RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780442|ref|YP_003064855.1| pyruvate kinase [Candidatus
Liberibacter asiaticus str. psy62]
         (480 letters)



>gnl|CDD|30817 COG0469, PykF, Pyruvate kinase [Carbohydrate transport and
           metabolism].
          Length = 477

 Score =  505 bits (1303), Expect = e-144
 Identities = 205/478 (42%), Positives = 315/478 (65%), Gaps = 7/478 (1%)

Query: 1   MVNLRRIKIISTLGPSSFSEDVINRLHEEGTDVFRINMSHTSHDKMCELIKKIRAVELRS 60
              +R+ KI++TLGP++ SE+++ +L E G +V R+N SH  H++  + I  +R    + 
Sbjct: 1   ERMMRKTKIVATLGPATESEEMLEKLIEAGMNVVRLNFSHGDHEEHKKRIDNVREAAEKL 60

Query: 61  RRPIGILIDLQGPKFRVGKFANSKVDLTEGQIFTLDNKDSLGSSD--RVMLPHPEIFASI 118
            RP+ IL+DL+GPK R GKF    V+L +G+ FTL   D +G  D  RV + + ++   +
Sbjct: 61  GRPVAILLDLKGPKIRTGKFKGGAVELEKGEKFTLTTDDKVGEGDEERVSVDYKDLAKDV 120

Query: 119 KIGDRLLIDDGRVKLCVQEKGIGFIKCKVIAGISIADRKGISFPDTFLTTQALTQKDRED 178
           K GDR+L+DDG+++L V E     +  +V+ G  ++  KG++ P   L+  ALT+KD+ED
Sbjct: 121 KPGDRILLDDGKIELRVVEVDGDAVITRVLNGGVLSSNKGVNLPGVDLSLPALTEKDKED 180

Query: 179 LHAALQTCEVDWVALSFIQSADDLLEIRKIISQN---KIGLMSKIEKPRAIEYASEIIQL 235
           L   L+   VD+VALSF+++A+D+ E+R+I+++     + +++KIE   A++   EII+ 
Sbjct: 181 LKFGLEQ-GVDFVALSFVRNAEDVEEVREILAETGGRDVKIIAKIENQEAVDNLDEIIEA 239

Query: 236 SDAVMVARGDLGVEMALELIPGIQKKLIRIARQLGKPVVIATQMLESMVTSPFPTRAEVS 295
           SD +MVARGDLGVE+ LE +P IQK++IR AR+ GKPV+ ATQMLESM+ +P PTRAEVS
Sbjct: 240 SDGIMVARGDLGVEIPLEEVPIIQKRIIRKARRAGKPVITATQMLESMIENPRPTRAEVS 299

Query: 296 DVATAVFEEADAIMLSAETASGSYPVDAVRTMSLVASSAERDSSWLEMRSLRRIEPNETG 355
           DVA AV +  DA+MLS ETA+G YPV+AV TM+ +A  AE++    ++   R   P+ + 
Sbjct: 300 DVANAVLDGTDAVMLSGETAAGKYPVEAVATMARIAKEAEKELPDNQLLRFRVDPPDSSI 359

Query: 356 ADVISSAARQIAETLRLSAIFCYTASGATGLRAARERPKLEIIALSPMIQTARRLALVWG 415
            + I+ AA  IAE L   AI   T SG T    ++ RP+  IIAL+P  + ARRLALVWG
Sbjct: 360 TEAIALAAVDIAEKLDAKAIVTLTESGRTARLLSKYRPEAPIIALTPNERVARRLALVWG 419

Query: 416 IHCVVTE-DASDSDDMVNRACRIVVEQGFGKPGDRIIISAGLPLGTPGSTNMLRIAYI 472
           ++ ++ E   + +D+MV  A   ++E G  K GD ++I+AG+P+GT G+TN +++  +
Sbjct: 420 VYPLLVEEKPTSTDEMVEEAVEKLLESGLVKKGDLVVITAGVPMGTVGTTNTIKVLTV 477


