RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

Searching..................................................done

Query= gi|254780833|ref|YP_003065246.1| hypothetical protein
CLIBASIA_03630 [Candidatus Liberibacter asiaticus str. psy62]
         (371 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 = 63.0 bits (152), Expect = 1e-10
 Identities = 48/176 (27%), Positives = 71/176 (40%), Gaps = 25/176 (14%)

Query: 169 LDMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKIV 228
            D++ +LDVS SM      G +KL  A  +++ ++    S+       R GLVTF S   
Sbjct: 1   ADIVFLLDVSGSM------GGEKLDKAKEALKALVS---SLSASPPGDRVGLVTFGSNAR 51

Query: 229 QTFPLAWGVQH--IQEKINRLIF--GSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYK 284
              PL        + E I+ L    G  T     L  A   +  AK           + +
Sbjct: 52  VVLPLTTDTDKADLLEAIDALKKGLGGGTNIGAALRLALELLKSAK---------RPNAR 102

Query: 285 KYIIFLTDGENSSPNIDNKESLFYCNEAKRRGAIVYAIGVQAEAADQFLKNCASPD 340
           + II LTDGE +       E+     E ++ G  VY IG+  +A +  LK  A   
Sbjct: 103 RVIILLTDGEPNDGPELLAEAA---RELRKLGITVYTIGIGDDANEDELKEIADKT 155


>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 = 55.0 bits (132), Expect = 3e-08
 Identities = 35/182 (19%), Positives = 71/182 (39%), Gaps = 28/182 (15%)

Query: 169 LDMMMVLDVSLSM-NDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKI 227
           LD++ +LD S S+  ++F           +    +  +++ +    +  R GLV +S  +
Sbjct: 1   LDIVFLLDGSESVGPENF----------EKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDV 50

Query: 228 VQTFPLA--WGVQHIQEKINRL--IFGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDY 283
              F L        + + +  L  + G  T +   L+YA  ++F             ++ 
Sbjct: 51  RVEFSLNDYKSKDDLLKAVKNLKYLGGGGTNTGKALQYALEQLFSESNA-------RENV 103

Query: 284 KKYIIFLTDGENSSPNIDNKESLFYCNEAKRRGAIVYAIGVQAEAADQF--LKNCASPDR 341
            K II LTDG +       + +     + K  G  V+ +GV     ++   + +C S   
Sbjct: 104 PKVIIVLTDGRSDDGGDPKEAAA----KLKDEGIKVFVVGVGPADEEELREIASCPSERH 159

Query: 342 FY 343
            +
Sbjct: 160 VF 161


>gnl|CDD|143873 pfam00092, VWA, von Willebrand factor type A domain. 
          Length = 177

 Score = 54.3 bits (131), Expect = 5e-08
 Identities = 38/195 (19%), Positives = 76/195 (38%), Gaps = 30/195 (15%)

Query: 170 DMMMVLDVSLSM-NDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKIV 228
           D++ +LD S S+   +F           +    +  +++++    +  R GLV +SS + 
Sbjct: 1   DIVFLLDGSGSIGEANF----------EKVKEFIKKLVENLDIGPDGTRVGLVQYSSDVT 50

Query: 229 QTFPL--AWGVQHIQEKINRLI--FGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYK 284
             F L        +   + R I   G  T +   L+YA   +F +            +  
Sbjct: 51  TEFSLNDYKSKDDLLSAVLRNIYYLGGGTNTGKALKYALENLFRSAG-------SRPNAP 103

Query: 285 KYIIFLTDGENSSPNIDNKESLFYCNEAKRRGAIVYAIGVQAEAADQFLK----NCASPD 340
           K +I LTDG+++   +    +       ++ G IV+ +GV  +  ++ L+       S  
Sbjct: 104 KVVILLTDGKSNDGGLVPAAAA---ALRRKVGIIVFGVGV-GDVDEEELRLIASEPCSEG 159

