Citrus Sinensis ID: 004630

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-

MSKQGFITVPSFLLQGSEVNESELSNWFVTNKLDPNSGKVVVKPTRAGSSIGVTVAYGVIDSLKKAKGIILEGIDDRVVVELFLEGGSEFTAIVLDVGSGFDCHPVVLLPTEVELQFQGSVDVREKDAIFNYRRKYLPTQQVAYHTPPRFPIVVINSIREGASLLFQRLGLCDFARIDGWFLPSSTHVFSSSETKYGSTEWGTILFTDINLISGMEQTSFLFQQASKVGFSHSNILRTIIGHACSRFPNLASYNSVSSHLPGRSSGSKPTEALNKREGIREVFVIFGGDTSERQVSLMSGTNVWLNLQAFNDIEVTPCLLASSIDCSSGMDANITDPDSSSRVVWSLPYSLVLRHTTEEVLAACIEAIEPDRAAFTSHLRNQVVNDLVEGLKKHSWFTGFDIADELPMRHSINEWIKLAKENQATVFIAVHGGIGEDGTLQSLLEAEGVPYTGPGVMASKTCMDKVATSLALNHLADLGVLTINKDVRRKEDLLKTPIVDIWHELTSKLQCKTLCVKPARDGCSTGVARLCCAEDLTVYVKALEECLLRIPPNSFSRAHGMIEMPNPPPEILIFEPFVETDEILFSSQSTNKNADRLMWKGNSRWVEITVGVIGKCGSMHSLMPSVTVKESGDILSLEEKFQGGTGINLTPPPASIMSTEALDKCKQRIELIANALQLEGFSRIDAFVNVDNGEVLIIEVNTVPGMTPSTVLIHQALSEQPPMYPHQFFRKVLDLGSERFL

cccccccccccEEEEcccccHHHHHHHHHHHccccccccEEEccccccccEEEEEEcccccHHHHHHHHHHcccccEEEEEccccccEEEEEEEEccccccccccEEcccccEEEEccccEEcccccccccccccccccccEEEEccccccHHHHHHHHHHHHHHHHHcccccEEEcEEEEccccccccccccccccccccccEEEEEcccccccccccHHHHHHHHccccHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccEEEEEEcccccccHHHHHHHHHHHHHHHccccEEEEEEEEEcccccccccccccccccccccccccccHHHHccccHHHHHHHHHHccccHHHHHHcccccHHHHHHHHHHHHccccccccccccccccccHHHHHHHHcccccEEEEcccccccccHHHHHHHHHcccccccccHHHHHHHHcHHHHHHHHHHHcccccccccEEEEEccccccccHHHHHHHHHHHcccccEEEEcccccccccEEEEcccccHHHHHHHHHHHHHccccccccccccccccccccccEEEEccccccccHHHcccccccccHHHHHccccccEEEEEEEEcccccccccccEEEEEcccccccccccccccccEEEcccccccccHHHHHHHHHHHHHHHHHcccccEEEEEEEEEcccccEEEEEcccccccccccHHHHHHHHccccccHHHHHHHHHHHHHHccc

ccccccEEcccEEEEcccccHHHHHHHHHHccccccccEEEEEEcccccccEEEEEcccHHHHHHHHHHHHccccccEEEEEEEcccEEEEEEEEEEccccccccEEEcccEEEEEEcccccccccccEEEHHHHccccccEEEEccccccHHHHHHHHHHHHHHHHHHcccccEEEcEEEcccccccccccccccccccccEEEEEEcccccccccccHHHHHHHHccccHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHccccccccEEEEEEccccccccEEHHHHHHHHHHHccccccEEEEEEEcccccEEEcccccccccccccccEEEccccccccccHHHHHHHHHccccHHHHHHHHccccccHHHHHHHcccccccccccccccccccccHHHHHHHHHccccEEEEcccccccccHHHHHHHHHHcccEccccHHHHHHHHcHHHHHHHHHHHcccccccEEEEEEccHHcccccHHHHHHHHHHHcccccEEEEEcccccccEEEEEccHHHHHHHHHHHHHHcccccccccHHHccEEEcccccccEEEEEEcccHHHHHHHHHHHHHcccEEEEEEcEcEEEEEEEEEcccccccccccccEEccccccEcHHHHHcccccEEEccccHccccHHHHHHHHHHHHHHHHHHcccccEEEEEEEEccccEEEEEEEcccccccccccHHHHHHHHHccccHHHHHHHHHHHHHHHcc

mskqgfitvpsfllqgsevneselsnwfvtnkldpnsgkvvvkptragssigVTVAYGVIDSLKKAKGIILEGIDDRVVVELFLEGGSEFTAIVLdvgsgfdchpvvllpteVELQFQGSVDVREKDAIFNYrrkylptqqvayhtpprfpiVVINSIREGASLLFQRLGlcdfaridgwflpssthvfsssetkygstewgtILFTDINLISGMEQTSFLFQQaskvgfshsNILRTIIGHacsrfpnlasynsvsshlpgrssgskptealnkreGIREVFVIFGGDTSERQVSLMSGTNVWLNlqafndievtpcllassidcssgmdanitdpdsssrvvwslPYSLVLRHTTEEVLAACIEAIEPDRAAFTSHLRNQVVNDLVEGLkkhswftgfdiadelpmrHSINEWIKLAKENQATVFIAVhggigedgtlqslleaegvpytgpgvmasktCMDKVATSLALNHLADLGVLTINKDVRRKEDLLKTPIVDIWHELTSKLqcktlcvkpardgcstgvarlCCAEDLTVYVKALEECllrippnsfsrahgmiempnpppeilifepfvetdeilfssqstnknADRLMWKGNSRWVEITVGVigkcgsmhslmpsvtvkesgdilsleekfqggtginltpppasimstEALDKCKQRIELIANALQLegfsridafvnvdngEVLIIEvntvpgmtpsTVLIHQAlseqppmyphqFFRKVLDLGSERFL

MSKQGFITVPSFLLQGSEVNESELSNWFvtnkldpnsgkvvvkptragssigvtvaygvIDSLKKAKGIILEGIDDRVVVELFLEGGSEFTAIVLDVGSGFDCHPVVLLPTEVELQFQGSVDVREKDAIFNYRRKYlptqqvayhtppRFPIVVINSIREGASLLFQRLGLCDFARIDGWFLPSSthvfsssetkygsteWGTILFTDINLISGMEQTSFLFQQASKVGFSHSNILRTIIGHACSRFPNLASYNSVsshlpgrssgskptealnkregIREVFVIFGGDTSERQVSLMSGTNVWLNLQAFNDIEVTPCLLASSIDCSSGMDAnitdpdsssrvVWSLPYSLVLRHTTEEVLAACIEAIEPDRAAFTSHLRNQVVNDLVEGLKKHSWFTGFDIADELPMRHSINEWIKLAKENQATVFIAVHGGIGEDGTLQSLLEAEGVPYTGPGVMASKTCMDKVATSLALnhladlgvltinkdvrrkeDLLKTPIVDIWHELTSKLQCKTLCVKPARDGCSTGVARLCCAEDLTVYVKALEECLLRIPPNSFSRAHGMIEMPNPPPEILIFEPFVETDEILFSsqstnknadrlmwKGNSRWVEITVGVIGKCGSMHSLMPSVTVKESGDILSLEEKFQGGTGINLTPPPASIMSTEALDKCKQRIELIANALQLEGFSRIDAFVNVDNGEVLIIEVNTVPGMTPSTVLIHQALSEQPPMYPHQFFRKVLDLGSERFL

*****FITVPSFLLQGSEVNESELSNWFVTNKLDPNSGKVVVKPTRAGSSIGVTVAYGVIDSLKKAKGIILEGIDDRVVVELFLEGGSEFTAIVLDVGSGFDCHPVVLLPTEVELQFQGSVDVREKDAIFNYRRKYLPTQQVAYHTPPRFPIVVINSIREGASLLFQRLGLCDFARIDGWFLPSSTHVFSSSETKYGSTEWGTILFTDINLISGMEQTSFLFQQASKVGFSHSNILRTIIGHACSRFPNLASY************************GIREVFVIFGGDTSERQVSLMSGTNVWLNLQAFNDIEVTPCLLASSIDCSSGM**********SRVVWSLPYSLVLRHTTEEVLAACIEAIEPDRAAFTSHLRNQVVNDLVEGLKKHSWFTGFDIADELPMRHSINEWIKLAKENQATVFIAVHGGIGEDGTLQSLLEAEGVPYTGPGVMASKTCMDKVATSLALNHLADLGVLTINKDVRRKEDLLKTPIVDIWHELTSKLQCKTLCVKPARDGCSTGVARLCCAEDLTVYVKALEECLLRIPPNSFSRAHGMI******PEILIFEPFVETDEILFSSQSTNKNADRLMWKGNSRWVEITVGVIGKCGSMHSLMPSVTVKESGDILSLEEKFQGGTGINL*******MSTEALDKCKQRIELIANALQLEGFSRIDAFVNVDNGEVLIIEVNTVPGMTPSTVLIHQALSEQPPMYPHQFFRKVLD*******

***QGFITVPSFLLQGSEVNESELSNWFVTNKLDPNSGKVVVKPTRAGSSIGVTVAYGVIDSLKKAKGIILEGIDDRVVVELFLEGGSEFTAIVLDVGSGFDCHPVVLLPTEVELQFQGSVDVREKDAIFNYRRKYLPTQQVAYHTPPRFPIVVINSIREGASLLFQRLGLCDFARIDGWFLPSSTHVFSSSETKYGSTEWGTILFTDINLISGMEQTSFLFQQASKVGFSHSNILRTIIGHACSRFP**********************************FVIFGGDTSERQVSLMSGTNVWLNLQAFNDIEVTPCLLASSIDCSSGMDANITDPDSSSRVVWSLPYSLVLRHTTEEVLAACIEAIEPDRAAFTSHLRNQVVNDLVEGLKKHSWFTGFDIADELPMRHSINEWIKLAKENQATVFIAVHGGIGEDGTLQSLLEAEGVPYTGPGVMASKTCMDKVATSLALNHLADLGVLTINKDVRRKEDLLKTPIVDIWHELTSKLQCKTLCVKPARDGCSTGVARLCCAEDLTVYVKALEECLLRIPPNSFSRAHGMIEMPNPPPEILIFEPFVETDEILFSSQSTNKNADRLMWKGNSRWVEITVGVIGKCGSMHSLMPSVTVKESGDILSLEEKFQGGTGINLTPPPASIMSTEALDKCKQRIELIANALQLEGFSRIDAFVNVDNGEVLIIEVNTVPGMTPSTVLIHQALSEQPPMYPHQFFRKVLDLGSERFL

MSKQGFITVPSFLLQGSEVNESELSNWFVTNKLDPNSGKVVVKPTRAGSSIGVTVAYGVIDSLKKAKGIILEGIDDRVVVELFLEGGSEFTAIVLDVGSGFDCHPVVLLPTEVELQFQGSVDVREKDAIFNYRRKYLPTQQVAYHTPPRFPIVVINSIREGASLLFQRLGLCDFARIDGWFLPSSTHV*********STEWGTILFTDINLISGMEQTSFLFQQASKVGFSHSNILRTIIGHACSRFPNLASYNS*****************LNKREGIREVFVIFGGDTSERQVSLMSGTNVWLNLQAFNDIEVTPCLLASSIDCSSGMDANITDPDSSSRVVWSLPYSLVLRHTTEEVLAACIEAIEPDRAAFTSHLRNQVVNDLVEGLKKHSWFTGFDIADELPMRHSINEWIKLAKENQATVFIAVHGGIGEDGTLQSLLEAEGVPYTGPGVMASKTCMDKVATSLALNHLADLGVLTINKDVRRKEDLLKTPIVDIWHELTSKLQCKTLCVKPARDGCSTGVARLCCAEDLTVYVKALEECLLRIPPNSFSRAHGMIEMPNPPPEILIFEPFVETDEILFSSQSTNKNADRLMWKGNSRWVEITVGVIGKCGSMHSLMPSVTVKESGDILSLEEKFQGGTGINLTPPPASIMSTEALDKCKQRIELIANALQLEGFSRIDAFVNVDNGEVLIIEVNTVPGMTPSTVLIHQALSEQPPMYPHQFFRKVLDLGSERFL

