Citrus Sinensis ID: 025098

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-------26

MNTEVIPTKLDYYDNMLKLQSTSKLISYFKGDDGRRALILESTIFHPQGGGQPSDTGFIIVADSDFKFIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHSAGHLLDVCMQKVGLGHLEPGKGYHFPDGPYVEYKGSVPQNELQSKTKELELEANALISRGGKVMVAVLPYEEASMLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMKVSQIRTKKGTTKVFYSVGS

ccccccccEEEEEEcccEEEEEEEEEEEEEccccEEEEEEcccccccccccccccEEEEEEcccEEEEEEEEEEEEccEEEEEEEEEccccccccEEccccEEEEEEcHHHHHHHHHccHHHHHHHHHHHHHcccccccccccccccccEEEEEccccccccHHHHHHHHHHHHHHHHccccEEEEEccHHHHHcccccEEcccccccccEEEEEEccccccccccccccccccEEEEEEEEEEEcccEEEEEEEEcc

cHHHccccEEEcccccccEEccEEEEEEEEccccEEEEEEcccccEcccccccccEEEEEEcccEEEEEEEEEEEcccEEEEEEEEEccccEEEEEEEcccEEEEEEcHHHHHHHHHHccHHHHHHHHHHHHHcHHHHHccccccccccEEEEcccccccccHHHHHHHHHHHHHHHHHcccEEEEEccHHHHHHHcccEEEEccccccEEEEEEEcccEEEEcccccccccccccEEEEEcHHHHcccEEEEEEccc

mnteviptklDYYDNMLKLQSTSKLISyfkgddgrRALILEStifhpqgggqpsdtgFIIVADSDFKFIVHDVRSKDGIVFHYGVvensggefemeLEKGKEVRLWVDESRRKLNSRLHSAGHLLDVCMQkvglghlepgkgyhfpdgpyveykgsvpqnelqSKTKELELEANALISRGGKVMVAVLPYEeasmlcggclphyipqgstprivklgdnpgcpcggthvsDISEIISMKVSQIRTKKGTTKVFYSVGS

mnteviptkldyydNMLKLQSTSKLISYFKGDDGRRALILESTIfhpqgggqpSDTGFIIVADSDFKFIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHSAGHLLDVCMQKVGLGHLEPGKGYHFPDGPYVEYKGSVPQNELQSKTKELELEANALISRGGKVMVAVLPYEEASMLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIIsmkvsqirtkkgttkvfysvgs

*****IPTKLDYYDNMLKLQSTSKLISYFKGDDGRRALILESTIFHPQGGGQPSDTGFIIVADSDFKFIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHSAGHLLDVCMQKVGLGHLEPGKGYHFPDGPYVEYK****************LEANALISRGGKVMVAVLPYEEASMLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMKVSQIRTKKGTTKVFY****

***EVIPTKLDYYDNMLKLQSTSKLISYFKGDDGRRALILESTIFHPQGGGQPSDTGFIIVADSDFKFIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHSAGHLLDVCMQKVGLGHLEPGKGYHFPDGPYVEYKGSVPQNELQSKTKELELEANALISRGGKVMVAVLPYEEASMLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMKVSQIRTKKGTTKVFYSVGS

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MNTEVIPTKLDYYDNMLKLQSTSKLISYFKGDDGRRALILESTIFHPQGGGQPSDTGFIIVADSDFKFIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHSAGHLLDVCMQKVGLGHLEPGKGYHFPDGPYVEYKGSVPxxxxxxxxxxxxxxxxxxxxxGGKVMVAVLPYEEASMLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMKVSQIRTKKGTTKVFYSVGS

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		258	2.2.26 [Sep-21-2011]
Q8PWU0		926	Alanine--tRNA ligase OS=M	yes	no	0.906	0.252	0.285	1e-21
Q8TU79		925	Alanine--tRNA ligase OS=M	yes	no	0.903	0.251	0.301	8e-20
Q46CS0		923	Alanine--tRNA ligase OS=M	yes	no	0.903	0.252	0.294	2e-19
O57734		404	Alanyl-tRNA editing prote	yes	no	0.879	0.561	0.308	6e-19
A0B6X3		913	Alanine--tRNA ligase OS=M	yes	no	0.798	0.225	0.302	2e-16
Q2LPL7		878	Alanine--tRNA ligase OS=S	yes	no	0.802	0.235	0.324	2e-15
Q971J4		904	Alanine--tRNA ligase OS=S	yes	no	0.895	0.255	0.290	3e-15
Q9HN24		929	Alanine--tRNA ligase OS=H	yes	no	0.918	0.255	0.284	5e-15
B0R7I0		929	Alanine--tRNA ligase OS=H	yes	no	0.918	0.255	0.284	5e-15
A3CVP2		915	Alanine--tRNA ligase OS=M	yes	no	0.891	0.251	0.292	1e-14