Query: 341 RFYSVQNSRKLHDAF 355
             + V +   L D  
Sbjct: 160 HVFYVTDFDALSDIQ 174


>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 = 47.6 bits (113), Expect = 5e-06
 Identities = 42/188 (22%), Positives = 72/188 (38%), Gaps = 32/188 (17%)

Query: 168 GLDMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIPD--VNNVVRSGLVTFSS 225
             D+  VLD S S+  ++               E+ D ++ + D   +  +R   +TFS+
Sbjct: 4   HFDLYFVLDKSGSVAANW--------------IEIYDFVEQLVDRFNSPGLRFSFITFST 49

Query: 226 KIVQTFPLAWGVQHIQ---EKINRLIFGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDD 282
           +  +  PL      I    E + ++     T    GLE A  +IF+          G  +
Sbjct: 50  RATKILPLTDDSSAIIKGLEVLKKVTPSGQTYIHEGLENANEQIFNRN-------GGGRE 102

Query: 283 YKKYIIFLTDGENSS--PNIDNKESLFYCNEAKRRGAIVYAIGVQAEAADQFLKNCASPD 340
               II LTDG+           E+      +++ GAIVY +GV      Q +    S +
Sbjct: 103 TVSVIIALTDGQLLLNGHKYPEHEA----KLSRKLGAIVYCVGVTDFLKSQLINIADSKE 158

Query: 341 RFYSVQNS 348
             + V + 
Sbjct: 159 YVFPVTSG 166


>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 = 47.5 bits (113), Expect = 6e-06
 Identities = 45/197 (22%), Positives = 76/197 (38%), Gaps = 24/197 (12%)

Query: 168 GLDMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKI 227
           G D+M+ LDVS SM         +L  A   + + +D  +   D     R GLV F+   
Sbjct: 2   GRDIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFID--RREND-----RIGLVVFAGAA 54

Query: 228 VQTFPLAWGVQHIQEKINRLIFGSTTKSTP---GLEYAYNKIFDAKEKLEHIAKGHDDYK 284
               PL    + ++E +  +  G   + T     +  A  ++ +++ K           +
Sbjct: 55  FTQAPLTLDRESLKELLEDIKIGLAGQGTAIGDAIGLAIKRLKNSEAK-----------E 103

Query: 285 KYIIFLTDGENSSPNIDNKESLFYCNEAKRRGAIVYAIGVQAEAADQFLKNCASPDRFYS 344
           + I+ LTDGEN++  ID   +      AK +G  +Y IGV    +          D    
Sbjct: 104 RVIVLLTDGENNAGEIDPATA---AELAKNKGVRIYTIGVGKSGSGPKPDGSTILDEDSL 160

Query: 345 VQNSRKLHDAFLRIGKE 361
           V+ + K      R    
Sbjct: 161 VEIADKTGGRIFRALDG 177


>gnl|CDD|33968 COG4245, TerY, Uncharacterized protein encoded in toxicity
           protection region of plasmid R478, contains von
           Willebrand factor (vWF) domain [General function
           prediction only].
          Length = 207

 Score = 46.5 bits (110), Expect = 1e-05
 Identities = 41/162 (25%), Positives = 61/162 (37%), Gaps = 14/162 (8%)

Query: 169 LDMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKIV 228
           L   ++LD S SM    G  ++ L      ++ M+D +K  P     V   +VTF     
Sbjct: 4   LPCYLLLDTSGSMI---GEPIEALNAG---LQMMIDTLKQDPYALERVELSIVTFGGPAR 57

Query: 229 QTFPLAWGVQHIQEKINRLIFGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYKKYII 288
              P              L     T     L  A + I + K K +   KG  DY+ ++ 
Sbjct: 58  VIQPF---TDAANFNPPILTAQGGTPLGAALTLALDMIEERKRKYDANGKG--DYRPWVF 112