***QGFITVPSFLLQGSEVNESELSNWFVTNKLDPNSGKVVVKPTRAGSSIGVTVAYGVIDSLKKAKGIILEGIDDRVVVELFLEGGSEFTAIVLDVGSGFDCHPVVLLPTEVELQFQGSVDVREKDAIFNYRRKYLPTQQVAYHTPPRFPIVVINSIREGASLLFQRLGLCDFARIDGWFLPSS*************TEWGTILFTDINLISGMEQTSFLFQQASKVGFSHSNILRTIIGHACSRFPNLASYNSVSS*L****SGSKPTEALNKREGIREVFVIFGGDTSERQVSLMSGTNVWLNLQAFNDIEVTPCLLASSIDCSSGMDANITDPDSSSRVVWSLPYSLVLRHTTEEVLAACIEAIEPDRAAFTSHLRNQVVNDLVEGLKKHSWFTGFDIADELPMRHSINEWIKLAKENQATVFIAVHGGIGEDGTLQSLLEAEGVPYTGPGVMASKTCMDKVATSLALNHLADLGVLTINKDVRRKEDLLKTPIVDIWHELTSKLQCKTLCVKPARDGCSTGVARLCCAEDLTVYVKALEECLLRIPPNSFSRAHGMIEMPNPPPEILIFEPFVETDEILFSSQSTNKNADRLMWKGNSRWVEITVGVIGKCGSMHSLMPSVTVKESGDILSLEEKFQGGTGINLTPPPASIMSTEALDKCKQRIELIANALQLEGFSRIDAFVNVDNGEVLIIEVNTVPGMTPSTVLIHQALSEQPPMYPHQFFRKVLDLGSERFL

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		741	2.2.26 [Sep-21-2011]
B3EDF4		363	D-alanine--D-alanine liga	yes	no	0.303	0.619	0.294	1e-17
A4G8T6		334	D-alanine--D-alanine liga	yes	no	0.326	0.724	0.295	1e-16
Q748D8		316	D-alanine--D-alanine liga	yes	no	0.325	0.762	0.286	2e-16
Q3ACF5		312	D-alanine--D-alanine liga	yes	no	0.371	0.881	0.260	3e-16
Q97F58		343	D-alanine--D-alanine liga	yes	no	0.338	0.731	0.271	4e-16
B5EBQ4		305	D-alanine--D-alanine liga	yes	no	0.321	0.780	0.275	7e-16
C6DZK9		305	D-alanine--D-alanine liga	yes	no	0.314	0.763	0.270	2e-15
Q8F4I2		351	D-alanine--D-alanine liga	yes	no	0.372	0.786	0.239	3e-15
A4XJ89		364	D-alanine--D-alanine liga	yes	no	0.452	0.920	0.256	6e-15
C6DEU1		306	D-alanine--D-alanine liga	yes	no	0.314	0.761	0.261	7e-15

>sp\|B3EDF4\|DDL_CHLL2 D-alanine--D-alanine ligase OS=Chlorobium limicola (strain DSM 245 / NBRC 103803) GN=ddl PE=3 SV=1	Back alignment and function desciption

 Score = 92.0 bits (227), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 83/282 (29%), Positives = 117/282 (41%), Gaps = 57/282 (20%)

Query: 426 VFIAVHGGIGEDGTLQSLLEAEGVPYTGPGVMASKTCMDKVATSLALNHLADLGVLTINK 485
           VFIA+HG  GEDG +Q LL+  G+PYTG GV AS   MDK  T L     AD GV T   
Sbjct: 103 VFIALHGSYGEDGRVQGLLDTMGIPYTGCGVSASAIAMDKALTKLC---AADAGVATAPS 159

Query: 486 DVRRKEDLLKTPIVDIWHELTSKLQCKTLCVKPARDGCSTGVARLCCAEDLTVYVKALEE 545
                +  L  P  +  HEL        L VKPA  G S G+++                
Sbjct: 160 ITLDADSYLADP--EPVHELVDSTFGYPLFVKPASLGSSVGISK---------------- 201

Query: 546 CLLRIPPNSFSRAHGMIEMPNPPPEILIFEPFVETDEILFSSQSTNKNADRLMWKGNSRW 605
                           + +P   PE L      +  +IL  +  + K             
Sbjct: 202 ----------------VHLPAALPEALKVACSYDR-KILVEAAVSGK------------- 231

Query: 606 VEITVGVIGKCGSMHSLMPSVTVKESGDILSLEEKFQGGTGINLTPPPASIMSTEALDKC 665
            EI V V+G    + S+ P   V+   D    ++K+   T     P   + +  + LD  
Sbjct: 232 -EIEVAVLGNDRPVASV-PG-EVEPGSDFYDFQDKYIHNTAKTFIP---ARLPDKLLDSV 285

Query: 666 KQRIELIANALQLEGFSRIDAFVNVDNGEVLIIEVNTVPGMT 707
           +     +  AL   G SR+D FVN +NG +++ E+NT+PG T
Sbjct: 286 RCSAITVYKALGCRGMSRVDFFVNEENGSIVLNEINTIPGFT 327

Cell wall formation.
Chlorobium limicola (strain DSM 245 / NBRC 103803) (taxid: 290315)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: 4

>sp\|A4G8T6\|DDL_HERAR D-alanine--D-alanine ligase OS=Herminiimonas arsenicoxydans GN=ddl PE=3 SV=1	Back alignment and function description

>sp\|Q748D8\|DDL_GEOSL D-alanine--D-alanine ligase OS=Geobacter sulfurreducens (strain ATCC 51573 / DSM 12127 / PCA) GN=ddl PE=3 SV=1	Back alignment and function description

>sp\|Q3ACF5\|DDL_CARHZ D-alanine--D-alanine ligase OS=Carboxydothermus hydrogenoformans (strain Z-2901 / DSM 6008) GN=ddl PE=3 SV=1	Back alignment and function description

>sp\|Q97F58\|DDL_CLOAB D-alanine--D-alanine ligase OS=Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787) GN=ddl PE=3 SV=1	Back alignment and function description

>sp\|B5EBQ4\|DDL_GEOBB D-alanine--D-alanine ligase OS=Geobacter bemidjiensis (strain Bem / ATCC BAA-1014 / DSM 16622) GN=ddl PE=3 SV=1	Back alignment and function description

>sp\|C6DZK9\|DDL_GEOSM D-alanine--D-alanine ligase OS=Geobacter sp. (strain M21) GN=ddl PE=3 SV=1	Back alignment and function description

>sp\|Q8F4I2\|DDL_LEPIN D-alanine--D-alanine ligase OS=Leptospira interrogans serogroup Icterohaemorrhagiae serovar Lai (strain 56601) GN=ddl PE=3 SV=1	Back alignment and function description

>sp\|A4XJ89\|DDL_CALS8 D-alanine--D-alanine ligase OS=Caldicellulosiruptor saccharolyticus (strain ATCC 43494 / DSM 8903) GN=ddl PE=3 SV=1	Back alignment and function description

>sp\|C6DEU1\|DDL_PECCP D-alanine--D-alanine ligase OS=Pectobacterium carotovorum subsp. carotovorum (strain PC1) GN=ddl PE=3 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		741
225439600		952	PREDICTED: uncharacterized protein LOC10	0.995	0.775	0.786	0.0
255586280		1000	D-alanine-D-alanine ligase, putative [Ri	0.985	0.73	0.782	0.0
224091078		931	predicted protein [Populus trichocarpa]	0.964	0.767	0.771	0.0
357506461		955	D-alanine--D-alanine ligase [Medicago tr	0.900	0.698	0.756	0.0
449439825		960	PREDICTED: uncharacterized protein LOC10	0.995	0.768	0.757	0.0
356532203		949	PREDICTED: uncharacterized protein LOC10	0.997	0.778	0.754	0.0
356566751		955	PREDICTED: uncharacterized protein LOC10	0.997	0.773	0.75	0.0
449483593		894	PREDICTED: uncharacterized LOC101204441	0.995	0.825	0.740	0.0
297833634		943	D-alanine--D-alanine ligase family [Arab	0.977	0.767	0.686	0.0
357506463		877	D-alanine--D-alanine ligase [Medicago tr	0.790	0.668	0.747	0.0

>gi\|225439600\|ref\|XP_002265851.1\| PREDICTED: uncharacterized protein LOC100265424 [Vitis vinifera] gi\|297735584\|emb\|CBI18078.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

 Score = 1209 bits (3128), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 583/741 (78%), Positives = 647/741 (87%)

Query: 1   MSKQGFITVPSFLLQGSEVNESELSNWFVTNKLDPNSGKVVVKPTRAGSSIGVTVAYGVI 60
           + +QGF+T+P+FL+QGS  NESELS WF  N LD NSGKVVVKPTRAGSSIGVTVAYGV 
Sbjct: 212 LDRQGFVTLPNFLVQGSHSNESELSKWFAENHLDTNSGKVVVKPTRAGSSIGVTVAYGVA 271

Query: 61  DSLKKAKGIILEGIDDRVVVELFLEGGSEFTAIVLDVGSGFDCHPVVLLPTEVELQFQGS 120
           DSLKKA  II EGIDDRV+VE+FLEGGSEFTAIVLDVGSGFDCHPVVLLPTEVE+Q   +
Sbjct: 272 DSLKKANEIIAEGIDDRVLVEIFLEGGSEFTAIVLDVGSGFDCHPVVLLPTEVEIQLHDN 331

Query: 121 VDVREKDAIFNYRRKYLPTQQVAYHTPPRFPIVVINSIREGASLLFQRLGLCDFARIDGW 180
            D+REKDAIFNYRRKYLPTQQVAYHTPPRFP+ VI SIREGASLLFQRLGL DFARIDGW
Sbjct: 332 ADMREKDAIFNYRRKYLPTQQVAYHTPPRFPMDVIGSIREGASLLFQRLGLHDFARIDGW 391

Query: 181 FLPSSTHVFSSSETKYGSTEWGTILFTDINLISGMEQTSFLFQQASKVGFSHSNILRTII 240
           FLPSS  + S+SE K G T+ GT++FTDINLISGMEQTSFLFQQASKVGFSHSNILR+II
Sbjct: 392 FLPSSILIPSASEKKLGRTKSGTVIFTDINLISGMEQTSFLFQQASKVGFSHSNILRSII 451

Query: 241 GHACSRFPNLASYNSVSSHLPGRSSGSKPTEALNKREGIREVFVIFGGDTSERQVSLMSG 300
             AC RFPNLASY S+S+ LP RS  S+  EA  K + +R+VFVIFGGDTSERQVSLMSG
Sbjct: 452 QRACLRFPNLASYTSLSNLLPRRSKSSQLIEAFPKTKDVRKVFVIFGGDTSERQVSLMSG 511

Query: 301 TNVWLNLQAFNDIEVTPCLLASSIDCSSGMDANITDPDSSSRVVWSLPYSLVLRHTTEEV 360
           TNVWLNLQAFND+EV PCLLA +   SS  D +  + D   + +W+LPYSLVLRHTTEEV
Sbjct: 512 TNVWLNLQAFNDLEVIPCLLAPTSGYSSKTDMDEKELDVRMKTIWTLPYSLVLRHTTEEV 571

Query: 361 LAACIEAIEPDRAAFTSHLRNQVVNDLVEGLKKHSWFTGFDIADELPMRHSINEWIKLAK 420
           LAACIEAIEPDRAA TS LRNQV+NDL+EGLKK  WFTGFD+ADE P+R+S+ +W+KLAK
Sbjct: 572 LAACIEAIEPDRAALTSELRNQVMNDLMEGLKKQHWFTGFDLADEPPVRYSVEQWVKLAK 631

