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)