Query: 289 FLTDGENSSPNIDNKESLFYCNEAKRRGAIVYAIGVQAEAAD 330
            +TDGE   P  D +       + +RR   V A  V  + AD
Sbjct: 113 LITDGE---PTDDWQAGAALVFQGERRAKSVAAFSVGVQGAD 151


>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 = 45.8 bits (108), Expect = 2e-05
 Identities = 38/169 (22%), Positives = 60/169 (35%), Gaps = 18/169 (10%)

Query: 171 MMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKIVQT 230
           + +VLD S SM +  G G  +L  A  ++ E  +    +PD   +   GL TFS      
Sbjct: 23  VAIVLDNSGSMREVDGGGETRLDNAKAALDETANA---LPDGTRL---GLWTFSGD--GD 74

Query: 231 FPLAWGVQHIQEKINRLIFGSTTKSTPGLEYAYNKIFD-------AKEKLEHIAKGHDDY 283
            PL   V   +  +   + G  +     L+ A N +         A    E  A      
Sbjct: 75  NPLDVRVLVPKGCLTAPVNGFPSAQRSALDAALNSLQTPTGWTPLAAALAEAAAYVDPGR 134

Query: 284 KKYIIFLTDGENSSPNID---NKESLFYCNEAKRRGAIVYAIGVQAEAA 329
              ++ +TDGE++         +E       A      V   G  A+ A
Sbjct: 135 VNVVVLITDGEDTCGPDPCEVARELAKRRTPAPPIKVNVIDFGGDADRA 183


>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 = 42.2 bits (99), Expect = 2e-04
 Identities = 37/162 (22%), Positives = 61/162 (37%), Gaps = 14/162 (8%)

Query: 173 MVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKIVQTFP 232
           ++LD S SM    G  ++ L      ++ +   ++  P     V   ++TF S      P
Sbjct: 8   LLLDTSGSMA---GEPIEALNQG---LQMLQSELRQDPYALESVEISVITFDSAARVIVP 61

Query: 233 LAWGVQHIQEKINRLIFGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYKKYIIFLTD 292
           L         +  RL     T     LE A + I   +    + A    D++ ++  LTD
Sbjct: 62  L---TPLESFQPPRLTASGGTSMGAALELALDCI--DRRVQRYRADQKGDWRPWVFLLTD 116

Query: 293 GENSSPNIDNKESLFYCNEAKRRGAIVYAIGVQAEAADQFLK 334
           GE   P  D   ++    EA+     + A  V  +A    LK
Sbjct: 117 GE---PTDDLTAAIERIKEARDSKGRIVACAVGPKADLDTLK 155


>gnl|CDD|29248 cd01475, vWA_Matrilin, VWA_Matrilin: In cartilaginous plate,
           extracellular matrix molecules mediate cell-matrix and
           matrix-matrix interactions thereby providing tissue
           integrity. Some members of the matrilin family are
           expressed specifically in developing cartilage
           rudiments. The matrilin family consists of at least four
           members. All the members of the matrilin family contain
           VWA domains, EGF-like domains and a heptad repeat
           coiled-coiled domain at the carboxy terminus which is
           responsible for the oligomerization of the matrilins.
           The VWA domains have been shown to be essential for
           matrilin network formation by interacting with matrix
           ligands..
          Length = 224

 Score = 39.9 bits (93), Expect = 0.001
 Identities = 38/159 (23%), Positives = 65/159 (40%), Gaps = 26/159 (16%)

Query: 195 ATRSIRE---------MLDIIKSIPDVNNVVRSGLVTFSSKIVQTFPLAWGVQHIQEKIN 245
           ++RS+R          +  II S+    +  R GLV +SS + Q FPL  G    +  + 
Sbjct: 11  SSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEFPL--GRFKSKADLK 68

Query: 246 RLI-----FGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYKKYIIFLTDGENSSPNI 300
           R +       + T +   ++YA N  F   E       G +   +  I +TDG       
Sbjct: 69  RAVRRMEYLETGTMTGLAIQYAMNNAFSEAEGAR---PGSERVPRVGIVVTDGRPQDDVS 125