>sp\|Q8PWU0\|SYA_METMA Alanine--tRNA ligase OS=Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88) GN=alaS PE=3 SV=1	Back alignment and function desciption

 Score =  103 bits (257), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 73/256 (28%), Positives = 132/256 (51%), Gaps = 22/256 (8%)

Query: 8   TKLDYYDNMLKLQSTSKLISYFKGDDGRRALILESTIFHPQGGGQPSDTGFIIVADSDFK 67
           TK  +YD   +L+  + ++  F        ++L++T F+ +GGGQP+D G I+  D+ ++
Sbjct: 511 TKRRFYDEPTRLEFEAVVLDVFDNH-----VVLDNTFFYAEGGGQPADIGTIVAEDTVYR 565

Query: 68  FIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHSAGHLLDV 127
            +  DV+  +G++ H   +EN G   E+ + KG+ +   VDE RR   +R H+A H+++ 
Sbjct: 566 VV--DVQVYEGVILH--TIENPGK--ELAITKGELITGKVDEKRRMTLARHHTATHIVND 619

Query: 128 CMQKVGLGHLEPGKGYHFPDGPYVE---YKGSVPQNELQSKTKELELEANALISRGGKVM 184
             +KV   H+       F D   ++   YK   P+     + +++EL AN  +    +V+
Sbjct: 620 AARKVLGKHIWQAGAQKFEDHSRLDLSHYKHISPE-----EIRQIELLANRTVMENKRVV 674

Query: 185 VAVLPYEEASMLCG-GCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMKVSQI 243
              +P  EA  + G G     +P G   RIVK+GD+    CGGTH +    I  +K+ + 
Sbjct: 675 TEWMPRTEAEQVYGFGLYQGGVPPGEKIRIVKVGDDVEA-CGGTHCTSTGIIGPIKILKT 733

Query: 244 -RTKKGTTKVFYSVGS 258
            R + G  ++ ++ G+
Sbjct: 734 ERIQDGVERIEFAAGT 749

Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction: alanine is first activated by ATP to form Ala-AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain.
Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88) (taxid: 192952)
EC: 6EC: .EC: 1EC: .EC: 1EC: .EC: 7

>sp\|Q8TU79\|SYA_METAC Alanine--tRNA ligase OS=Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A) GN=alaS PE=3 SV=1	Back alignment and function description

>sp\|Q46CS0\|SYA_METBF Alanine--tRNA ligase OS=Methanosarcina barkeri (strain Fusaro / DSM 804) GN=alaS PE=3 SV=1	Back alignment and function description

>sp\|O57734\|ALAXL_PYRHO Alanyl-tRNA editing protein AlaX-L OS=Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) GN=alaXL PE=3 SV=1	Back alignment and function description

>sp\|A0B6X3\|SYA_METTP Alanine--tRNA ligase OS=Methanosaeta thermophila (strain DSM 6194 / PT) GN=alaS PE=3 SV=1	Back alignment and function description

>sp\|Q2LPL7\|SYA_SYNAS Alanine--tRNA ligase OS=Syntrophus aciditrophicus (strain SB) GN=alaS PE=3 SV=1	Back alignment and function description

>sp\|Q971J4\|SYA_SULTO Alanine--tRNA ligase OS=Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) GN=alaS PE=3 SV=1	Back alignment and function description

>sp\|Q9HN24\|SYA_HALSA Alanine--tRNA ligase OS=Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) GN=alaS PE=3 SV=1	Back alignment and function description

>sp\|B0R7I0\|SYA_HALS3 Alanine--tRNA ligase OS=Halobacterium salinarum (strain ATCC 29341 / DSM 671 / R1) GN=alaS PE=3 SV=1	Back alignment and function description

