVQSNTPSRGTVTVTANVADATLFDTSQFTVT 129
Query: 122 PQNEGYSISAISRYKIPLKFCTFIPWYTNS-------RHIVMPITSSVKVNSQT 168
I+ +P T I + T+ V+V
Sbjct: 130 SAVTVS-INLARGL----VLVAVVPDLTGPGTSGSRSATIPVGATTLVRVRIDE 178
>gnl|CDD|34274 COG4655, COG4655, Predicted membrane protein [Function unknown].
Length = 565
Score = 35.4 bits (81), Expect = 0.027
Identities = 10/52 (19%), Positives = 29/52 (55%)
Query: 16 KGGMTILTAIFLPIIFLVLGMIIEVSHIFFMKTVLHSMIDRSLVHAATQIMN 67
+ + +LTA+F+P+ L + ++ +++ + L + D + + AA+ + +
Sbjct: 9 RSMVGVLTALFVPLALATLLLGVDYGYLYLEQRELQRVADLAAIAAASNLDD 60
>gnl|CDD|29237 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 = 35.2 bits (81), Expect = 0.031
Identities = 29/174 (16%), Positives = 60/174 (34%), Gaps = 18/174 (10%)
Query: 170 ARLDMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNK 229
RL + ++LD S SM I ++ + + E++ P V+ ++TF +
Sbjct: 2 RRLPIYLLLDTSGSMAG---EPIEALNQG---LQMLQSELRQDPYALESVEISVITFDSA 55
Query: 230 IEEFFLLEWGVSHLQRKIKYLSKFGVSTNSTPGLKYAYNQIFDMQGMRQHCNTED--ANY 287
L + L+ G ++ + A D R D ++
Sbjct: 56 ARVIVPL---TPLESFQPPRLTASGGTS-----MGAALELALDCIDRRVQRYRADQKGDW 107
Query: 288 KKIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGIRVIRSHEFLRACAS 341
+ + +TDGE T + ++ EA+ + A + + L+
Sbjct: 108 RPWVFLLTDGE--PTDDLTAAIERIKEARDSKGRIVACAVGPKADLDTLKQITE 159
>gnl|CDD|29247 cd01474, vWA_ATR, ATR (Anthrax Toxin Receptor): Anthrax toxin is a
key virulence factor for Bacillus anthracis, the
causative agent of anthrax. ATR is the cellular receptor
for the anthrax protective antigen and facilitates entry
of the toxin into cells. The VWA domain in ATR contains
the toxin binding site and mediates interaction with
protective antigen. The binding is mediated by divalent
cations that binds to the MIDAS motif. These proteins
are a family of vertebrate ECM receptors expressed by
endothelial cells..
Length = 185
Score = 34.9 bits (80), Expect = 0.038
Identities = 35/156 (22%), Positives = 64/156 (41%), Gaps = 13/156 (8%)
Query: 215 VNNVVQSGLVTFSNKIEEFFLLEWGVSHLQRKIKYLSKF--GVSTNSTPGLKYAYNQIFD 272
+ ++ +TFS + + L S + + ++ L K T GL+ A QIF+
Sbjct: 36 NSPGLRFSFITFSTRATKILPLTDDSSAIIKGLEVLKKVTPSGQTYIHEGLENANEQIFN 95
Query: 273 MQGMRQHCNTEDANYKKIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGIRVIRS 332
G + +I+ +TDG+ L + + ++K GAIVY +G+
Sbjct: 96 RNGGGRETV-------SVIIALTDGQLLL-NGHKYPEHEAKLSRKLGAIVYCVGVTDFLK 147
Query: 333 HEFLRACASPNSFYLVENPHSMYDAFSHIGKDIVTK 368
+ + S + V S + A S I + +V K
Sbjct: 148 SQLINIADSKEYVFPVT---SGFQALSGIIESVVKK 180
>gnl|CDD|31907 COG1721, COG1721, Uncharacterized conserved protein (some members
contain a von Willebrand factor type A (vWA) domain)
[General function prediction only].
Length = 416
Score = 34.4 bits (78), Expect = 0.048
Identities = 25/105 (23%), Positives = 42/105 (40%), Gaps = 6/105 (5%)
Query: 167 QTDARLDMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTF 226
+ + +++VLD SRSM F +K + A+ A L L N + GL+ F
Sbjct: 220 EEERGRTVVLVLDASRSM-LFGSGVASKFEEAV-RAAASLAYAAL----KNGDRVGLLIF 273
Query: 227 SNKIEEFFLLEWGVSHLQRKIKYLSKFGVSTNSTPGLKYAYNQIF 271
++ G HL R +K L+ + T ++ F
Sbjct: 274 GGGGPKWIPPSRGRRHLARILKALALLRPAPEETDYIRRVSKLDF 318
>gnl|CDD|112854 pfam04056, Ssl1, Ssl1-like. Ssl1-like proteins are 40kDa subunits
of the Transcription factor II H complex.