>gnl|CDD|29370 cd00288, Pyruvate_Kinase, Pyruvate kinase (PK):  Large allosteric
           enzyme that regulates glycolysis through binding of the
           substrate, phosphoenolpyruvate, and one or more
           allosteric effectors.  Like other allosteric enzymes, PK
           has a high substrate affinity R state and a low affinity
           T state.  PK exists as several different isozymes,
           depending on organism and tissue type.  In mammals,
           there are four PK isozymes: R, found in red blood cells,
           L, found in liver, M1, found in skeletal muscle, and M2,
           found in kidney, adipose tissue, and lung.  PK forms a
           homotetramer, with each subunit containing three
           domains.  The T state to R state transition of PK is
           more complex than in most allosteric enzymes, involving
           a concerted rotation of all 3 domains of each monomer in
           the homotetramer..
          Length = 480

 Score =  375 bits (964), Expect = e-104
 Identities = 174/482 (36%), Positives = 273/482 (56%), Gaps = 15/482 (3%)

Query: 4   LRRIKIISTLGPSSFSEDVINRLHEEGTDVFRINMSHTSHDKMCELIKKIRAVELRSRRP 63
           LRR KI+ T+GP++ S + + +L + G +V R+N SH SH+     I  +R    ++  P
Sbjct: 1   LRRTKIVCTIGPATDSVENLKKLIKAGMNVARMNFSHGSHEYHQSRIDNVREAAEKTGGP 60

Query: 64  IGILIDLQGPKFRVGKFAN-SKVDLTEGQ--IFTLDNKDSLGSSDRVMLPHPEIFASIKI 120
           + I +D +GP+ R G F     + L  G   + T D     G+ +++ + +  +   +  
Sbjct: 61  VAIALDTKGPEIRTGLFKGGKDISLKAGDKFLVTTDPAAKKGTKEKIYVDYKNLTKDVSP 120

Query: 121 GDRLLIDDGRVKLCVQEK-GIGFIKCKVIAGISIADRKGISFPDTFLTTQALTQKDREDL 179
           G+ +L+DDG + L V  K     + C+V+ G  +  RKG++ P T +   AL++KD+ DL
Sbjct: 121 GNTILVDDGLLSLKVLSKDDDKTLVCEVLNGGVLGSRKGVNLPGTDVDLPALSEKDKADL 180

Query: 180 HAALQTCEVDWVALSFIQSADDLLEIRKIISQN--KIGLMSKIEKPRAIEYASEIIQLSD 237
              ++   VD +  SF++ A D+LEIR+++ +    I +++KIE    +    EI++ SD
Sbjct: 181 RFGVEQ-GVDMIFASFVRKASDVLEIREVLGEKGKDIKIIAKIENQEGVNNFDEILEASD 239

Query: 238 AVMVARGDLGVEMALELIPGIQKKLIRIARQLGKPVVIATQMLESMVTSPFPTRAEVSDV 297
            +MVARGDLGVE+  E +   QK LI      GKPV+ ATQMLESM+ +P PTRAEVSDV
Sbjct: 240 GIMVARGDLGVEIPAEEVFLAQKMLIAKCNLAGKPVITATQMLESMIYNPRPTRAEVSDV 299

Query: 298 ATAVFEEADAIMLSAETASGSYPVDAVRTMSLVASSAERD-SSWLEMRSLRRIEPNETGA 356
           A AV +  D +MLS ETA G YPV+AV+ M+ +   AE+  S  +    +RR+ P  T  
Sbjct: 300 ANAVLDGTDCVMLSGETAKGKYPVEAVKAMARICLEAEKALSHRVLFNEMRRLTPRPTST 359

Query: 357 -DVISSAARQIAETLRLSAIFCYTASGATGLRAARERPKLEIIALSPMIQTARRLALVWG 415
            + ++ +A + A  L   AI   T SG T    ++ RP   IIA++   QTAR+L L  G
Sbjct: 360 TEAVAMSAVRAAFELGAKAIVVLTTSGRTARLVSKYRPNAPIIAVTRNEQTARQLHLYRG 419

Query: 416 IHCVVTEDA-----SDSDDMVNRACRIVVEQGFGKPGDRIIISAGLPLGTPGSTNMLRIA 470
           ++ V+ E+       D+D  +  A  +  E+G  K GD +++  G P+G+ GSTN +RI 
Sbjct: 420 VYPVLFEEPKPGWQEDTDARLKAAVNVAKEKGLLKKGDLVVVVQGWPVGS-GSTNTMRIL 478