Query: 421 ENQATVFIAVHGGIGEDGTLQSLLEAEGVPYTGPGVMASKTCMDKVATSLALNHLADLGV 480
           E QATVFIAVHGG+GEDGTLQ LLEA GVPYTGPGV  SK CMDKVATSLALNHL   GV
Sbjct: 632 EVQATVFIAVHGGMGEDGTLQFLLEAGGVPYTGPGVETSKICMDKVATSLALNHLEKFGV 691

Query: 481 LTINKDVRRKEDLLKTPIVDIWHELTSKLQCKTLCVKPARDGCSTGVARLCCAEDLTVYV 540
           LTINK V RKEDLL  P+ DIWH+LTSKLQ +TLCVKPARDGCSTGVARLCC EDL VYV
Sbjct: 692 LTINKKVLRKEDLLNAPVHDIWHDLTSKLQSETLCVKPARDGCSTGVARLCCLEDLAVYV 751

Query: 541 KALEECLLRIPPNSFSRAHGMIEMPNPPPEILIFEPFVETDEILFSSQSTNKNADRLMWK 600
           KALEEC LRIP NS S+AHG+IEMP+PPPE+LIFEPF+ETDEI+ SS + N  A+RL+W+
Sbjct: 752 KALEECFLRIPSNSLSKAHGVIEMPSPPPELLIFEPFIETDEIIVSSNAVNDTANRLIWE 811

Query: 601 GNSRWVEITVGVIGKCGSMHSLMPSVTVKESGDILSLEEKFQGGTGINLTPPPASIMSTE 660
           G+SRWVE+TVGV+GK GSMHSL PSVTVKESGDILSLEEKFQGGTGINLTPPP SI+S  
Sbjct: 812 GHSRWVEVTVGVVGKRGSMHSLTPSVTVKESGDILSLEEKFQGGTGINLTPPPLSIISKA 871

Query: 661 ALDKCKQRIELIANALQLEGFSRIDAFVNVDNGEVLIIEVNTVPGMTPSTVLIHQALSEQ 720
           AL+ CKQRIELIAN LQLEGFSRIDAFVNVD+GEVLIIEVNTVPGMTPSTVLIHQAL+E+
Sbjct: 872 ALESCKQRIELIANTLQLEGFSRIDAFVNVDSGEVLIIEVNTVPGMTPSTVLIHQALAEE 931

Query: 721 PPMYPHQFFRKVLDLGSERFL 741
           PPMYPH+FFR +LDLGSERF+
Sbjct: 932 PPMYPHRFFRTLLDLGSERFI 952

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|255586280\|ref\|XP_002533792.1\| D-alanine-D-alanine ligase, putative [Ricinus communis] gi\|223526281\|gb\|EEF28594.1\| D-alanine-D-alanine ligase, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|224091078\|ref\|XP_002309171.1\| predicted protein [Populus trichocarpa] gi\|222855147\|gb\|EEE92694.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|357506461\|ref\|XP_003623519.1\| D-alanine--D-alanine ligase [Medicago truncatula] gi\|355498534\|gb\|AES79737.1\| D-alanine--D-alanine ligase [Medicago truncatula]	Back alignment and taxonomy information

>gi\|449439825\|ref\|XP_004137686.1\| PREDICTED: uncharacterized protein LOC101204441 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|356532203\|ref\|XP_003534663.1\| PREDICTED: uncharacterized protein LOC100819595 [Glycine max]	Back alignment and taxonomy information

>gi\|356566751\|ref\|XP_003551592.1\| PREDICTED: uncharacterized protein LOC100775955 [Glycine max]	Back alignment and taxonomy information

>gi\|449483593\|ref\|XP_004156633.1\| PREDICTED: uncharacterized LOC101204441 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|297833634\|ref\|XP_002884699.1\| D-alanine--D-alanine ligase family [Arabidopsis lyrata subsp. lyrata] gi\|297330539\|gb\|EFH60958.1\| D-alanine--D-alanine ligase family [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|357506463\|ref\|XP_003623520.1\| D-alanine--D-alanine ligase [Medicago truncatula] gi\|355498535\|gb\|AES79738.1\| D-alanine--D-alanine ligase [Medicago truncatula]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		741
TAIR\|locus:2097648		937	AT3G08840 [Arabidopsis thalian	0.975	0.771	0.682	7.3e-265
TIGR_CMR\|CHY_1346		312	CHY_1346 "D-alanine--D-alanine	0.184	0.439	0.324	1.5e-20
TIGR_CMR\|GSU_3066		316	GSU_3066 "D-alanine--D-alanine	0.153	0.360	0.369	1.4e-17
UNIPROTKB\|P07862		306	ddlB [Escherichia coli K-12 (t	0.132	0.320	0.420	6e-16
UNIPROTKB\|P0A6J8		364	ddlA [Escherichia coli K-12 (t	0.144	0.293	0.347	5.6e-14
TIGR_CMR\|CPS_4463		317	CPS_4463 "D-alanine--D-alanine	0.129	0.302	0.365	1e-13
TIGR_CMR\|BA_2610		304	BA_2610 "D-alanine--D-alanine	0.141	0.345	0.35	1.8e-12
TIGR_CMR\|CBU_1338		372	CBU_1338 "D-alanine--D-alanine	0.144	0.287	0.315	1.2e-11
UNIPROTKB\|P95114		373	ddl "D-alanine--D-alanine liga	0.148	0.294	0.391	1.9e-11
TIGR_CMR\|SPO_1201		306	SPO_1201 "D-alanine--D-alanine	0.086	0.209	0.402	2.6e-08

TAIR\|locus:2097648 AT3G08840 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 2548 (902.0 bits), Expect = 7.3e-265, P = 7.3e-265
 Identities = 504/739 (68%), Positives = 594/739 (80%)

Query:     1 MSKQGFITVPSFLLQGSEVNESELSNWFVTNKLDPNSGKVVVKPTRAGSSIGVTVAYGVI 60
             + + GF+TVP++L+QG+ V++SE++ WF  N+LD   GKVVVKP +AGSSIGV VA+GV 
Sbjct:   213 LKELGFMTVPNYLVQGTGVDKSEIALWFTDNQLDLEMGKVVVKPAKAGSSIGVKVAFGVN 272

Query:    61 DSLKKAKGIILEGIDDRVVVELFLEGGSEFTAIVLDVGSGFDCHPVVLLPTEVELQFQGS 120
             DS+KKA  +ILEGIDDRVVVE+F+E   EFTAIVLDVGSG  CHPVVL+PTEV+LQF G 
Sbjct:   273 DSIKKATELILEGIDDRVVVEVFIEDAYEFTAIVLDVGSGSVCHPVVLMPTEVQLQFHGI 332

Query:   121 VDVREKDAIFNYRRKYLPTQQVAYHTPPRFPIVVINSIREGASLLFQRLGLCDFARIDGW 180
              D +E +AIF+YRRKYLPTQQV YHTPPRFPI VI SIRE ASL+FQ+LGL DFARIDGW
Sbjct:   333 GDPKE-NAIFDYRRKYLPTQQVTYHTPPRFPIHVIKSIREEASLIFQKLGLRDFARIDGW 391

Query:   181 FLPSSTHVFSSSETKYGSTEWGTILFTDINLISGMEQTSFLFQQASKVGFSHSNILRTII 240
             +L  ++++ S      G T+ G I+FTDINLISGMEQTSFLFQQASKVGFSHSNILRTI+
Sbjct:   392 YLAPNSNLSSPVSETLGGTKSGDIIFTDINLISGMEQTSFLFQQASKVGFSHSNILRTIV 451

Query:   241 GHACSRFPNLASYNSVSSHLPGRSSGSKPTEALNKREGIREVFVIFGGDTSERQVSLMSG 300
               ACSRFP+L  YN   S L     GS   E     E  ++VFVIFGGDTSERQVS+MSG
Sbjct:   452 HRACSRFPHLDWYNYGYSQL---LQGSTTLEV---SEDPQKVFVIFGGDTSERQVSVMSG 505

Query:   301 TNVWLNLQAFNDIEVTPCLLASSIDCSSGMDANITDPDSSSRVVWSLPYSLVLRHTTEEV 360
             TNVW+NLQ + D+ VTPCLL+ S+  S G  +N+      +R VW LPYS+VLRHT EEV
Sbjct:   506 TNVWVNLQRYVDLNVTPCLLSPSLSNSLGASSNL-----DNREVWVLPYSVVLRHTAEEV 560

Query:   361 LAACIEAIEPDRAAFTSHLRNQVVNDLVEGLKKHSWFTGFDIADELPMRHSINEWIKLAK 420
             LAAC+EA+EP RA FTS L+ QV+ DL++G K  SWF GFDI DELP ++S+ EWIK AK
Sbjct:   561 LAACLEAVEPVRALFTSLLQKQVMEDLMDGFKNQSWFAGFDITDELPRKYSLKEWIKHAK 620

Query:   421 ENQATVFIAVHGGIGEDGTLQSLLEAEGVPYTGPGVMASKTCMDKVATSLALNHLADLGV 480
             E QATVFIAVHGGIGEDGTLQ LLE EGV YTGPGV+AS+TCMDKV TS AL++L++ G+
Sbjct:   621 EAQATVFIAVHGGIGEDGTLQGLLEDEGVSYTGPGVLASRTCMDKVMTSQALSNLSEFGI 680

Query:   481 LTINKDVRRKEDLLKTPIVDIWHELTSKLQCKTLCVKPARDGCSTGVARLCCAEDLTVYV 540
              TI+KDV+R ED++     ++W EL  KLQC TLCVKPA+DGCSTGVARLC +EDL VYV
Sbjct:   681 HTISKDVKRTEDIMHETFPNVWDELIKKLQCLTLCVKPAKDGCSTGVARLCSSEDLAVYV 740

Query:   541 KALEECLLRIPPNSFSRAHGMIEMPNPPPEILIFEPFVETDEILFSSQSTNKNADRLMWK 600
             +AL++C+ RIPPN+ S+ HGMIEMPNP PE LIFEPFVETDEI+ SS    K   +L WK
Sbjct:   741 QALKDCIPRIPPNTLSKTHGMIEMPNPTPEFLIFEPFVETDEIIVSS----KAKQQLSWK 796

Query:   601 GNSRWVEITVGVIGKCGSMHSLMPSVTVKESGDILSLEEKFQGGTGINLTPPPASIMSTE 660
             G  RWVE+TVGVIGK GSMHSL PS+TVKESGDILSLEEKFQGGTGINLTPPP +IMS E
Sbjct:   797 GRRRWVEMTVGVIGKRGSMHSLSPSLTVKESGDILSLEEKFQGGTGINLTPPPPTIMSKE 856

Query:   661 ALDKCKQRIELIANALQLEGFSRIDAFVNVDNGEVLIIEVNTVPGMTPSTVLIHQALSEQ 720
             AL++CKQ IELIA  L LEGFSRIDAFV+V+ GEVL+IEVNTVPGMTPSTVLI QAL+EQ
Sbjct:   857 ALERCKQGIELIAETLGLEGFSRIDAFVHVETGEVLVIEVNTVPGMTPSTVLIQQALAEQ 916

Query:   721 PPMYPHQFFRKVLDLGSER 739
             PPMYP QFFR +L L ++R
Sbjct:   917 PPMYPPQFFRTLLHLATQR 935

GO:0005524 "ATP binding" evidence=IEA

GO:0005618 "cell wall" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0008716 "D-alanine-D-alanine ligase activity" evidence=IEA;ISS

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0009507 "chloroplast" evidence=IDA

TIGR_CMR\|CHY_1346 CHY_1346 "D-alanine--D-alanine ligase" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]	Back alignment and assigned GO terms

TIGR_CMR\|GSU_3066 GSU_3066 "D-alanine--D-alanine ligase" [Geobacter sulfurreducens PCA (taxid:243231)]	Back alignment and assigned GO terms

UNIPROTKB\|P07862 ddlB [Escherichia coli K-12 (taxid:83333)]	Back alignment and assigned GO terms

UNIPROTKB\|P0A6J8 ddlA [Escherichia coli K-12 (taxid:83333)]	Back alignment and assigned GO terms