Length = 250
Score = 34.3 bits (79), Expect = 0.059
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 4/59 (6%)
Query: 174 MMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIEE 232
+ IVLD SR+ME D ++ IK + +EE D N + Q GL+T +
Sbjct: 55 LYIVLDCSRAMEE-KDLRPSRFACTIKYLETFVEE---FFDQNPISQIGLITCKDGRAH 109
>gnl|CDD|29240 cd01467, vWA_BatA_type, VWA BatA 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 are bacterial in
origin. They are typified by the presence of a MIDAS
motif..
Length = 180
Score = 33.7 bits (77), Expect = 0.090
Identities = 34/159 (21%), Positives = 70/159 (44%), Gaps = 26/159 (16%)
Query: 173 DMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIEE 232
D+MI LDVS SM + ++++ A + ++ ++ + N+ + GLV F+
Sbjct: 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRRE-----NDRI--GLVVFAG--AA 54
Query: 233 FFLLEWGVSH-LQRKIKYLSKFGVSTNSTP---GLKYAYNQIFDMQGMRQHCNTEDANYK 288
F + +++ K G++ T + A ++ + + +
Sbjct: 55 FTQAPLTLDRESLKELLEDIKIGLAGQGTAIGDAIGLAIKRLKNSEAK-----------E 103
Query: 289 KIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGI 327
++IV +TDGEN + + D + AK +G +Y IG+
Sbjct: 104 RVIVLLTDGENNAGEIDPATA--AELAKNKGVRIYTIGV 140
>gnl|CDD|31433 COG1240, ChlD, Mg-chelatase subunit ChlD [Coenzyme metabolism].
Length = 261
Score = 33.0 bits (75), Expect = 0.14
Identities = 29/163 (17%), Positives = 63/163 (38%), Gaps = 24/163 (14%)
Query: 170 ARLDMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNK 229
A ++ V+D S SM + ++ A + ++L + + ++ F
Sbjct: 77 AGNLIVFVVDASGSMAAR-----RRMAAAKGAALSLLRDA-----YQRRDKVAVIAFRG- 125
Query: 230 IEEFFLLEWGVSHLQRKIKYLSKF--GVSTNSTPGLKYAYNQIFDMQGMRQHCNTEDANY 287
E+ LL S ++ + L + G T L+ AY ++ + R +
Sbjct: 126 -EKAELLLPPTSSVELAERALERLPTGGKTPLADALRQAY-EVLAREKRR------GPDR 177
Query: 288 KKIIVFMTDGE-NLSTKED--QQSLYYCNEAKKRGAIVYAIGI 327
+ ++V +TDG N+ ++L ++ + RG + I
Sbjct: 178 RPVMVVITDGRANVPIPLGPKAETLEAASKLRLRGIQLLVIDT 220
>gnl|CDD|36473 KOG1259, KOG1259, KOG1259, Nischarin, modulator of integrin alpha5
subunit action [Signal transduction mechanisms,
Cytoskeleton].
Length = 490
Score = 30.4 bits (68), Expect = 0.92
Identities = 21/89 (23%), Positives = 40/89 (44%), Gaps = 4/89 (4%)
Query: 192 ITKIDMAIKSINAMLEEVKLIPDVN--NVVQSGLVTFSNKIEEFFLLEWGVSHLQRKIKY 249
+T++D++ I + E VKL P + + Q+ + T N E L +S +
Sbjct: 286 LTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSG--NLLAE 343
Query: 250 LSKFGVSTNSTPGLKYAYNQIFDMQGMRQ 278
+ + + LK A N+I + G+R+
Sbjct: 344 CVGWHLKLGNIKTLKLAQNKIETLSGLRK 372
>gnl|CDD|38018 KOG2807, KOG2807, KOG2807, RNA polymerase II transcription
initiation/nucleotide excision repair factor TFIIH,
subunit SSL1 [Transcription, Replication, recombination
and repair].
Length = 378
Score = 30.3 bits (68), Expect = 1.0
Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 4/59 (6%)
Query: 174 MMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIEE 232
+ IV+D SR+ME D ++ IK + + E D N + Q G+++ + +
Sbjct: 63 LYIVIDCSRAMEE-KDFRPSRFANVIKYLEGFVPEFF---DQNPISQIGIISIKDGKAD 117
>gnl|CDD|29226 cd01453, vWA_transcription_factor_IIH_type, Transcription factors
IIH type: TFIIH is a multiprotein complex that is one of
the five general transcription factors that binds RNA
polymerase II holoenzyme. Orthologues of these genes are
found in all completed eukaryotic genomes and all these
proteins contain a VWA domain. The p44 subunit of TFIIH
functions as a DNA helicase in RNA polymerase II
transcription initiation and DNA repair, and its
transcriptional activity is dependent on its C-terminal
Zn-binding domains. The function of the vWA domain is
unclear, but may be involved in complex assembly. The
MIDAS motif is not conserved in this sub-group..