Query: 471 YI 472
            +
Sbjct: 479 TV 480


>gnl|CDD|143979 pfam00224, PK, Pyruvate kinase, barrel domain.  This domain of the
           is actually a small beta-barrel domain nested within a
           larger TIM barrel. The active site is found in a cleft
           between the two domains.
          Length = 348

 Score =  316 bits (813), Expect = 6e-87
 Identities = 127/340 (37%), Positives = 200/340 (58%), Gaps = 9/340 (2%)

Query: 4   LRRIKIISTLGPSSFSEDVINRLHEEGTDVFRINMSHTSHDKMCELIKKIRAVELRSRRP 63
           LRR KI+ T+GP++ S + + +L + G +V R+N SH SH+     I  +R  E +    
Sbjct: 1   LRRTKIVCTIGPATDSVENLEKLIKAGMNVARMNFSHGSHEYHQSRIDNVREAEEKLGGL 60

Query: 64  IGILIDLQGPKFRVGKFANSKVD--LTEGQIFTLDNKDSLGSS---DRVMLPHPEIFASI 118
           + I +D +GP+ R G F + K D  L  G  F +    +   +   +++ + +  +   +
Sbjct: 61  VAIALDTKGPEIRTGLFKDGKKDIELKAGDKFLVSTDPAYKGAGDKEKIYVDYKNLTKDV 120

Query: 119 KIGDRLLIDDGRVKLCVQEKGIGF-IKCKVIAGISIADRKGISFPDTFLTTQALTQKDRE 177
             G  +L+DDG + L V EK     +  +V+ G  +  RKG++ P T +   AL++KD+ 
Sbjct: 121 SPGGIILVDDGVLSLKVLEKDDDKTLVTEVLNGGVLGSRKGVNLPGTDVDLPALSEKDKA 180

Query: 178 DLHAALQTCEVDWVALSFIQSADDLLEIRKIISQN--KIGLMSKIEKPRAIEYASEIIQL 235
           DL   ++   VD +  SF+++A D+LE+R+++ +    I +++KIE    +    EI++ 
Sbjct: 181 DLRFGVKQ-GVDMIFASFVRTASDVLEVREVLGEAGKDIKIIAKIENQEGVNNFDEILEA 239

Query: 236 SDAVMVARGDLGVEMALELIPGIQKKLIRIARQLGKPVVIATQMLESMVTSPFPTRAEVS 295
           SD +MVARGDLG+E+  E +   QK LI      GKPV+ ATQMLESM+ +P PTRAEVS
Sbjct: 240 SDGIMVARGDLGIEIPAEEVFLAQKMLIAKCNLAGKPVITATQMLESMIYNPRPTRAEVS 299

Query: 296 DVATAVFEEADAIMLSAETASGSYPVDAVRTMSLVASSAE 335
           DVA AV +  D +MLS ETA G+YPV+AV+ M+ +   AE
Sbjct: 300 DVANAVLDGTDCVMLSGETAKGNYPVEAVKMMARICLEAE 339


>gnl|CDD|37534 KOG2323, KOG2323, KOG2323, Pyruvate kinase [Carbohydrate transport
           and metabolism].
          Length = 501

 Score =  289 bits (742), Expect = 8e-79
 Identities = 161/463 (34%), Positives = 251/463 (54%), Gaps = 16/463 (3%)

Query: 5   RRIKIISTLGPSSFSEDVINRLHEEGTDVFRINMSHTSHDKMCELIKKIR-AVELRSRRP 63
           R+ KI+ T+GP+S S +++ +L + G ++ R+N SH SH+   E I  +R A+      P
Sbjct: 21  RKTKIVCTIGPASRSVEMLRKLLKAGMNIARLNFSHGSHEYHQETIDNLRDAISNTGALP 80

Query: 64  IGILIDLQGPKFRVGKFANSK-VDLTEGQ--IFTLDNKDSLGSSDRVMLPHPEIFASIKI 120
             I++D +GP+ R G   N K + L EGQ    T D       S+ + + + ++   +K 
Sbjct: 81  CAIMLDTKGPEIRTGDLKNGKPIKLKEGQEITITTDYSYEAKLSETISVDYKKLAKDVKP 140