Query: 301 DNKESLFYCNEAKRRGAIVYAIGVQAEAADQFLKNCASP 339
           +         +A+  G  ++A+GV   A ++ L+  AS 
Sbjct: 126 E------VAAKARALGIEMFAVGVG-RADEEELREIASE 157


>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 = 39.0 bits (91), Expect = 0.002
 Identities = 31/160 (19%), Positives = 66/160 (41%), Gaps = 28/160 (17%)

Query: 170 DMMMVLDVSLSM-NDHFGPGMDKLGVATRSIREML-DIIKSIPDVNNVVRSGLVTFSSKI 227
           D++ ++D S S+   +F             +++ +  +++ +    + VR G+V +S   
Sbjct: 2   DIVFLVDGSESIGLSNF-----------NLVKDFVKRVVERLDIGPDGVRVGVVQYSDDP 50

Query: 228 VQTFPLAW--GVQHIQEKINRL-IFGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYK 284
              F L        + E +  L   G  T +   L+Y    +F         +   +   
Sbjct: 51  RTEFYLNTYRSKDDVLEAVKNLRYIGGGTNTGKALKYVRENLF------TEASGSREGVP 104

Query: 285 KYIIFLTDGENSSPNIDNKESLFYCNEAKRRGAIVYAIGV 324
           K ++ +TDG+  S +   + ++    E K+ G  V+A+GV
Sbjct: 105 KVLVVITDGK--SQDDVEEPAV----ELKQAGIEVFAVGV 138


>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 = 37.2 bits (86), Expect = 0.007
 Identities = 32/129 (24%), Positives = 57/129 (44%), Gaps = 15/129 (11%)

Query: 170 DMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIK-----SIPDVNNVVRSGLVTFS 224
           D++++LDVS SM+   G  +D   +A +++ E+LD +      +I   N+ V      F+
Sbjct: 227 DIVILLDVSGSMS---GLRLD---LAKQTVNEILDTLSDNDFVNILTFNSEVNPVSPCFN 280

Query: 225 SKIVQTFPLAWGVQHIQEKINRLIFGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYK 284
             +VQ        +  +E I  L        T  LEYA++ + D  +             
Sbjct: 281 GTLVQATMR--NKKVFKEAIETLDAKGIANYTAALEYAFSLLRDYNDSR--ANTQRSPCN 336

Query: 285 KYIIFLTDG 293
           + I+ +TDG
Sbjct: 337 QAIMLITDG 345


>gnl|CDD|34274 COG4655, COG4655, Predicted membrane protein [Function unknown].
          Length = 565

 Score = 35.4 bits (81), Expect = 0.027
 Identities = 9/54 (16%), Positives = 28/54 (51%)

Query: 14 KGSISILTAILLPVIFIVMGLVIETSHKFFVKAKLHYILDHSLLYTATKILNQE 67
          +  + +LTA+ +P+    + L ++  + +  + +L  + D + +  A+ + + E
Sbjct: 9  RSMVGVLTALFVPLALATLLLGVDYGYLYLEQRELQRVADLAAIAAASNLDDAE 62