Length = 183
Score = 30.2 bits (68), Expect = 1.0
Identities = 18/59 (30%), Positives = 32/59 (54%), Gaps = 4/59 (6%)
Query: 174 MMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIEE 232
++IV+D SRSME D +++ + +K + +EE D N + Q G+++ N E
Sbjct: 6 LIIVIDCSRSMEE-QDLKPSRLAVVLKLLELFIEEFF---DQNPISQLGIISIKNGRAE 60
>gnl|CDD|39803 KOG4603, KOG4603, KOG4603, TBP-1 interacting protein [Signal
transduction mechanisms].
Length = 201
Score = 29.3 bits (65), Expect = 1.7
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 5/59 (8%)
Query: 272 DMQGMRQHCNTEDANYKKIIVFMTDGENLSTKEDQQSLY-----YCNEAKKRGAIVYAI 325
+MQ Q E A Y++ + + G N T ED++ +Y YC E +KR + I
Sbjct: 120 EMQEEIQELKKEVAGYRERLKNIKAGTNHVTPEDKEQVYREYQKYCKEWRKRKRMFREI 178
>gnl|CDD|29236 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 = 28.7 bits (64), Expect = 2.7
Identities = 28/141 (19%), Positives = 60/141 (42%), Gaps = 24/141 (17%)
Query: 173 DMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIEE 232
D++I+LDVS SM ++ +A ++++++L+ + N ++TFSN++
Sbjct: 15 DIVILLDVSGSMTGQ------RLHLAKQTVSSILDTLSDNDFFN------IITFSNEVNP 62
Query: 233 FF---------LLEWGVSHLQRKIKYLSKFGVSTNSTPGLKYAYNQIFDMQGMRQHCNTE 283
L+ + L G+ N T L++A++ + +
Sbjct: 63 VVPCFNDTLVQATTSNKKVLKEALDMLEAKGI-ANYTKALEFAFSLLLKNLQSN--HSGS 119
Query: 284 DANYKKIIVFMTDGENLSTKE 304
+ + I+ +TDG + KE
Sbjct: 120 RSQCNQAIMLITDGVPENYKE 140
>gnl|CDD|144764 pfam01285, TEA, TEA/ATTS domain family.
Length = 423
Score = 28.2 bits (63), Expect = 3.7
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 342 PNSFYLVENPHSMYDAFSHIGKDIVTK 368
SFY EN S Y+++ ++ K TK
Sbjct: 301 SCSFYGYENGQSQYESYENMTKPCSTK 327
>gnl|CDD|146122 pfam03325, Herpes_PAP, Herpesvirus polymerase accessory protein.
The same proteins are also known as polymerase
processivity factors.
Length = 268
Score = 28.3 bits (63), Expect = 3.8
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 6/52 (11%)
Query: 299 NLSTKEDQQSLYYCNEAKKRGAIVYAIGIRVIRSHEFLRACASPNSFYLVEN 350
N+ K QQ+L C K + +RV+ HE +S N + VEN
Sbjct: 105 NVQLKNLQQALSNCAVTK------LSCTLRVVTDHETKLYVSSKNGLFTVEN 150
>gnl|CDD|36107 KOG0889, KOG0889, KOG0889, Histone acetyltransferase SAGA, TRRAP/TRA1
component, PI-3 kinase superfamily [Signal transduction
mechanisms, Chromatin structure and dynamics,
Replication, recombination and repair, Cell cycle
control, cell division, chromosome partitioning].
Length = 3550
Score = 27.2 bits (60), Expect = 7.2
Identities = 25/132 (18%), Positives = 48/132 (36%), Gaps = 13/132 (9%)
Query: 133 SRYKIPLKFCTFIPWYTNSRHIVMPITSSVKVNSQTDARLDMMIVLDVSRS-MESFFDSS 191
+ L FI + IV+ + ++ Q +AR + LD+ + + +
Sbjct: 1724 IKQSAYLVIAHFIERFQIPPKIVLQVFVALLKTYQPEARAIVKQALDILTPALPARMELG 1783
Query: 192 ITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSNKIEEFFLLEWGVSH--LQRKIKY 249
+KI + +K I ++EE I + +V Q I L + + +
Sbjct: 1784 DSKIPIWVKKI--IVEEGHSISQLLHVYQL--------IVRHSDLFYSSRVRFVTPLVNS 1833
Query: 250 LSKFGVSTNSTP 261
L + G NS
Sbjct: 1834 LPRLGSMPNSNS 1845
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.323 0.137 0.403
Gapped
Lambda K H
0.267 0.0580 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,489,598
Number of extensions: 237510
Number of successful extensions: 681
Number of sequences better than 10.0: 1
Number of HSP's gapped: 671
Number of HSP's successfully gapped: 42
Length of query: 374
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 279
Effective length of database: 4,210,882
Effective search space: 1174836078
Effective search space used: 1174836078
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 58 (26.4 bits)