Query: 121 GDRLLIDDGRVKLCVQEKGIGFIKCKVIAGISIADRKG-ISFPDTFLTTQALTQKDREDL 179
           GD + +DDG + L V+      + C+V  G  +  RKG ++ P T +   ALT+KD +DL
Sbjct: 141 GDIIYVDDGLISLIVKSVSKDEVTCRVENGGMLGSRKGNVNLPGTHVDLPALTEKDEKDL 200

Query: 180 HAALQTCEVDWVALSFIQSADDLLEIRKII--SQNKIGLMSKIEKPRAIEYASEIIQLSD 237
              ++  +VD +  SFI+ A D+ E+RK++  S   I L+SKIE    +    EI+  SD
Sbjct: 201 KFGVEN-KVDMIFASFIRKASDVREVRKVLGESGKNIKLISKIENQEGVSNFDEILIESD 259

Query: 238 AVMVARGDLGVEMALELIPGIQKKLIRIARQLGKPVVIATQMLESMVTSPFPTRAEVSDV 297
            +MVARGDLG+E+  E +   QK +I      GKPV+ ATQMLESM+  P PTRAE SDV
Sbjct: 260 GIMVARGDLGIEIPAEKVFLAQKMMIYKCNSAGKPVICATQMLESMIVKPRPTRAEASDV 319

Query: 298 ATAVFEEADAIMLSAETASGSYPVDAVRTMSLVASSAERDSSWLEMRS-LRRIEPNETGA 356
           A AV + AD +MLS ETA G YPV+AV+TM+ +   AE    +  + S L          
Sbjct: 320 ANAVLDGADCVMLSGETAKGKYPVEAVKTMARICKEAEAVIYYDSLFSELGTAVSFPMST 379

Query: 357 -DVISSAARQIAETLRLSAIFCYTASGATGLRAARERPKLEIIALSPMIQTARRLALVWG 415
            + ++++A + A     SAI   T SG T +  ++ RP + II+++  +  AR+  L  G
Sbjct: 380 IESLAASAVRAATKCLASAIVVLTKSGYTAILVSKYRPSVPIISVTRPVLAARQSHLYRG 439

Query: 416 IHCVVTED------ASDSDDMVNRACRIVVEQGFGKPGDRIII 452
           I  V+         + D +  +        ++G  K GD +++
Sbjct: 440 IIPVLYARSPVEDWSEDVESRIKFGLDFGKKKGILKKGDVVVV 482


>gnl|CDD|145835 pfam02887, PK_C, Pyruvate kinase, alpha/beta domain.  As well as
           being found in pyruvate kinase this family is found as
           an isolated domain in some bacterial proteins.
          Length = 117

 Score =  131 bits (332), Expect = 4e-31
 Identities = 45/117 (38%), Positives = 71/117 (60%), Gaps = 1/117 (0%)

Query: 356 ADVISSAARQIAETLRLSAIFCYTASGATGLRAARERPKLEIIALSPMIQTARRLALVWG 415
            + I+ +A + A+ L   AI   T SG T    ++ RP   IIA++P   TARRLAL WG
Sbjct: 1   TEAIARSAVEAAKELGAKAIVVLTESGRTARLVSKYRPGAPIIAVTPNEGTARRLALYWG 60

Query: 416 IHCVVTEDASDS-DDMVNRACRIVVEQGFGKPGDRIIISAGLPLGTPGSTNMLRIAY 471
           +H V+ ++ S S D+++  A R+  + G  K GD ++++AG+P+GT G TN L++  
Sbjct: 61  VHPVLGDERSISTDEIIAEALRVAKDAGLIKKGDLVVVTAGVPVGTSGGTNTLKVIT 117


>gnl|CDD|31845 COG1659, COG1659, Uncharacterized protein, linocin/CFP29 homolog
           [Function unknown].
          Length = 267

 Score = 33.0 bits (75), Expect = 0.20
 Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 1/58 (1%)

Query: 339 SWLEMRSLRRIEPNETGADVISSAARQIAETLRLSAIFCYTASGATGLRAARERPKLE 396
           S  E+  + R   +     V   AA+++A     +    Y+A+G  G+ +A   P L 
Sbjct: 86  SRNELDDVERGSKDVDWEPV-KEAAKKLAFVEDRTIFEGYSAAGIEGILSASSNPALT 142