TIGR_CMR\|CPS_4463 CPS_4463 "D-alanine--D-alanine ligase" [Colwellia psychrerythraea 34H (taxid:167879)]	Back alignment and assigned GO terms

TIGR_CMR\|BA_2610 BA_2610 "D-alanine--D-alanine ligase" [Bacillus anthracis str. Ames (taxid:198094)]	Back alignment and assigned GO terms

TIGR_CMR\|CBU_1338 CBU_1338 "D-alanine--D-alanine ligase" [Coxiella burnetii RSA 493 (taxid:227377)]	Back alignment and assigned GO terms

UNIPROTKB\|P95114 ddl "D-alanine--D-alanine ligase" [Mycobacterium tuberculosis (taxid:1773)]	Back alignment and assigned GO terms

TIGR_CMR\|SPO_1201 SPO_1201 "D-alanine--D-alanine ligase" [Ruegeria pomeroyi DSS-3 (taxid:246200)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!
3rd Layer	6.3.2.4	LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		741
TIGR01205		315	TIGR01205, D_ala_D_alaTIGR, D-alanine--D-alanine l	5e-31
PRK01372		304	PRK01372, ddl, D-alanine--D-alanine ligase; Review	8e-31
PRK01966		333	PRK01966, ddl, D-alanyl-alanine synthetase A; Revi	1e-28
COG1181		317	COG1181, DdlA, D-alanine-D-alanine ligase and rela	1e-26
PRK14571		299	PRK14571, PRK14571, D-alanyl-alanine synthetase A;	2e-14
TIGR01205		315	TIGR01205, D_ala_D_alaTIGR, D-alanine--D-alanine l	3e-13
pfam07478		201	pfam07478, Dala_Dala_lig_C, D-ala D-ala ligase C-t	5e-13
PRK14568		343	PRK14568, vanB, D-alanine--D-lactate ligase; Provi	7e-13
PRK14573		809	PRK14573, PRK14573, bifunctional D-alanyl-alanine	8e-13
PRK14572		347	PRK14572, PRK14572, D-alanyl-alanine synthetase A;	3e-12
PRK01966		333	PRK01966, ddl, D-alanyl-alanine synthetase A; Revi	2e-10
COG1181		317	COG1181, DdlA, D-alanine-D-alanine ligase and rela	2e-10
pfam07478		201	pfam07478, Dala_Dala_lig_C, D-ala D-ala ligase C-t	2e-10
pfam01820		110	pfam01820, Dala_Dala_lig_N, D-ala D-ala ligase N-t	2e-10
PRK14569		296	PRK14569, PRK14569, D-alanyl-alanine synthetase A;	1e-07
PRK14571		299	PRK14571, PRK14571, D-alanyl-alanine synthetase A;	2e-07
PRK01372		304	PRK01372, ddl, D-alanine--D-alanine ligase; Review	8e-07
PRK14570		364	PRK14570, PRK14570, D-alanyl-alanine synthetase A;	3e-06
PRK14572		347	PRK14572, PRK14572, D-alanyl-alanine synthetase A;	9e-05
PRK14568		343	PRK14568, vanB, D-alanine--D-lactate ligase; Provi	1e-04
PRK01372		304	PRK01372, ddl, D-alanine--D-alanine ligase; Review	0.001
PRK14570		364	PRK14570, PRK14570, D-alanyl-alanine synthetase A;	0.003

>gnl\|CDD\|233310 TIGR01205, D_ala_D_alaTIGR, D-alanine--D-alanine ligase	Back alignment and domain information

 Score =  123 bits (311), Expect = 5e-31
 Identities = 84/331 (25%), Positives = 130/331 (39%), Gaps = 91/331 (27%)

Query: 390 GLKKHSWFTGFDIADELPMRHSINEWIKLAKENQATVFIAVHGGIGEDGTLQSLLEAEGV 449
            + K   +T  D+   +         +    E    VF  +HG  GEDGT+Q LLE  G+
Sbjct: 38  DIDKMGSWTYKDLPQLI-------LELGALLEGIDVVFPVLHGRYGEDGTIQGLLELMGI 90

Query: 450 PYTGPGVMASKTCMDKVAT-----SLALNHLADLGVLTINK------DVRRKEDLLKTPI 498
           PYTG GV+AS   MDK+ T     +L L    D  VLT N+      +  +  + L  P+
Sbjct: 91  PYTGSGVLASALSMDKLLTKLLWKALGLP-TPDYIVLTQNRASADELECEQVAEPLGFPV 149

Query: 499 VDIWHELTSKLQCKTLCVKPARDGCSTGVARLCCAEDLTVYVKALEECLLRIPPNSFSRA 558
           +                VKPAR+G S GV++    +       AL+E         +   
Sbjct: 150 I----------------VKPAREGSSVGVSK---VKSEEELQAALDEAF------EYDE- 183

Query: 559 HGMIEMPNPPPEILIFEPFVETDEILFSSQSTNKNADRLMWKGNSRWVEITVGVIGKCGS 618
                      E+L+ E F++                           E+ V ++G    
Sbjct: 184 -----------EVLV-EQFIKGR-------------------------ELEVSILG---- 202

Query: 619 MHSLMPSV-TVKESGDILSLEEKFQGGTGINLTPPPASIMSTEALDKCKQRIELIANALQ 677
               +P +  V E       E K+  G+   + P P   +  E  +K K+       AL 
Sbjct: 203 NEEALPIIEIVPEIEGFYDYEAKYLDGSTEYVIPAP---LDEELEEKIKELALKAYKALG 259

Query: 678 LEGFSRIDAFVNVDNGEVLIIEVNTVPGMTP 708
             G +R+D F+  + GE+ + E+NT+PGMT 
Sbjct: 260 CRGLARVDFFL-DEEGEIYLNEINTIPGMTA 289

This model describes D-Ala--D-Ala ligase, an enzyme that makes a required precursor of the bacterial cell wall. It also describes some closely related proteins responsible for resistance to glycopeptide antibiotics such as vancomycin. The mechanism of glyopeptide antibiotic resistance involves the production of D-alanine-D-lactate (VanA and VanB families) or D-alanine-D-serine (VanC). The seed alignment contains only chromosomally encoded D-ala--D-ala ligases, but a number of antibiotic resistance proteins score above the trusted cutoff of this model [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan]. Length = 315

>gnl\|CDD\|234948 PRK01372, ddl, D-alanine--D-alanine ligase; Reviewed	Back alignment and domain information

>gnl\|CDD\|234993 PRK01966, ddl, D-alanyl-alanine synthetase A; Reviewed	Back alignment and domain information

>gnl\|CDD\|224102 COG1181, DdlA, D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]	Back alignment and domain information

>gnl\|CDD\|184751 PRK14571, PRK14571, D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>gnl\|CDD\|233310 TIGR01205, D_ala_D_alaTIGR, D-alanine--D-alanine ligase	Back alignment and domain information

>gnl\|CDD\|203643 pfam07478, Dala_Dala_lig_C, D-ala D-ala ligase C-terminus	Back alignment and domain information

>gnl\|CDD\|184750 PRK14568, vanB, D-alanine--D-lactate ligase; Provisional	Back alignment and domain information

>gnl\|CDD\|184752 PRK14573, PRK14573, bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional	Back alignment and domain information

>gnl\|CDD\|173036 PRK14572, PRK14572, D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>gnl\|CDD\|234993 PRK01966, ddl, D-alanyl-alanine synthetase A; Reviewed	Back alignment and domain information

>gnl\|CDD\|224102 COG1181, DdlA, D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]	Back alignment and domain information

>gnl\|CDD\|203643 pfam07478, Dala_Dala_lig_C, D-ala D-ala ligase C-terminus	Back alignment and domain information

>gnl\|CDD\|216721 pfam01820, Dala_Dala_lig_N, D-ala D-ala ligase N-terminus	Back alignment and domain information

>gnl\|CDD\|173033 PRK14569, PRK14569, D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>gnl\|CDD\|184751 PRK14571, PRK14571, D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>gnl\|CDD\|234948 PRK01372, ddl, D-alanine--D-alanine ligase; Reviewed	Back alignment and domain information

>gnl\|CDD\|173034 PRK14570, PRK14570, D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>gnl\|CDD\|173036 PRK14572, PRK14572, D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>gnl\|CDD\|184750 PRK14568, vanB, D-alanine--D-lactate ligase; Provisional	Back alignment and domain information

>gnl\|CDD\|234948 PRK01372, ddl, D-alanine--D-alanine ligase; Reviewed	Back alignment and domain information