>gnl|CDD|143482 cd00622, PLPDE_III_ODC, Type III Pyridoxal 5-phosphate
           (PLP)-Dependent Enzyme Ornithine Decarboxylase.  This
           subfamily is composed mainly of eukaryotic ornithine
           decarboxylases (ODC, EC 4.1.1.17) and ODC-like enzymes
           from prokaryotes represented by Vibrio vulnificus
           LysineOrnithine decarboxylase. These are fold type III
           PLP-dependent enzymes that differ from most bacterial
           ODCs which are fold type I PLP-dependent enzymes. ODC
           participates in the formation of putrescine by
           catalyzing the decarboxylation of ornithine, the first
           step in polyamine biosynthesis. Members of this
           subfamily contain an N-terminal PLP-binding TIM-barrel
           domain and a C-terminal beta-sandwich domain, similar to
           bacterial alanine racemases. They exist as homodimers
           with active sites that lie at the interface between the
           TIM barrel domain of one subunit and the beta-sandwich
           domain of the other subunit. Homodimer formation and the
           presence of the PLP cofactor are required for catalytic
           activity. Also members of this subfamily are proteins
           with homology to ODC but do not possess any catalytic
           activity, the Antizyme inhibitor (AZI) and ODC-paralogue
           (ODC-p). AZI binds to the regulatory protein Antizyme
           with a higher affinity than ODC and prevents ODC
           degradation. ODC-p is a novel ODC-like protein, present
           only in mammals, that is specifically exressed in the
           brain and testes. ODC-p may function as a
           tissue-specific antizyme inhibitory protein.
          Length = 362

 Score = 34.4 bits (80), Expect = 0.046
 Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 5/56 (8%)

Query: 246 RLIFGSTTKSTPGLEYAYNK-----IFDAKEKLEHIAKGHDDYKKYIIFLTDGENS 296
           R+IF +  KS   + YA         FD++++LE IAK     K  +   TD   +
Sbjct: 71  RIIFANPCKSISDIRYAAELGVRLFTFDSEDELEKIAKHAPGAKLLLRIATDDSGA 126


>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 = 34.5 bits (79), Expect = 0.055
 Identities = 26/133 (19%), Positives = 49/133 (36%), Gaps = 28/133 (21%)

Query: 169 LDMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKIV 228
           LD++ VLD S S+   F           +  + +  I++ +       R  L+T+S +  
Sbjct: 1   LDLLFVLDSSGSVRGKF----------EKYKKYIERIVEGLEIGPTATRVALITYSGRGR 50

Query: 229 QTFPLAWGVQHIQEKINRLI-----FGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGH--- 280
           Q         +  E++   +      G TT +   +E A          L+ +       
Sbjct: 51  QRVRFNLPKHNDGEELLEKVDNLRFIGGTTATGAAIEVA----------LQQLDPSEGRR 100

Query: 281 DDYKKYIIFLTDG 293
           +   K ++ LTDG
Sbjct: 101 EGIPKVVVVLTDG 113


>gnl|CDD|34193 COG4548, NorD, Nitric oxide reductase activation protein [Inorganic
           ion transport and metabolism].
          Length = 637

 Score = 30.3 bits (68), Expect = 0.86
 Identities = 35/215 (16%), Positives = 74/215 (34%), Gaps = 37/215 (17%)

Query: 165 SDIGLDMMMVLDVSLSMNDHFGP---GMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLV 221
           S   L   +++DVS S +         +D    A   +      +    D+         
Sbjct: 443 SAHDLAFTLLVDVSASTDAKMDETRRVIDLFHEALLVLAHGHQALGDSEDIL-------- 494

Query: 222 TFSSK-----IVQTFPLAWGVQHIQEKINRLIFGSTTKSTPGLEYAYNKIFDAKEKLEHI 276
            F+S+      + T      V+   E +   +        PG    Y +   A       
Sbjct: 495 DFTSRRRPWVRINT------VKDFDESMGETVGPRIMALEPGY---YTRDGAAIRHASAK 545

Query: 277 AKGHDDYKKYIIFLTDGENSSPN--------IDNKESLFYCNEAKRRGAIVYAIGVQAEA 328
                  +K +I L+DG+ +  +         D +E++    EA++ G  V+ + +  EA
Sbjct: 546 LMERPQRQKLLIVLSDGKPNDFDHYEGRFGIEDTREAV---IEARKSGIEVFNVTLDREA 602

Query: 329 ADQFLKNCASPDRFYSVQNSRKLHDAFLRIGKEMV 363
              +L      + +  V+   +L  A   + ++++
Sbjct: 603 IS-YLPALFGQNGYAFVERVAQLPGALPPLYRKLL 636