>gnl|CDD|173706 cd05615, STKc_cPKC_alpha, Catalytic domain of the Protein
           Serine/Threonine Kinase, Classical Protein Kinase C
           alpha.  Serine/Threonine Kinases (STKs), Classical
           Protein Kinase C (cPKC) subfamily, alpha isoform,
           catalytic (c) domain. STKs catalyze the transfer of the
           gamma-phosphoryl group from ATP to serine/threonine
           residues on protein substrates. The cPKC subfamily is
           part of a larger superfamily that includes the catalytic
           domains of other protein STKs, protein tyrosine kinases,
           RIO kinases, aminoglycoside phosphotransferase, choline
           kinase, and phosphoinositide 3-kinase. PKCs are
           classified into three groups (classical, atypical, and
           novel) depending on their mode of activation and the
           structural characteristics of their regulatory domain.
           PKCs undergo three phosphorylations in order to take
           mature forms. In addition, cPKCs depend on calcium, DAG
           (1,2-diacylglycerol), and in most cases,
           phosphatidylserine (PS) for activation. There are four
           cPKC isoforms, named alpha, betaI, betaII, and gamma.
           PKC-alpha is expressed in many tissues and is associated
           with cell proliferation, apoptosis, and cell motility.
           It plays a role in the signaling of the growth factors
           PDGF, VEGF, EGF, and FGF. Abnormal levels of PKC-alpha
           have been detected in many transformed cell lines and
           several human tumors. In addition, PKC-alpha is required
           for HER2 dependent breast cancer invasion.
          Length = 323

 Score = 30.0 bits (67), Expect = 1.6
 Identities = 16/73 (21%), Positives = 35/73 (47%), Gaps = 13/73 (17%)

Query: 164 TFLTTQALTQKDR----EDLHAALQTCEVDWVALSFIQSADDLLEIRKIISQNKIGLMSK 219
           T +  + L  +D+      LH+  QT +  +  + ++   D +  I++         + K
Sbjct: 47  TMVEKRVLALQDKPPFLTQLHSCFQTVDRLYFVMEYVNGGDLMYHIQQ---------VGK 97

Query: 220 IEKPRAIEYASEI 232
            ++P+A+ YA+EI
Sbjct: 98  FKEPQAVFYAAEI 110


>gnl|CDD|32359 COG2176, PolC, DNA polymerase III, alpha subunit (gram-positive
           type) [DNA replication, recombination, and repair].
          Length = 1444

 Score = 29.5 bits (66), Expect = 2.1
 Identities = 11/24 (45%), Positives = 16/24 (66%)

Query: 253 ELIPGIQKKLIRIARQLGKPVVIA 276
           E +  I KKLI++ ++L KPVV  
Sbjct: 712 EALKEIIKKLIKLGKKLNKPVVAT 735


>gnl|CDD|146124 pfam03328, HpcH_HpaI, HpcH/HpaI aldolase/citrate lyase family.
           This family includes 2,4-dihydroxyhept-2-ene-1,7-dioic
           acid aldolase and 4-hydroxy-2-oxovalerate aldolase.
          Length = 221

 Score = 29.2 bits (66), Expect = 2.3
 Identities = 15/81 (18%), Positives = 30/81 (37%), Gaps = 11/81 (13%)

Query: 188 VDWVALSFIQSADDLLEIRKII---------SQNKIGLMSKIEKPRAIEYASEIIQLS-- 236
              V +  +++A++  E              +     L+++IE    +  A EI  +   
Sbjct: 85  AQGVLVPKVETAEEAREAVSACRYPPKGIRGANGNTCLLAQIESALGVLNADEIAAVEGL 144

Query: 237 DAVMVARGDLGVEMALELIPG 257
           D V +   DL  ++     PG
Sbjct: 145 DGVFLGPEDLSADLGTLRSPG 165


>gnl|CDD|29356 cd01172, RfaE_like, RfaE encodes a bifunctional ADP-heptose
           synthase involved in the biosynthesis of the
           lipopolysaccharide (LPS) core precursor
           ADP-L-glycero-D-manno-heptose. LPS plays an important
           role in maintaining the structural integrity of the
           bacterial outer membrane of gram-negative bacteria. RfaE
           consists of two domains, a sugar kinase domain,
           represented here, and a domain belonging to the
           cytidylyltransferase superfamily..
          Length = 304

 Score = 29.4 bits (66), Expect = 2.5
 Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 5/55 (9%)