>gnl\|CDD\|173034 PRK14570, PRK14570, D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		741
PRK14570		364	D-alanyl-alanine synthetase A; Provisional	100.0
PRK14568		343	vanB D-alanine--D-lactate ligase; Provisional	100.0
PRK01966		333	ddl D-alanyl-alanine synthetase A; Reviewed	100.0
PRK14572		347	D-alanyl-alanine synthetase A; Provisional	100.0
PRK14573		809	bifunctional D-alanyl-alanine synthetase A/UDP-N-a	100.0
PRK14569		296	D-alanyl-alanine synthetase A; Provisional	100.0
COG1181		317	DdlA D-alanine-D-alanine ligase and related ATP-gr	100.0
PRK14571		299	D-alanyl-alanine synthetase A; Provisional	100.0
TIGR01205		315	D_ala_D_alaTIGR D-alanine--D-alanine ligase. but a	100.0
PRK01372		304	ddl D-alanine--D-alanine ligase; Reviewed	100.0
PLN02735		1102	carbamoyl-phosphate synthase	100.0
PRK05294		1066	carB carbamoyl phosphate synthase large subunit; R	100.0
TIGR01369		1050	CPSaseII_lrg carbamoyl-phosphate synthase, large s	100.0
PRK12815		1068	carB carbamoyl phosphate synthase large subunit; R	100.0
PF07478		203	Dala_Dala_lig_C: D-ala D-ala ligase C-terminus; In	100.0
PF07478		203	Dala_Dala_lig_C: D-ala D-ala ligase C-terminus; In	100.0
PRK14570		364	D-alanyl-alanine synthetase A; Provisional	100.0
PRK14572		347	D-alanyl-alanine synthetase A; Provisional	99.97
PRK01966		333	ddl D-alanyl-alanine synthetase A; Reviewed	99.97
PRK10446		300	ribosomal protein S6 modification protein; Provisi	99.97
PRK06524		493	biotin carboxylase-like protein; Validated	99.97
PRK14568		343	vanB D-alanine--D-lactate ligase; Provisional	99.97
PLN02735		1102	carbamoyl-phosphate synthase	99.97
PRK14573		809	bifunctional D-alanyl-alanine synthetase A/UDP-N-a	99.96
PRK14569		296	D-alanyl-alanine synthetase A; Provisional	99.96
PRK14571		299	D-alanyl-alanine synthetase A; Provisional	99.96
PRK01372		304	ddl D-alanine--D-alanine ligase; Reviewed	99.95
COG1181		317	DdlA D-alanine-D-alanine ligase and related ATP-gr	99.95
TIGR01205		315	D_ala_D_alaTIGR D-alanine--D-alanine ligase. but a	99.95
PRK13789		426	phosphoribosylamine--glycine ligase; Provisional	99.94
PLN02948		577	phosphoribosylaminoimidazole carboxylase	99.94
TIGR01369		1050	CPSaseII_lrg carbamoyl-phosphate synthase, large s	99.94
PRK12815		1068	carB carbamoyl phosphate synthase large subunit; R	99.94
PRK05294		1066	carB carbamoyl phosphate synthase large subunit; R	99.94
PF01820		117	Dala_Dala_lig_N: D-ala D-ala ligase N-terminus; In	99.93
PLN02257		434	phosphoribosylamine--glycine ligase	99.93
PRK05586		447	biotin carboxylase; Validated	99.93
TIGR00514		449	accC acetyl-CoA carboxylase, biotin carboxylase su	99.92
PRK13790		379	phosphoribosylamine--glycine ligase; Provisional	99.92
PRK08462		445	biotin carboxylase; Validated	99.91
PRK08654		499	pyruvate carboxylase subunit A; Validated	99.91
PRK12833		467	acetyl-CoA carboxylase biotin carboxylase subunit;	99.91
PRK08591		451	acetyl-CoA carboxylase biotin carboxylase subunit;	99.91
PRK07178		472	pyruvate carboxylase subunit A; Validated	99.91
PRK08463		478	acetyl-CoA carboxylase subunit A; Validated	99.91
PRK06111		450	acetyl-CoA carboxylase biotin carboxylase subunit;	99.9
PRK00885		420	phosphoribosylamine--glycine ligase; Provisional	99.9
TIGR01161		352	purK phosphoribosylaminoimidazole carboxylase, Pur	99.9
TIGR01142		380	purT phosphoribosylglycinamide formyltransferase 2	99.89
PRK06019		372	phosphoribosylaminoimidazole carboxylase ATPase su	99.89
TIGR00877		423	purD phosphoribosylamine--glycine ligase. This enz	99.89
TIGR00768		277	rimK_fam alpha-L-glutamate ligases, RimK family. T	99.88
TIGR01235		1143	pyruv_carbox pyruvate carboxylase. This enzyme pla	99.88
TIGR02144		280	LysX_arch Lysine biosynthesis enzyme LysX. The fam	99.88
COG0458		400	CarB Carbamoylphosphate synthase large subunit (sp	99.88
TIGR02712		1201	urea_carbox urea carboxylase. Members of this fami	99.87
PRK05784		486	phosphoribosylamine--glycine ligase; Provisional	99.86
PRK06395		435	phosphoribosylamine--glycine ligase; Provisional	99.86
PRK09288		395	purT phosphoribosylglycinamide formyltransferase 2	99.85
PRK07206		416	hypothetical protein; Provisional	99.85
PRK08654		499	pyruvate carboxylase subunit A; Validated	99.85
COG0439		449	AccC Biotin carboxylase [Lipid metabolism]	99.85
PRK12999		1146	pyruvate carboxylase; Reviewed	99.84
PRK12767		326	carbamoyl phosphate synthase-like protein; Provisi	99.84
PRK12833		467	acetyl-CoA carboxylase biotin carboxylase subunit;	99.84
PRK07178		472	pyruvate carboxylase subunit A; Validated	99.84
PRK08463		478	acetyl-CoA carboxylase subunit A; Validated	99.83
PRK06524		493	biotin carboxylase-like protein; Validated	99.83
PRK02186		887	argininosuccinate lyase; Provisional	99.83
PF13535		184	ATP-grasp_4: ATP-grasp domain; PDB: 3VMM_A 3LN6_A	99.83
PRK05586		447	biotin carboxylase; Validated	99.83
TIGR00514		449	accC acetyl-CoA carboxylase, biotin carboxylase su	99.83
PF02786		211	CPSase_L_D2: Carbamoyl-phosphate synthase L chain,	99.82
PRK10446		300	ribosomal protein S6 modification protein; Provisi	99.82
TIGR01235		1143	pyruv_carbox pyruvate carboxylase. This enzyme pla	99.82
PRK13789		426	phosphoribosylamine--glycine ligase; Provisional	99.82
TIGR01161		352	purK phosphoribosylaminoimidazole carboxylase, Pur	99.82
COG0439		449	AccC Biotin carboxylase [Lipid metabolism]	99.82
PRK06019		372	phosphoribosylaminoimidazole carboxylase ATPase su	99.82
PLN02948		577	phosphoribosylaminoimidazole carboxylase	99.82
KOG0238		670	consensus 3-Methylcrotonyl-CoA carboxylase, biotin	99.81
PLN02257		434	phosphoribosylamine--glycine ligase	99.81
COG4770		645	Acetyl/propionyl-CoA carboxylase, alpha subunit [L	99.81
TIGR01142		380	purT phosphoribosylglycinamide formyltransferase 2	99.8
PRK08591		451	acetyl-CoA carboxylase biotin carboxylase subunit;	99.8
PF15632		329	ATPgrasp_Ter: ATP-grasp in the biosynthetic pathwa	99.79
PRK12999		1146	pyruvate carboxylase; Reviewed	99.79
PRK13790		379	phosphoribosylamine--glycine ligase; Provisional	99.78
PF02786		211	CPSase_L_D2: Carbamoyl-phosphate synthase L chain,	99.78
COG4770		645	Acetyl/propionyl-CoA carboxylase, alpha subunit [L	99.78
PRK08462		445	biotin carboxylase; Validated	99.77
PF02222		172	ATP-grasp: ATP-grasp domain; InterPro: IPR003135 T	99.77
PRK07206		416	hypothetical protein; Provisional	99.76
PRK00885		420	phosphoribosylamine--glycine ligase; Provisional	99.76
PF13535		184	ATP-grasp_4: ATP-grasp domain; PDB: 3VMM_A 3LN6_A	99.76
PRK09288		395	purT phosphoribosylglycinamide formyltransferase 2	99.75
TIGR02712		1201	urea_carbox urea carboxylase. Members of this fami	99.75
KOG0238		670	consensus 3-Methylcrotonyl-CoA carboxylase, biotin	99.73
PF02222		172	ATP-grasp: ATP-grasp domain; InterPro: IPR003135 T	99.73
TIGR02144		280	LysX_arch Lysine biosynthesis enzyme LysX. The fam	99.73
PRK06111		450	acetyl-CoA carboxylase biotin carboxylase subunit;	99.72
COG0027		394	PurT Formate-dependent phosphoribosylglycinamide f	99.72
COG1038		1149	PycA Pyruvate carboxylase [Energy production and c	99.72
PRK02186		887	argininosuccinate lyase; Provisional	99.72
PF08443		190	RimK: RimK-like ATP-grasp domain; InterPro: IPR013	99.72
TIGR01435		737	glu_cys_lig_rel glutamate--cysteine ligase/gamma-g	99.72
PRK06849		389	hypothetical protein; Provisional	99.71
PRK13278		358	purP 5-formaminoimidazole-4-carboxamide-1-(beta)-D	99.71
TIGR00877		423	purD phosphoribosylamine--glycine ligase. This enz	99.7
PRK02471		752	bifunctional glutamate--cysteine ligase/glutathion	99.69
TIGR00768		277	rimK_fam alpha-L-glutamate ligases, RimK family. T	99.69
), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ...." target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF01071">PF01071		194	GARS_A: Phosphoribosylglycinamide synthetase, ATP-	99.68
PF02655		161	ATP-grasp_3: ATP-grasp domain; InterPro: IPR003806	99.68
COG0151		428	PurD Phosphoribosylamine-glycine ligase [Nucleotid	99.68
PRK06395		435	phosphoribosylamine--glycine ligase; Provisional	99.67
PRK12767		326	carbamoyl phosphate synthase-like protein; Provisi	99.65
COG1038		1149	PycA Pyruvate carboxylase [Energy production and c	99.65
COG0189		318	RimK Glutathione synthase/Ribosomal protein S6 mod	99.65
TIGR03103		547	trio_acet_GNAT GNAT-family acetyltransferase TIGR0	99.65
PRK14016		727	cyanophycin synthetase; Provisional	99.65
COG0026		375	PurK Phosphoribosylaminoimidazole carboxylase (NCA	99.64
), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ...." target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF01071">PF01071		194	GARS_A: Phosphoribosylglycinamide synthetase, ATP-	99.64
KOG0370		1435	consensus Multifunctional pyrimidine synthesis pro	99.63
PRK05784		486	phosphoribosylamine--glycine ligase; Provisional	99.63
TIGR02068		864	cya_phycin_syn cyanophycin synthetase. Cyanophycin	99.62
TIGR02291		317	rimK_rel_E_lig alpha-L-glutamate ligase-related pr	99.61
COG0151		428	PurD Phosphoribosylamine-glycine ligase [Nucleotid	99.6
PF02655		161	ATP-grasp_3: ATP-grasp domain; InterPro: IPR003806	99.6
PLN02941		328	inositol-tetrakisphosphate 1-kinase	99.59
COG0026		375	PurK Phosphoribosylaminoimidazole carboxylase (NCA	99.59
PRK13278		358	purP 5-formaminoimidazole-4-carboxamide-1-(beta)-D	99.59
PF08443		190	RimK: RimK-like ATP-grasp domain; InterPro: IPR013	99.58
KOG0369		1176	consensus Pyruvate carboxylase [Energy production	99.58
COG0027		394	PurT Formate-dependent phosphoribosylglycinamide f	99.56
COG1821		307	Predicted ATP-utilizing enzyme (ATP-grasp superfam	99.56
KOG0369		1176	consensus Pyruvate carboxylase [Energy production	99.54
PRK13277		366	5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribo	99.53
PF15632		329	ATPgrasp_Ter: ATP-grasp in the biosynthetic pathwa	99.52
COG0458		400	CarB Carbamoylphosphate synthase large subunit (sp	99.49
PRK06849		389	hypothetical protein; Provisional	99.47
PRK13277		366	5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribo	99.47
KOG0368		2196	consensus Acetyl-CoA carboxylase [Lipid transport	99.46
COG0189		318	RimK Glutathione synthase/Ribosomal protein S6 mod	99.45
TIGR01435		737	glu_cys_lig_rel glutamate--cysteine ligase/gamma-g	99.45
TIGR03103		547	trio_acet_GNAT GNAT-family acetyltransferase TIGR0	99.44
TIGR02291		317	rimK_rel_E_lig alpha-L-glutamate ligase-related pr	99.41
PRK02471		752	bifunctional glutamate--cysteine ligase/glutathion	99.38
TIGR02068		864	cya_phycin_syn cyanophycin synthetase. Cyanophycin	99.36
PRK14016		727	cyanophycin synthetase; Provisional	99.35
PRK12458		338	glutathione synthetase; Provisional	99.3
KOG0368		2196	consensus Acetyl-CoA carboxylase [Lipid transport	99.3
KOG0237		788	consensus Glycinamide ribonucleotide synthetase (G	99.29
COG3919		415	Predicted ATP-grasp enzyme [General function predi	99.26
TIGR01380		312	glut_syn glutathione synthetase, prokaryotic. This	99.26
PRK05246		316	glutathione synthetase; Provisional	99.23
KOG0237		788	consensus Glycinamide ribonucleotide synthetase (G	99.22
COG3919		415	Predicted ATP-grasp enzyme [General function predi	99.19
PLN02941		328	inositol-tetrakisphosphate 1-kinase	99.19
COG2232		389	Predicted ATP-dependent carboligase related to bio	99.17
COG1821		307	Predicted ATP-utilizing enzyme (ATP-grasp superfam	99.03
COG2232		389	Predicted ATP-dependent carboligase related to bio	99.01
KOG0370		1435	consensus Multifunctional pyrimidine synthesis pro	98.95
TIGR01016		386	sucCoAbeta succinyl-CoA synthetase, beta subunit.	98.94
PRK12458		338	glutathione synthetase; Provisional	98.91
TIGR01380		312	glut_syn glutathione synthetase, prokaryotic. This	98.91
TIGR01016		386	sucCoAbeta succinyl-CoA synthetase, beta subunit.	98.91
PRK05246		316	glutathione synthetase; Provisional	98.84
PF14397		285	ATPgrasp_ST: Sugar-transfer associated ATP-grasp	98.74
PF14398		262	ATPgrasp_YheCD: YheC/D like ATP-grasp	98.66
PF05770		307	Ins134_P3_kin: Inositol 1, 3, 4-trisphosphate 5/6-	98.64
PRK00696		388	sucC succinyl-CoA synthetase subunit beta; Provisi	98.35
PF14398		262	ATPgrasp_YheCD: YheC/D like ATP-grasp	98.33
PF02955		173	GSH-S_ATP: Prokaryotic glutathione synthetase, ATP	98.28
PF02955		173	GSH-S_ATP: Prokaryotic glutathione synthetase, ATP	98.26
PF14397		285	ATPgrasp_ST: Sugar-transfer associated ATP-grasp	98.13
PF05770		307	Ins134_P3_kin: Inositol 1, 3, 4-trisphosphate 5/6-	98.13
PF14305		239	ATPgrasp_TupA: TupA-like ATPgrasp	98.07
PRK00696		388	sucC succinyl-CoA synthetase subunit beta; Provisi	98.05
PF03133		292	TTL: Tubulin-tyrosine ligase family; InterPro: IPR	97.99
COG1759		361	5-formaminoimidazole-4-carboxamide-1-beta-D-ribofu	97.8
PF03133		292	TTL: Tubulin-tyrosine ligase family; InterPro: IPR	97.76
KOG3895		488	consensus Synaptic vesicle protein Synapsin [Signa	97.71
PF08442		202	ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650	97.68
PRK14046		392	malate--CoA ligase subunit beta; Provisional	97.62
PF02750		203	Synapsin_C: Synapsin, ATP binding domain; InterPro	97.5
PF14305		239	ATPgrasp_TupA: TupA-like ATPgrasp	97.38
COG0045		387	SucC Succinyl-CoA synthetase, beta subunit [Energy	97.3
COG1759		361	5-formaminoimidazole-4-carboxamide-1-beta-D-ribofu	97.27
PLN00124		422	succinyl-CoA ligase [GDP-forming] subunit beta; Pr	97.23
COG0045		387	SucC Succinyl-CoA synthetase, beta subunit [Energy	97.11
PF02750		203	Synapsin_C: Synapsin, ATP binding domain; InterPro	97.05
PF13549		222	ATP-grasp_5: ATP-grasp domain; PDB: 1WR2_A.	96.91
PF13549		222	ATP-grasp_5: ATP-grasp domain; PDB: 1WR2_A.	96.62
PLN00124		422	succinyl-CoA ligase [GDP-forming] subunit beta; Pr	96.56
PRK14046		392	malate--CoA ligase subunit beta; Provisional	96.43
PF08442		202	ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650	96.38
PLN02235		423	ATP citrate (pro-S)-lyase	96.35
PF14403		445	CP_ATPgrasp_2: Circularly permuted ATP-grasp type	96.33
PLN02235		423	ATP citrate (pro-S)-lyase	96.22
KOG2156		662	consensus Tubulin-tyrosine ligase-related protein	94.37
PF14243		130	DUF4343: Domain of unknown function (DUF4343)	92.15
KOG2157		497	consensus Predicted tubulin-tyrosine ligase [Postt	91.57
KOG2156		662	consensus Tubulin-tyrosine ligase-related protein	91.34
PF14243		130	DUF4343: Domain of unknown function (DUF4343)	91.16
KOG3895		488	consensus Synaptic vesicle protein Synapsin [Signa	90.36
KOG1057		1018	consensus Arp2/3 complex-interacting protein VIP1/	89.83
KOG1057		1018	consensus Arp2/3 complex-interacting protein VIP1/	86.91
PRK05849		783	hypothetical protein; Provisional	84.81
PF14403		445	CP_ATPgrasp_2: Circularly permuted ATP-grasp type	80.95