>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 = 29.9 bits (67), Expect = 1.2
 Identities = 28/138 (20%), Positives = 59/138 (42%), Gaps = 23/138 (16%)

Query: 170 DMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIK-----SIPDVNNVVRSGLVTFS 224
           D++++LDVS SM    G  +    +A +++  +LD +      +I   +N V   +  F+
Sbjct: 15  DIVILLDVSGSMT---GQRLH---LAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPCFN 68

Query: 225 SKIVQTFPLAWGVQHIQEKINRLIFGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYK 284
             +VQ        + ++E ++ L        T  LE+A++ +    +        H   +
Sbjct: 69  DTLVQATTS--NKKVLKEALDMLEAKGIANYTKALEFAFSLLLKNLQ------SNHSGSR 120

Query: 285 ----KYIIFLTDGENSSP 298
               + I+ +TDG   + 
Sbjct: 121 SQCNQAIMLITDGVPENY 138


>gnl|CDD|29239 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 = 29.5 bits (66), Expect = 1.4
 Identities = 37/132 (28%), Positives = 63/132 (47%), Gaps = 25/132 (18%)

Query: 169 LDMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKIV 228
           +D++ VLDVS SM      G DKL +   ++R +   I S+ D +   R  +VTFS+   
Sbjct: 1   VDLVAVLDVSGSM-----AG-DKLQLVKHALRFV---ISSLGDAD---RLSIVTFSTSAK 48

Query: 229 QTFPL----AWGVQHIQEKINRLIFGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYK 284
           +  PL    A G +  +  ++ L  G  T    GL+ A   + D ++K    +       
Sbjct: 49  RLSPLRRMTAKGKRSAKRVVDGLQAGGGTNVVGGLKKALKVLGDRRQKNPVAS------- 101

Query: 285 KYIIFLTDGENS 296
             I+ L+DG+++
Sbjct: 102 --IMLLSDGQDN 111


>gnl|CDD|143611 cd07587, ML_beta-AS, mammalian-like beta-alanine synthase (beta-AS)
           and similar proteins (class 5 nitrilases).  This
           subgroup includes mammalian-like beta-AS (EC 3.5.1.6,
           also known as beta-ureidopropionase or
           N-carbamoyl-beta-alanine amidohydrolase). This enzyme
           catalyzes the third and final step in the catabolic
           pyrimidine catabolic pathway responsible for the
           degradation of uracil and thymine, the hydrolysis of
           N-carbamyl-beta-alanine and
           N-carbamyl-beta-aminoisobutyrate to the beta-amino
           acids, beta-alanine and beta-aminoisobutyrate
           respectively. This subgroup belongs to a larger
           nitrilase superfamily comprised of nitrile- or
           amide-hydrolyzing enzymes and amide-condensing enzymes,
           which depend on a Glu-Lys-Cys catalytic triad. This
           superfamily has been classified in the literature based
           on global and structure based sequence analysis into
           thirteen different enzyme classes (referred to as 1-13),
           this subgroup corresponds to class 5. Members of this
           superfamily generally form homomeric complexes, the
           basic building block of which is a homodimer. Beta-ASs
           from this subgroup are found in various oligomeric
           states, dimer (human), hexamer (calf liver), decamer
           (Arabidopsis and Zea mays), and in the case of
           Drosophila melanogaster beta-AS, as a homooctamer
           assembled as a left-handed helical turn, with the
           possibility of higher order oligomers formed by adding
           dimers at either end. Rat beta-AS changes its oligomeric
           state (hexamer, trimer, dodecamer) in response to
           allosteric effectors. Eukaryotic Saccharomyces kluyveri
           beta-AS belongs to a different superfamily.
          Length = 363

 Score = 28.5 bits (64), Expect = 2.8
 Identities = 9/14 (64%), Positives = 9/14 (64%), Gaps = 3/14 (21%)