Query: 221 EKPRAIEYASEIIQLSDAVMVARGDLGVEMALELIPGIQKKLIRIARQLGKPVVI 275
           E+ R IE  +E +  +D V+++    GV     L P + + LI  AR+LG PV++
Sbjct: 120 EEQRLIERIAERLPEADVVILSDYGKGV-----LTPRVIEALIAAARELGIPVLV 169


>gnl|CDD|173635 cd05054, PTKc_VEGFR, Catalytic domain of the Protein Tyrosine
           Kinases, Vascular Endothelial Growth Factor Receptors.
           Protein Tyrosine Kinase (PTK) family; Vascular
           Endothelial Growth Factor Receptor (VEGFR) subfamily;
           catalytic (c) domain. The VEGFR subfamily consists of
           VEGFR1 (Flt1), VEGFR2 (Flk1), VEGFR3 (Flt4), and similar
           proteins. The PTKc family is part of a larger
           superfamily that includes the catalytic domains of other
           kinases such as protein serine/threonine kinases, RIO
           kinases, and phosphoinositide 3-kinase (PI3K). PTKs
           catalyze the transfer of the gamma-phosphoryl group from
           ATP to tyrosine (tyr) residues in protein substrates.
           VEGFR subfamily members are receptor tyr kinases (RTKs)
           containing an extracellular ligand-binding region with
           seven immunoglobulin (Ig)-like domains, a transmembrane
           segment, and an intracellular catalytic domain. In
           VEGFR3, the fifth Ig-like domain is replaced by a
           disulfide bridge. The binding of VEGFRs to their
           ligands, the VEGFs, leads to receptor dimerization,
           activation, and intracellular signaling. There are five
           VEGF ligands in mammals, which bind, in an overlapping
           pattern to the three VEGFRs, which can form homo or
           heterodimers. VEGFRs regulate the cardiovascular system.
           They are critical for vascular development during
           embryogenesis and blood vessel formation in adults. They
           induce cellular functions common to other growth factor
           receptors such as cell migration, survival, and
           proliferation. VEGFR1 binds VEGFA, VEGFB, and placenta
           growth factor (PLGF). It regulates monocyte and
           macrophage migration, vascular permeability,
           haematopoiesis, and the recruitment of haematopietic
           progenitor cells from the bone marrow.
          Length = 337

 Score = 29.0 bits (65), Expect = 2.9
 Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 7/66 (10%)

Query: 321 VDAVRTMSLVASSAERDSSWLEMRSLRRIEPNETGADVISSAARQIAETLRLSAIFCYTA 380
               R  S+ +S +   S ++E +SL  +E +E G ++         E L L  +  Y+ 
Sbjct: 128 GKKQRLDSVSSSQSSASSGFIEDKSLSDVEEDEEGDELYK-------EPLTLEDLISYSF 180

Query: 381 SGATGL 386
             A G+
Sbjct: 181 QVARGM 186


>gnl|CDD|31444 COG1252, Ndh, NADH dehydrogenase, FAD-containing subunit [Energy
           production and conversion].
          Length = 405

 Score = 28.6 bits (64), Expect = 4.1
 Identities = 23/110 (20%), Positives = 43/110 (39%), Gaps = 13/110 (11%)

Query: 195 FIQSADDLLEIRKIISQNKIGLMSKIEKPRAIEYASEIIQLSDAVMVARGDLGVEMALEL 254
            +++ +D L +R+ +       +   EK        +   L   V+V  G  GVE+A EL
Sbjct: 125 GLKTLEDALRLRRHL-------LEAFEK---ASQEEDDRALLTIVIVGGGPTGVELAGEL 174

Query: 255 IPGIQKKLIRIARQLGKPVVIATQMLESMVTSPFPTRAEVSDVATAVFEE 304
              + + L +      +  VI  +     +   FP   ++S  A    E+
Sbjct: 175 AERLHRLLKKFRVDPSELRVILVEAGPR-ILPMFP--PKLSKYAERALEK 221


>gnl|CDD|34281 COG4663, FcbT1, TRAP-type mannitol/chloroaromatic compound
           transport system, periplasmic component [Secondary
           metabolites biosynthesis, transport, and catabolism].
          Length = 363

 Score = 28.4 bits (63), Expect = 4.7
 Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 17/67 (25%)