>PRK14570 D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

Probab=100.00  E-value=3.1e-63  Score=542.56  Aligned_cols=344  Identities=23%  Similarity=0.327  Sum_probs=267.6

Q ss_pred             ceEEEEEecCCccceeeeeccHHHHHHhhhcCCCeeEEEEEEecC-CCccCCCCCCCCCCCCCcccccccccccccccch
Q 004630          279 IREVFVIFGGDTSERQVSLMSGTNVWLNLQAFNDIEVTPCLLASS-IDCSSGMDANITDPDSSSRVVWSLPYSLVLRHTT  357 (741)
Q Consensus       279 k~~V~vlfGG~S~E~~vSl~sa~~v~~~l~~~~~~~v~~i~i~~~-~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~  357 (741)
                      |+||+|||||.|+||||||.||++|+++|+++.+|+|+||+|+++ |.|+.....          ..+.  .        
T Consensus         2 ~~~v~vl~GG~S~EhevSl~Sa~~v~~~l~~~~~~~v~~i~i~~~~g~~~~~~~~----------~~~~--~--------   61 (364)
T PRK14570          2 KKNLMLIFGGVSFEHEISLRSAYGIYSALLKLDKYNIYSVFIDKCTGIWYLLDSV----------PDPP--K--------   61 (364)
T ss_pred             CcEEEEEECCCCcchhhhHHhHHHHHHHhccccCceEEEEEEecCCCeEEecCcc----------cccc--c--------
Confidence            779999999999999999999999999994357999999999998 778642210          0000  0        


Q ss_pred             HHHHHhhhhccCCchhhhhccccchhhhhhhhccccCcccccccccccCccccchHHHHHHhccCccEEEEccCCCCCCc
Q 004630          358 EEVLAACIEAIEPDRAAFTSHLRNQVVNDLVEGLKKHSWFTGFDIADELPMRHSINEWIKLAKENQATVFIAVHGGIGED  437 (741)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dvvf~~lhG~~GEd  437 (741)
                        .       .........+         .   .....+.                  .......+|+|||++||.+|||
T Consensus        62 --~-------~~~~~~~~~~---------~---~~~~~~~------------------~~~~~~~~D~vf~~lhG~~GEd  102 (364)
T PRK14570         62 --L-------IKRDVLPIVS---------L---IPGCGIF------------------VNNKNLEIDVVFPIVHGRTGED  102 (364)
T ss_pred             --c-------cccccccccc---------c---ccccccc------------------ccCcCcCCCEEEEcCCCCCCCc
Confidence              0       0000000000         0   0000000                  0001124799999999999999


Q ss_pred             hHHHHHHHHcCCCccCCCHHHHHHhhChHHHHHHHHHHHHcCCCccCeEEEeCccccCCchhhHHHHHHhhcCCCcEEEe
Q 004630          438 GTLQSLLEAEGVPYTGPGVMASKTCMDKVATSLALNHLADLGVLTINKDVRRKEDLLKTPIVDIWHELTSKLQCKTLCVK  517 (741)
Q Consensus       438 g~iq~lLE~~giPyvG~~~~asal~~DK~~tk~~~~~l~~~GIp~p~~~~v~~~e~~~~~~~~~~~~~~~~lg~~PvvVK  517 (741)
                      |+||++||++||||+||++.++++||||..+|++   |+++|||||+|..+...++... .++....+...+ +||+|||
T Consensus       103 g~iqglle~~giPy~Gs~~~asal~~DK~~tK~~---l~~~GIpt~p~~~~~~~~~~~~-~~~~~~~~~~~l-g~PviVK  177 (364)
T PRK14570        103 GAIQGFLKVMDIPCVGAGILGSAISINKYFCKLL---LKSFNIPLVPFIGFRKYDYFLD-KEGIKKDIKEVL-GYPVIVK  177 (364)
T ss_pred             CHHHHHHHHcCCCccCCCHHHHHHHHCHHHHHHH---HHHcCCCCCCEEEEeccccccc-hHHHHHHHHHhc-CCCEEEE
Confidence            9999999999999999999999999999999999   9999999999998876443211 122233444678 6999999


Q ss_pred             cCCCCCCcceEEeCCccchHHHHHHHHHHHhcCCCCCcccccccccCCCCCCCeEEEeecccCcchhhcccccccchhhh
Q 004630          518 PARDGCSTGVARLCCAEDLTVYVKALEECLLRIPPNSFSRAHGMIEMPNPPPEILIFEPFVETDEILFSSQSTNKNADRL  597 (741)
Q Consensus       518 P~~~gsS~GV~~v~~~~eL~~~~~al~~a~~~~~~~~l~~~~~~~~~p~~~~~~vlVEefI~G~~~~v~~~~~~~~~~~~  597 (741)
                      |+++|||.||++|++.++|.   .+++.++++                   +..+|||+||+|+                
T Consensus       178 P~~~GsS~Gv~~v~~~~el~---~al~~a~~~-------------------~~~vlVEefI~Gr----------------  219 (364)
T PRK14570        178 PAVLGSSIGINVAYNENQIE---KCIEEAFKY-------------------DLTVVIEKFIEAR----------------  219 (364)
T ss_pred             eCCCCCCCcEEEeCCHHHHH---HHHHHHHhC-------------------CCCEEEECCcCCE----------------
Confidence            99999999999999999988   477888766                   5789999999996                


Q ss_pred             hhcCCCceeEEEEEEEcCCCCceecCceEEEcc-CCcccccccccc--CCCc-eEEcCCCCCCCCHHHHHHHHHHHHHHH
Q 004630          598 MWKGNSRWVEITVGVIGKCGSMHSLMPSVTVKE-SGDILSLEEKFQ--GGTG-INLTPPPASIMSTEALDKCKQRIELIA  673 (741)
Q Consensus       598 ~~~g~~~~~Eisv~vl~~~~~~~~~~~~~~i~~-~~~~~d~~~ky~--~g~~-~~~~Pa~~~~l~~e~~~~i~~~a~~~~  673 (741)
                               |++|+|+++.... .+ +..++.. ...||||++||.  .+.+ ...+|++   +++++.++|+++|.+++
T Consensus       220 ---------Ei~v~Vlg~~~~~-v~-~~~Ei~~~~~~f~dy~~Ky~~~~~~~~~~~~Pa~---l~~e~~~~i~~~A~~~~  285 (364)
T PRK14570        220 ---------EIECSVIGNEQIK-IF-TPGEIVVQDFIFYDYDAKYSTIPGNSIVFNIPAH---LDTKHLLDIKEYAFLTY  285 (364)
T ss_pred             ---------EEEEEEECCCCce-Ee-eeEEEEeCCCCccCHHHhcCCCCCCceEEECCCC---CCHHHHHHHHHHHHHHH
Confidence                     9999999875432 22 2334433 346999999995  3443 4567887   79999999999999999


Q ss_pred             HHcCCcceeEEEEEEEcCCCcEEEEecCCCCCCCCCchHHHHHHhcCCCCCHHHHHHHHHHHHHhcc
Q 004630          674 NALQLEGFSRIDAFVNVDNGEVLIIEVNTVPGMTPSTVLIHQALSEQPPMYPHQFFRKVLDLGSERF  740 (741)
Q Consensus       674 ~aLg~~G~~rvDf~v~~~~g~~~viEINt~Pg~t~~S~l~~~a~~a~~~~~p~~l~~~li~~a~~r~  740 (741)
                      ++|||+|++|||||++.++|++|||||||+||||++|.+|++|.++|  +...+|+++||+.|++||
T Consensus       286 ~aLg~~G~~RvDf~l~~~~g~~yvlEiNt~PG~t~~S~~p~~~~~~G--~~~~~li~~li~~a~~r~  350 (364)
T PRK14570        286 KNLELRGMARIDFLIEKDTGLIYLNEINTIPGFTDISMFAKMCEHDG--LQYKSLVDNLIDLAFQSY  350 (364)
T ss_pred             HHhCCcceEEEEEEEECCCCcEEEEEeeCCCCCCcccHHHHHHHHcC--CCHHHHHHHHHHHHHHHH
Confidence            99999999999999985458999999999999999999999888875  444799999999999986

>PRK14568 vanB D-alanine--D-lactate ligase; Provisional	Back alignment and domain information

>PRK01966 ddl D-alanyl-alanine synthetase A; Reviewed	Back alignment and domain information

>PRK14572 D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>PRK14573 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional	Back alignment and domain information

>PRK14569 D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>COG1181 DdlA D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]	Back alignment and domain information

>PRK14571 D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>TIGR01205 D_ala_D_alaTIGR D-alanine--D-alanine ligase	Back alignment and domain information

>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed	Back alignment and domain information

>PLN02735 carbamoyl-phosphate synthase	Back alignment and domain information

>PRK05294 carB carbamoyl phosphate synthase large subunit; Reviewed	Back alignment and domain information

>TIGR01369 CPSaseII_lrg carbamoyl-phosphate synthase, large subunit	Back alignment and domain information

>PRK12815 carB carbamoyl phosphate synthase large subunit; Reviewed	Back alignment and domain information