Query: 135 MPFIFCT---FPWC 145
           MPF FCT    PWC
Sbjct: 115 MPFAFCTREKLPWC 128


>gnl|CDD|38652 KOG3442, KOG3442, KOG3442, Uncharacterized conserved protein
           [Function unknown].
          Length = 132

 Score = 28.4 bits (63), Expect = 3.4
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 6/62 (9%)

Query: 237 VQHIQEKINRLIFGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDDYKKYIIFLTDGENS 296
            + I+++   L F    KS  G  Y  +K+F AKE+L+   K     K       +G  +
Sbjct: 73  REEIEKRYEHL-FEVNDKSKGGSFYLQSKVFRAKERLDEELKIELKEKI-----GNGSPA 126

Query: 297 SP 298
            P
Sbjct: 127 KP 128


>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 = 27.8 bits (62), Expect = 4.5
 Identities = 38/177 (21%), Positives = 64/177 (36%), Gaps = 38/177 (21%)

Query: 170 DMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIP--DVNNVVRSGLVTFSSKI 227
           +++ V+D S SM+   G  +++   A      +L  +K +P  D  N++      FS  +
Sbjct: 4   EVVFVIDTSGSMS---GTKIEQTKEA------LLTALKDLPPGDYFNII-----GFSDTV 49

Query: 228 VQTFPL-----AWGVQHIQEKINRLIFGSTTKSTPGLEYAYNKIFDAKEKLEHIAKGHDD 282
            +  P      A  V    E +NRL     T     LE A   +                
Sbjct: 50  EEFSPSSVSATAENVAAAIEYVNRLQALGGTNMNDALEAALELL-----------NSSPG 98

Query: 283 YKKYIIFLTDGENSSPNIDNKESLFY-CNEAKRRGAIVYAIGVQAEAADQFLKNCAS 338
               II LTDGE     + N+  +     EA      ++  G+ ++     L+  A 
Sbjct: 99  SVPQIILLTDGE-----VTNESQILKNVREALSGRIRLFTFGIGSDVNTYLLERLAR 150


>gnl|CDD|32459 COG2304, COG2304, Uncharacterized protein containing a von
           Willebrand factor type A (vWA) domain [General function
           prediction only].
          Length = 399

 Score = 27.6 bits (60), Expect = 6.2
 Identities = 32/172 (18%), Positives = 53/172 (30%), Gaps = 28/172 (16%)

Query: 169 LDMMMVLDVSLSMNDHFGPGMDKLGVATRSIREMLDIIKSIPDVNNVVRSGLVTFSSKIV 228
            ++ + +D S SM    G  ++    A   +   L         N      +VTF+    
Sbjct: 38  ANLTLAIDTSGSMT---GALLELAKSAAIELVNGL---------NPGDLLSIVTFAGSAD 85

Query: 229 QTFPLAWGVQHIQEKINRLIFGST-----TKSTPGLEYAYNKIFDAKEKLEHIAKGHDDY 283
              P        +E I   I  S      T     L  A      A  +           
Sbjct: 86  VLIPP--TGATNKESITAAIDQSLQAGGATAVEASLSLAVELAAKALPR---------GT 134

Query: 284 KKYIIFLTDGENSSPNIDNKESLFYCNEAKRRGAIVYAIGVQAEAADQFLKN 335
              I+ LTDGEN+   +D          A  +G ++  +G+  +  +  L  
Sbjct: 135 LNRILLLTDGENNLGLVDPSRLSALAKLAAGKGIVLDTLGLGDDVNEDELTG 186


  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
   0.321    0.137    0.398 

Gapped
Lambda     K      H
   0.267   0.0714    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,395,659
Number of extensions: 229699
Number of successful extensions: 622
Number of sequences better than 10.0: 1
Number of HSP's gapped: 609
Number of HSP's successfully gapped: 26
Length of query: 371
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 276
Effective length of database: 4,210,882
Effective search space: 1162203432
Effective search space used: 1162203432
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 (21.9 bits)
S2: 58 (26.1 bits)