Query: 61  RRPIGILIDLQGPKFRVGKFANSKVDLTEGQIFTLDNKDSLGSSDRVMLPHPEIFASIKI 120
           R+ I  + DL+G K R+  FA        GQ+        LG   +  +   EI+ ++  
Sbjct: 167 RKEINSVEDLKGLKMRIPGFA--------GQVMA-----KLGVVPQQ-IAGGEIYPAL-- 210

Query: 121 GDRLLID 127
            +R  ID
Sbjct: 211 -ERGTID 216


>gnl|CDD|33190 COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General
           function prediction only].
          Length = 978

 Score = 28.0 bits (62), Expect = 5.7
 Identities = 33/169 (19%), Positives = 67/169 (39%), Gaps = 30/169 (17%)

Query: 303 EEADAIMLSAETASGSYPVDAVRTMSLVASSAERDSSWLEMRSLRRIE---------PNE 353
           E AD +++     +  +PV A    S +  + +     L +   R+ E           +
Sbjct: 419 EGADLVLIIGANPTEGHPVLA----SRLKRAHKLRGQKLIVIDPRKHEMAERADLFLHPK 474

Query: 354 TGADV--ISSAARQIAETLRLSAIFC---------YTASGATGLRAARER----PKLEII 398
            G D+  +++ A+ I +       F          Y  S A       E+    P  ++ 
Sbjct: 475 PGTDLAWLTAVAKYIIDEGLHDEAFIRERVDWFEDYAKSLAPFTLEYAEKATGVPAEDLR 534

Query: 399 ALSPMIQTARRLALVWGIHCVVTEDASDSDDMVNRACRIVVEQGFGKPG 447
             + MI  A+ +A++WG+   VT+ +  SD     +  +++   +G+PG
Sbjct: 535 KAAEMIAEAKSVAILWGMG--VTQHSGGSDTSTAISNLLLLTGNYGRPG 581


>gnl|CDD|173707 cd05616, STKc_cPKC_beta, Catalytic domain of the Protein
           Serine/Threonine Kinase, Classical Protein Kinase C
           beta.  Serine/Threonine Kinases (STKs), Classical
           Protein Kinase C (cPKC) subfamily, beta isoforms,
           catalytic (c) domain. STKs catalyze the transfer of the
           gamma-phosphoryl group from ATP to serine/threonine
           residues on protein substrates. The cPKC subfamily is
           part of a larger superfamily that includes the catalytic
           domains of other protein STKs, protein tyrosine kinases,
           RIO kinases, aminoglycoside phosphotransferase, choline
           kinase, and phosphoinositide 3-kinase. PKCs are
           classified into three groups (classical, atypical, and
           novel) depending on their mode of activation and the
           structural characteristics of their regulatory domain.
           PKCs undergo three phosphorylations in order to take
           mature forms. In addition, cPKCs depend on calcium, DAG
           (1,2-diacylglycerol), and in most cases,
           phosphatidylserine (PS) for activation. There are four
           cPKC isoforms, named alpha, betaI, betaII, and gamma.
           The PKC beta isoforms (I and II), generated by
           alternative splicing of a single gene, are
           preferentially activated by hyperglycemia-induced DAG in
           retinal tissues. This is implicated in diabetic
           microangiopathy such as ischemia, neovascularization,
           and abnormal vasodilator function. PKC-beta also plays
           an important role in VEGF signaling. In addition,
           glucose regulates proliferation in retinal endothelial
           cells via PKC-betaI. PKC-beta is also being explored as
           a therapeutic target in cancer. It contributes to tumor
           formation and is involved in the tumor host mechanisms
           of inflammation and angiogenesis.
          Length = 323

 Score = 28.0 bits (62), Expect = 6.3
 Identities = 12/54 (22%), Positives = 28/54 (51%), Gaps = 9/54 (16%)

Query: 179 LHAALQTCEVDWVALSFIQSADDLLEIRKIISQNKIGLMSKIEKPRAIEYASEI 232
           LH+  QT +  +  + ++   D + +I+++          + ++P A+ YA+EI
Sbjct: 66  LHSCFQTMDRLYFVMEYVNGGDLMYQIQQV---------GRFKEPHAVFYAAEI 110


>gnl|CDD|144105 pfam00387, PI-PLC-Y, Phosphatidylinositol-specific phospholipase
          C, Y domain.  This associates with pfam00388 to form a
          single structural unit.
          Length = 117