>PF07478 Dala_Dala_lig_C: D-ala D-ala ligase C-terminus; InterPro: IPR011095 This entry represents the C-terminal, catalytic domain of the D-alanine--D-alanine ligase enzyme 6	Back alignment and domain information

>PF07478 Dala_Dala_lig_C: D-ala D-ala ligase C-terminus; InterPro: IPR011095 This entry represents the C-terminal, catalytic domain of the D-alanine--D-alanine ligase enzyme 6	Back alignment and domain information

>PRK14570 D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>PRK14572 D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>PRK01966 ddl D-alanyl-alanine synthetase A; Reviewed	Back alignment and domain information

>PRK10446 ribosomal protein S6 modification protein; Provisional	Back alignment and domain information

>PRK06524 biotin carboxylase-like protein; Validated	Back alignment and domain information

>PRK14568 vanB D-alanine--D-lactate ligase; Provisional	Back alignment and domain information

>PLN02735 carbamoyl-phosphate synthase	Back alignment and domain information

>PRK14573 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional	Back alignment and domain information

>PRK14569 D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>PRK14571 D-alanyl-alanine synthetase A; Provisional	Back alignment and domain information

>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed	Back alignment and domain information

>COG1181 DdlA D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]	Back alignment and domain information

>TIGR01205 D_ala_D_alaTIGR D-alanine--D-alanine ligase	Back alignment and domain information

>PRK13789 phosphoribosylamine--glycine ligase; Provisional	Back alignment and domain information

>PLN02948 phosphoribosylaminoimidazole carboxylase	Back alignment and domain information

>TIGR01369 CPSaseII_lrg carbamoyl-phosphate synthase, large subunit	Back alignment and domain information

>PRK12815 carB carbamoyl phosphate synthase large subunit; Reviewed	Back alignment and domain information

>PRK05294 carB carbamoyl phosphate synthase large subunit; Reviewed	Back alignment and domain information

>PF01820 Dala_Dala_lig_N: D-ala D-ala ligase N-terminus; InterPro: IPR011127 This entry represents the N-terminal region of the D-alanine--D-alanine ligase enzyme (6	Back alignment and domain information

>PLN02257 phosphoribosylamine--glycine ligase	Back alignment and domain information

>PRK05586 biotin carboxylase; Validated	Back alignment and domain information

>TIGR00514 accC acetyl-CoA carboxylase, biotin carboxylase subunit	Back alignment and domain information

>PRK13790 phosphoribosylamine--glycine ligase; Provisional	Back alignment and domain information

>PRK08462 biotin carboxylase; Validated	Back alignment and domain information

>PRK08654 pyruvate carboxylase subunit A; Validated	Back alignment and domain information

>PRK12833 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional	Back alignment and domain information

>PRK08591 acetyl-CoA carboxylase biotin carboxylase subunit; Validated	Back alignment and domain information

>PRK07178 pyruvate carboxylase subunit A; Validated	Back alignment and domain information

>PRK08463 acetyl-CoA carboxylase subunit A; Validated	Back alignment and domain information

>PRK06111 acetyl-CoA carboxylase biotin carboxylase subunit; Validated	Back alignment and domain information

>PRK00885 phosphoribosylamine--glycine ligase; Provisional	Back alignment and domain information

>TIGR01161 purK phosphoribosylaminoimidazole carboxylase, PurK protein	Back alignment and domain information

>TIGR01142 purT phosphoribosylglycinamide formyltransferase 2	Back alignment and domain information

>PRK06019 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed	Back alignment and domain information

>TIGR00877 purD phosphoribosylamine--glycine ligase	Back alignment and domain information

>TIGR00768 rimK_fam alpha-L-glutamate ligases, RimK family	Back alignment and domain information

>TIGR01235 pyruv_carbox pyruvate carboxylase	Back alignment and domain information

>TIGR02144 LysX_arch Lysine biosynthesis enzyme LysX	Back alignment and domain information

>COG0458 CarB Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]	Back alignment and domain information

>TIGR02712 urea_carbox urea carboxylase	Back alignment and domain information

>PRK05784 phosphoribosylamine--glycine ligase; Provisional	Back alignment and domain information

>PRK06395 phosphoribosylamine--glycine ligase; Provisional	Back alignment and domain information

>PRK09288 purT phosphoribosylglycinamide formyltransferase 2; Validated	Back alignment and domain information

>PRK07206 hypothetical protein; Provisional	Back alignment and domain information

>PRK08654 pyruvate carboxylase subunit A; Validated	Back alignment and domain information

>COG0439 AccC Biotin carboxylase [Lipid metabolism]	Back alignment and domain information

>PRK12999 pyruvate carboxylase; Reviewed	Back alignment and domain information

>PRK12767 carbamoyl phosphate synthase-like protein; Provisional	Back alignment and domain information

>PRK12833 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional	Back alignment and domain information

>PRK07178 pyruvate carboxylase subunit A; Validated	Back alignment and domain information

>PRK08463 acetyl-CoA carboxylase subunit A; Validated	Back alignment and domain information

>PRK06524 biotin carboxylase-like protein; Validated	Back alignment and domain information

>PRK02186 argininosuccinate lyase; Provisional	Back alignment and domain information

>PF13535 ATP-grasp_4: ATP-grasp domain; PDB: 3VMM_A 3LN6_A 3LN7_B 2PN1_A 4DIM_A	Back alignment and domain information

>PRK05586 biotin carboxylase; Validated	Back alignment and domain information

>TIGR00514 accC acetyl-CoA carboxylase, biotin carboxylase subunit	Back alignment and domain information

>PF02786 CPSase_L_D2: Carbamoyl-phosphate synthase L chain, ATP binding domain; InterPro: IPR005479 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below)	Back alignment and domain information

>PRK10446 ribosomal protein S6 modification protein; Provisional	Back alignment and domain information

>TIGR01235 pyruv_carbox pyruvate carboxylase	Back alignment and domain information

>PRK13789 phosphoribosylamine--glycine ligase; Provisional	Back alignment and domain information

>TIGR01161 purK phosphoribosylaminoimidazole carboxylase, PurK protein	Back alignment and domain information

>COG0439 AccC Biotin carboxylase [Lipid metabolism]	Back alignment and domain information

>PRK06019 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed	Back alignment and domain information

>PLN02948 phosphoribosylaminoimidazole carboxylase	Back alignment and domain information

>KOG0238 consensus 3-Methylcrotonyl-CoA carboxylase, biotin-containing subunit/Propionyl-CoA carboxylase, alpha chain/Acetyl-CoA carboxylase, biotin carboxylase subunit [Lipid transport and metabolism; Amino acid transport and metabolism]	Back alignment and domain information

>PLN02257 phosphoribosylamine--glycine ligase	Back alignment and domain information

>COG4770 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]	Back alignment and domain information

>TIGR01142 purT phosphoribosylglycinamide formyltransferase 2	Back alignment and domain information

>PRK08591 acetyl-CoA carboxylase biotin carboxylase subunit; Validated	Back alignment and domain information

>PF15632 ATPgrasp_Ter: ATP-grasp in the biosynthetic pathway with Ter operon	Back alignment and domain information

>PRK12999 pyruvate carboxylase; Reviewed	Back alignment and domain information

>PRK13790 phosphoribosylamine--glycine ligase; Provisional	Back alignment and domain information

>PF02786 CPSase_L_D2: Carbamoyl-phosphate synthase L chain, ATP binding domain; InterPro: IPR005479 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below)	Back alignment and domain information

>COG4770 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]	Back alignment and domain information

>PRK08462 biotin carboxylase; Validated	Back alignment and domain information

>PF02222 ATP-grasp: ATP-grasp domain; InterPro: IPR003135 The ATP-grasp domain has an unusual nucleotide-binding fold, also referred to as palmate, and is found in a superfamily of enzymes including D-alanine-D-alanine ligase, glutathione synthetase, biotin carboxylase, and carbamoyl phosphate synthetase, the ribosomal protein S6 modification enzyme (RimK), urea amidolyase, tubulin-tyrosine ligase, and three enzymes of purine biosynthesis

Back alignment and domain information

>PRK07206 hypothetical protein; Provisional	Back alignment and domain information

>PRK00885 phosphoribosylamine--glycine ligase; Provisional	Back alignment and domain information

>PF13535 ATP-grasp_4: ATP-grasp domain; PDB: 3VMM_A 3LN6_A 3LN7_B 2PN1_A 4DIM_A	Back alignment and domain information

>PRK09288 purT phosphoribosylglycinamide formyltransferase 2; Validated	Back alignment and domain information

>TIGR02712 urea_carbox urea carboxylase	Back alignment and domain information

>KOG0238 consensus 3-Methylcrotonyl-CoA carboxylase, biotin-containing subunit/Propionyl-CoA carboxylase, alpha chain/Acetyl-CoA carboxylase, biotin carboxylase subunit [Lipid transport and metabolism; Amino acid transport and metabolism]	Back alignment and domain information

Back alignment and domain information

>TIGR02144 LysX_arch Lysine biosynthesis enzyme LysX	Back alignment and domain information

>PRK06111 acetyl-CoA carboxylase biotin carboxylase subunit; Validated	Back alignment and domain information

>COG0027 PurT Formate-dependent phosphoribosylglycinamide formyltransferase (GAR transformylase) [Nucleotide transport and metabolism]	Back alignment and domain information

>COG1038 PycA Pyruvate carboxylase [Energy production and conversion]	Back alignment and domain information

>PRK02186 argininosuccinate lyase; Provisional	Back alignment and domain information

>PF08443 RimK: RimK-like ATP-grasp domain; InterPro: IPR013651 This ATP-grasp domain is found in the ribosomal S6 modification enzyme RimK []	Back alignment and domain information

>TIGR01435 glu_cys_lig_rel glutamate--cysteine ligase/gamma-glutamylcysteine synthetase, Streptococcus agalactiae type	Back alignment and domain information

>PRK06849 hypothetical protein; Provisional	Back alignment and domain information

>PRK13278 purP 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase; Provisional	Back alignment and domain information

>TIGR00877 purD phosphoribosylamine--glycine ligase	Back alignment and domain information

>PRK02471 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional	Back alignment and domain information

>TIGR00768 rimK_fam alpha-L-glutamate ligases, RimK family	Back alignment and domain information

>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6	Back alignment and domain information

>PF02655 ATP-grasp_3: ATP-grasp domain; InterPro: IPR003806 The ATP-grasp fold is one of several distinct ATP-binding folds, and is found in enzymes that catalyze the formation of amide bonds, catalyzing the ATP-dependent ligation of a carboxylate-containing molecule to an amino or thiol group-containing molecule []	Back alignment and domain information

>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]	Back alignment and domain information

>PRK06395 phosphoribosylamine--glycine ligase; Provisional	Back alignment and domain information

>PRK12767 carbamoyl phosphate synthase-like protein; Provisional	Back alignment and domain information

>COG1038 PycA Pyruvate carboxylase [Energy production and conversion]	Back alignment and domain information

>COG0189 RimK Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR03103 trio_acet_GNAT GNAT-family acetyltransferase TIGR03103	Back alignment and domain information

>PRK14016 cyanophycin synthetase; Provisional	Back alignment and domain information

>COG0026 PurK Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]	Back alignment and domain information

>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6	Back alignment and domain information

>KOG0370 consensus Multifunctional pyrimidine synthesis protein CAD (includes carbamoyl-phophate synthetase, aspartate transcarbamylase, and glutamine amidotransferase) [General function prediction only]	Back alignment and domain information

>PRK05784 phosphoribosylamine--glycine ligase; Provisional	Back alignment and domain information

>TIGR02068 cya_phycin_syn cyanophycin synthetase	Back alignment and domain information

>TIGR02291 rimK_rel_E_lig alpha-L-glutamate ligase-related protein	Back alignment and domain information

>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]	Back alignment and domain information

>PF02655 ATP-grasp_3: ATP-grasp domain; InterPro: IPR003806 The ATP-grasp fold is one of several distinct ATP-binding folds, and is found in enzymes that catalyze the formation of amide bonds, catalyzing the ATP-dependent ligation of a carboxylate-containing molecule to an amino or thiol group-containing molecule []	Back alignment and domain information