 Score = 27.9 bits (63), Expect = 7.4
 Identities = 8/26 (30%), Positives = 11/26 (42%), Gaps = 1/26 (3%)

Query: 16 SSFSEDVINRLHEE-GTDVFRINMSH 40
          SSFSE    +L +E   +    N   
Sbjct: 29 SSFSETKAKKLLKESPAEFVEHNRRQ 54


>gnl|CDD|146773 pfam04312, DUF460, Protein of unknown function (DUF460).  Archaeal
           protein of unknown function.
          Length = 138

 Score = 27.6 bits (62), Expect = 8.4
 Identities = 8/16 (50%), Positives = 13/16 (81%)

Query: 262 LIRIARQLGKPVVIAT 277
           +I +  +LGKPV++AT
Sbjct: 68  VIELIYELGKPVIVAT 83


>gnl|CDD|176214 cd08252, AL_MDR, Arginate lyase and other MDR family members.  This
           group contains a structure identified as an arginate
           lyase. Other members are identified quinone reductases,
           alginate lyases, and other proteins related to the
           zinc-dependent dehydrogenases/reductases. QOR catalyzes
           the conversion of a quinone and NAD(P)H to a
           hydroquinone and NAD(P+. Quinones are cyclic diones
           derived from aromatic compounds. Membrane bound QOR acts
           in the respiratory chains of bacteria and mitochondria,
           while soluble QOR acts to protect from toxic quinones
           (e.g. DT-diaphorase) or as a soluble eye-lens protein in
           some vertebrates (e.g. zeta-crystalin). QOR reduces
           quinones through a semi-quinone intermediate via a
           NAD(P)H-dependent single electron transfer. QOR is a
           member of the medium chain dehydrogenase/reductase
           family, but lacks the zinc-binding sites of the
           prototypical alcohol dehydrogenases of this group.
           Alcohol dehydrogenase in the liver converts ethanol and
           NAD+ to acetaldehyde and NADH, while in yeast and some
           other microorganisms ADH catalyzes the conversion
           acetaldehyde to ethanol in alcoholic fermentation. ADH
           is a member of the medium chain alcohol dehydrogenase
           family (MDR), which has a NAD(P)(H)-binding domain in a
           Rossmann fold of a beta-alpha form.  The NAD(H)-binding
           region is comprised of 2 structurally similar halves,
           each of which contacts a mononucleotide.  The N-terminal
           catalytic domain has a distant homology to GroES. These
           proteins typically form dimers (typically higher plants,
           mammals) or tetramers (yeast, bacteria), and have 2
           tightly bound zinc atoms per subunit, a catalytic zinc
           at the active site and a structural zinc in a lobe of
           the catalytic domain. NAD(H) binding occurs in the cleft
           between the catalytic and coenzyme-binding domains at
           the active site, and coenzyme binding induces a
           conformational closing of this cleft. Coenzyme binding
           typically precedes and contributes to substrate binding.
            In human ADH catalysis, the zinc ion helps coordinate
           the alcohol, followed by deprotonation of  a histidine,
           the ribose of NAD, a serine, then the alcohol, which
           allows the transfer of a hydride to NAD+, creating NADH
           and a zinc-bound aldehyde or ketone. In yeast and some
           bacteria, the active site zinc binds an aldehyde,
           polarizing it, and leading to the reverse reaction.
          Length = 336

 Score = 27.5 bits (62), Expect = 8.7
 Identities = 8/16 (50%), Positives = 11/16 (68%)

Query: 262 LIRIARQLGKPVVIAT 277
            I++A+QL    VIAT
Sbjct: 166 AIQLAKQLTGLTVIAT 181


  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
   0.320    0.135    0.378 

Gapped
Lambda     K      H
   0.267   0.0630    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,457,020
Number of extensions: 288157
Number of successful extensions: 885
Number of sequences better than 10.0: 1
Number of HSP's gapped: 865
Number of HSP's successfully gapped: 45
Length of query: 480
Length of database: 6,263,737
Length adjustment: 98
Effective length of query: 382
Effective length of database: 4,146,055
Effective search space: 1583793010
Effective search space used: 1583793010
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 (21.8 bits)
S2: 59 (26.7 bits)