>PLN02941 inositol-tetrakisphosphate 1-kinase	Back alignment and domain information

>COG0026 PurK Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]	Back alignment and domain information

>PRK13278 purP 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase; Provisional	Back alignment and domain information

>PF08443 RimK: RimK-like ATP-grasp domain; InterPro: IPR013651 This ATP-grasp domain is found in the ribosomal S6 modification enzyme RimK []	Back alignment and domain information

>KOG0369 consensus Pyruvate carboxylase [Energy production and conversion]	Back alignment and domain information

>COG0027 PurT Formate-dependent phosphoribosylglycinamide formyltransferase (GAR transformylase) [Nucleotide transport and metabolism]	Back alignment and domain information

>COG1821 Predicted ATP-utilizing enzyme (ATP-grasp superfamily) [General function prediction only]	Back alignment and domain information

>KOG0369 consensus Pyruvate carboxylase [Energy production and conversion]	Back alignment and domain information

>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional	Back alignment and domain information

>PF15632 ATPgrasp_Ter: ATP-grasp in the biosynthetic pathway with Ter operon	Back alignment and domain information

>COG0458 CarB Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]	Back alignment and domain information

>PRK06849 hypothetical protein; Provisional	Back alignment and domain information

>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional	Back alignment and domain information

>KOG0368 consensus Acetyl-CoA carboxylase [Lipid transport and metabolism]	Back alignment and domain information

>COG0189 RimK Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR01435 glu_cys_lig_rel glutamate--cysteine ligase/gamma-glutamylcysteine synthetase, Streptococcus agalactiae type	Back alignment and domain information

>TIGR03103 trio_acet_GNAT GNAT-family acetyltransferase TIGR03103	Back alignment and domain information

>TIGR02291 rimK_rel_E_lig alpha-L-glutamate ligase-related protein	Back alignment and domain information

>PRK02471 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional	Back alignment and domain information

>TIGR02068 cya_phycin_syn cyanophycin synthetase	Back alignment and domain information

>PRK14016 cyanophycin synthetase; Provisional	Back alignment and domain information

>PRK12458 glutathione synthetase; Provisional	Back alignment and domain information

>KOG0368 consensus Acetyl-CoA carboxylase [Lipid transport and metabolism]	Back alignment and domain information

>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]	Back alignment and domain information

>COG3919 Predicted ATP-grasp enzyme [General function prediction only]	Back alignment and domain information

>TIGR01380 glut_syn glutathione synthetase, prokaryotic	Back alignment and domain information

>PRK05246 glutathione synthetase; Provisional	Back alignment and domain information

>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]	Back alignment and domain information

>COG3919 Predicted ATP-grasp enzyme [General function prediction only]	Back alignment and domain information

>PLN02941 inositol-tetrakisphosphate 1-kinase	Back alignment and domain information

>COG2232 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]	Back alignment and domain information

>COG1821 Predicted ATP-utilizing enzyme (ATP-grasp superfamily) [General function prediction only]	Back alignment and domain information

>COG2232 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]	Back alignment and domain information

>KOG0370 consensus Multifunctional pyrimidine synthesis protein CAD (includes carbamoyl-phophate synthetase, aspartate transcarbamylase, and glutamine amidotransferase) [General function prediction only]	Back alignment and domain information

>TIGR01016 sucCoAbeta succinyl-CoA synthetase, beta subunit	Back alignment and domain information

>PRK12458 glutathione synthetase; Provisional	Back alignment and domain information

>TIGR01380 glut_syn glutathione synthetase, prokaryotic	Back alignment and domain information

>TIGR01016 sucCoAbeta succinyl-CoA synthetase, beta subunit	Back alignment and domain information

>PRK05246 glutathione synthetase; Provisional	Back alignment and domain information

>PF14397 ATPgrasp_ST: Sugar-transfer associated ATP-grasp	Back alignment and domain information

>PF14398 ATPgrasp_YheCD: YheC/D like ATP-grasp	Back alignment and domain information

>PF05770 Ins134_P3_kin: Inositol 1, 3, 4-trisphosphate 5/6-kinase; InterPro: IPR008656 This entry represents inositol-tetrakisphosphate 1-kinase which is also called inositol 1,3,4-trisphosphate 5/6-kinase	Back alignment and domain information

>PRK00696 sucC succinyl-CoA synthetase subunit beta; Provisional	Back alignment and domain information

>PF14398 ATPgrasp_YheCD: YheC/D like ATP-grasp	Back alignment and domain information

>PF02955 GSH-S_ATP: Prokaryotic glutathione synthetase, ATP-grasp domain; InterPro: IPR004218 Prokaryotic glutathione synthetase 6	Back alignment and domain information

>PF02955 GSH-S_ATP: Prokaryotic glutathione synthetase, ATP-grasp domain; InterPro: IPR004218 Prokaryotic glutathione synthetase 6	Back alignment and domain information

>PF14397 ATPgrasp_ST: Sugar-transfer associated ATP-grasp	Back alignment and domain information

>PF05770 Ins134_P3_kin: Inositol 1, 3, 4-trisphosphate 5/6-kinase; InterPro: IPR008656 This entry represents inositol-tetrakisphosphate 1-kinase which is also called inositol 1,3,4-trisphosphate 5/6-kinase	Back alignment and domain information

>PF14305 ATPgrasp_TupA: TupA-like ATPgrasp	Back alignment and domain information

>PRK00696 sucC succinyl-CoA synthetase subunit beta; Provisional	Back alignment and domain information

>PF03133 TTL: Tubulin-tyrosine ligase family; InterPro: IPR004344 Tubulins and microtubules are subjected to several post-translational modifications of which the reversible detyrosination/tyrosination of the carboxy-terminal end of most alpha-tubulins has been extensively analysed	Back alignment and domain information

>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]	Back alignment and domain information

>PF03133 TTL: Tubulin-tyrosine ligase family; InterPro: IPR004344 Tubulins and microtubules are subjected to several post-translational modifications of which the reversible detyrosination/tyrosination of the carboxy-terminal end of most alpha-tubulins has been extensively analysed	Back alignment and domain information

>KOG3895 consensus Synaptic vesicle protein Synapsin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []	Back alignment and domain information

>PRK14046 malate--CoA ligase subunit beta; Provisional	Back alignment and domain information

>PF02750 Synapsin_C: Synapsin, ATP binding domain; InterPro: IPR020898 The synapsins are a family of neuron-specific phosphoproteins that coat synaptic vesicles and are involved in the binding between these vesicles and the cytoskeleton (including actin filaments)	Back alignment and domain information

>PF14305 ATPgrasp_TupA: TupA-like ATPgrasp	Back alignment and domain information

>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]	Back alignment and domain information

>COG1759 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate synthetase (purine biosynthesis) [Nucleotide transport and metabolism]	Back alignment and domain information

>PLN00124 succinyl-CoA ligase [GDP-forming] subunit beta; Provisional	Back alignment and domain information

>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]	Back alignment and domain information

>PF02750 Synapsin_C: Synapsin, ATP binding domain; InterPro: IPR020898 The synapsins are a family of neuron-specific phosphoproteins that coat synaptic vesicles and are involved in the binding between these vesicles and the cytoskeleton (including actin filaments)	Back alignment and domain information

>PF13549 ATP-grasp_5: ATP-grasp domain; PDB: 1WR2_A	Back alignment and domain information

>PF13549 ATP-grasp_5: ATP-grasp domain; PDB: 1WR2_A	Back alignment and domain information

>PLN00124 succinyl-CoA ligase [GDP-forming] subunit beta; Provisional	Back alignment and domain information

>PRK14046 malate--CoA ligase subunit beta; Provisional	Back alignment and domain information

>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []	Back alignment and domain information

>PLN02235 ATP citrate (pro-S)-lyase	Back alignment and domain information

>PF14403 CP_ATPgrasp_2: Circularly permuted ATP-grasp type 2	Back alignment and domain information

>PLN02235 ATP citrate (pro-S)-lyase	Back alignment and domain information

>KOG2156 consensus Tubulin-tyrosine ligase-related protein [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF14243 DUF4343: Domain of unknown function (DUF4343)	Back alignment and domain information

>KOG2157 consensus Predicted tubulin-tyrosine ligase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG2156 consensus Tubulin-tyrosine ligase-related protein [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF14243 DUF4343: Domain of unknown function (DUF4343)	Back alignment and domain information

>KOG3895 consensus Synaptic vesicle protein Synapsin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>KOG1057 consensus Arp2/3 complex-interacting protein VIP1/Asp1, involved in regulation of actin cytoskeleton [Cytoskeleton]	Back alignment and domain information

>KOG1057 consensus Arp2/3 complex-interacting protein VIP1/Asp1, involved in regulation of actin cytoskeleton [Cytoskeleton]	Back alignment and domain information

>PRK05849 hypothetical protein; Provisional	Back alignment and domain information

>PF14403 CP_ATPgrasp_2: Circularly permuted ATP-grasp type 2	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		741
1iow_A		306	Complex Of Y216f D-Ala:d-Ala Ligase With Adp And A		2e-14
1iov_A		306	Complex Of D-Ala:d-Ala Ligase With Adp And A Phosph		5e-14
3v4z_A		309	D-Alanine--D-Alanine Ligase From Yersinia Pestis Le		7e-14
2yzm_A		319	Structure Of D-Alanine:d-Alanine Ligase With Substr		1e-12
2fb9_A		322	Crystal Structure Of The Apo Form Of D-alanine: D-a		1e-12
3se7_A		346	Ancient Vana Length = 346		2e-12
1e4e_A		343	D-Alanyl-D-Lacate Ligase Length = 343		1e-11
2yzg_A		319	Crystal Structure Of D-Ala:d-Ala Ligase From Thermu		2e-11
1e4e_B		343	D-Alanyl-D-Lacate Ligase Length = 343		5e-11
3lwb_A		373	Crystal Structure Of Apo D-Alanine:d-Alanine Ligase		9e-10
1ehi_A		377	D-Alanine:d-Lactate Ligase (Lmddl2) Of Vancomycin-R		3e-08
4fu0_A		357	Crystal Structure Of Vang D-Ala:d-Ser Ligase From E		3e-08
4fu0_A		357	Crystal Structure Of Vang D-Ala:d-Ser Ligase From E		1e-07
3tqt_A		372	Structure Of The D-Alanine-D-Alanine Ligase From Co		4e-08
3k3p_A		383	Crystal Structure Of The Apo Form Of D-Alanine:d-Al		1e-07
3e5n_A		386	Crystal Strucutre Of D-Alanine-D-Alanine Ligase Fro		1e-07
3rfc_A		384	Crystal Structure Of D-Alanine-D-Alanine Ligase A F		1e-07
3i12_A		364	The Crystal Structure Of The D-alanyl-alanine Synth		2e-07
4egj_A		334	Crystal Structure Of D-Alanine-D-Alanine Ligase Fro		3e-07
4eg0_A		317	Crystal Structure Of D-Alanine--D-Alanine Ligase Fr		8e-07
3n8d_A		364	Crystal Structure Of Staphylococcus Aureus Vrsa-9 D		1e-06
4egq_A		316	Crystal Structure Of D-Alanine-D-Alanine Ligase B F		1e-06
2i80_A		360	Allosteric Inhibition Of Staphylococcus Aureus D-Al		1e-06
2i87_A		364	Allosteric Inhibition Of Staphylococcus Aureus D-Al		1e-06
3q1k_A		367	The Crystal Structure Of The D-Alanyl-Alanine Synth		3e-06
3r23_A		307	Crystal Structure Of D-Alanine--D-Alanine Ligase Fr		4e-06
2pvp_A		367	Crystal Structure Of D-Alanine-D-Alanine Ligase Fro		8e-05

>pdb|1IOW|A Chain A, Complex Of Y216f D-Ala:d-Ala Ligase With Adp And A Phosphoryl Phosphinate Length = 306