>sp\|A3CVP2\|SYA_METMJ Alanine--tRNA ligase OS=Methanoculleus marisnigri (strain ATCC 35101 / DSM 1498 / JR1) GN=alaS 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		258
225432302		256	PREDICTED: alanyl-tRNA editing protein A	0.976	0.984	0.793	1e-116
297736873		243	unnamed protein product [Vitis vinifera]	0.941	1.0	0.794	1e-112
297834538		256	ATP binding protein [Arabidopsis lyrata	0.976	0.984	0.746	1e-108
145332595		256	putative nucleotide binding protein [Ara	0.976	0.984	0.75	1e-108
357478765		258	Alanyl-tRNA synthetase [Medicago truncat	1.0	1.0	0.720	1e-107
217072496		258	unknown [Medicago truncatula] gi\|3884931	1.0	1.0	0.717	1e-107
145361275		253	putative nucleotide binding protein [Ara	0.965	0.984	0.746	1e-105
363808238		262	uncharacterized protein LOC100781401 [Gl	0.976	0.961	0.695	1e-102
224107335		246	predicted protein [Populus trichocarpa]	0.926	0.971	0.756	1e-101
388519037		256	unknown [Lotus japonicus]	0.976	0.984	0.738	1e-100

>gi\|225432302\|ref\|XP_002273600.1\| PREDICTED: alanyl-tRNA editing protein AlaX-L-like [Vitis vinifera]	Back alignment and taxonomy information

 Score =  422 bits (1086), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 200/252 (79%), Positives = 224/252 (88%)

Query: 7   PTKLDYYDNMLKLQSTSKLISYFKGDDGRRALILESTIFHPQGGGQPSDTGFIIVADSDF 66
           PTKL YYD+M  LQS++ L+S+FKGDDGRRALIL+STIFHPQGGGQPSDTGFI +++SD 
Sbjct: 5   PTKLLYYDHMFLLQSSATLLSFFKGDDGRRALILDSTIFHPQGGGQPSDTGFIAISESDI 64

Query: 67  KFIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHSAGHLLD 126
           KFIV DVRSKDG+VFHYG +ENS  E E +LEKGKEV L VDESRRKLNSRLHSAGHLLD
Sbjct: 65  KFIVQDVRSKDGVVFHYGFIENSNEELESKLEKGKEVSLHVDESRRKLNSRLHSAGHLLD 124

Query: 127 VCMQKVGLGHLEPGKGYHFPDGPYVEYKGSVPQNELQSKTKELELEANALISRGGKVMVA 186
           +CM+ VGLG+LEPGKGYHFPDGP+VEYKG VPQNELQ K KELEL+ANALISRGGKV   
Sbjct: 125 ICMRTVGLGNLEPGKGYHFPDGPFVEYKGVVPQNELQGKQKELELDANALISRGGKVSAV 184

Query: 187 VLPYEEASMLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMKVSQIRTK 246
           VLPY EA  LCGGCLP YIP+ S PRI+KLGDNPGCPCGGTHVSDISEIIS+KV+QIRTK
Sbjct: 185 VLPYAEAVELCGGCLPDYIPKSSNPRILKLGDNPGCPCGGTHVSDISEIISVKVTQIRTK 244

Query: 247 KGTTKVFYSVGS 258
           KG TKV+Y++GS
Sbjct: 245 KGVTKVYYTIGS 256

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|297736873\|emb\|CBI26074.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|297834538\|ref\|XP_002885151.1\| ATP binding protein [Arabidopsis lyrata subsp. lyrata] gi\|297330991\|gb\|EFH61410.1\| ATP binding protein [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|145332595\|ref\|NP_001078163.1\| putative nucleotide binding protein [Arabidopsis thaliana] gi\|332642317\|gb\|AEE75838.1\| putative nucleotide binding protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|357478765\|ref\|XP_003609668.1\| Alanyl-tRNA synthetase [Medicago truncatula] gi\|355510723\|gb\|AES91865.1\| Alanyl-tRNA synthetase [Medicago truncatula]	Back alignment and taxonomy information

>gi\|217072496\|gb\|ACJ84608.1\| unknown [Medicago truncatula] gi\|388493132\|gb\|AFK34632.1\| unknown [Medicago truncatula]	Back alignment and taxonomy information

>gi\|145361275\|ref\|NP_683570.3\| putative nucleotide binding protein [Arabidopsis thaliana] gi\|332642316\|gb\|AEE75837.1\| putative nucleotide binding protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|363808238\|ref\|NP_001242235.1\| uncharacterized protein LOC100781401 [Glycine max] gi\|255638817\|gb\|ACU19712.1\| unknown [Glycine max]	Back alignment and taxonomy information

>gi\|224107335\|ref\|XP_002314450.1\| predicted protein [Populus trichocarpa] gi\|222863490\|gb\|EEF00621.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|388519037\|gb\|AFK47580.1\| unknown [Lotus japonicus]	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		258
TAIR\|locus:504955757		256	AT3G16565 [Arabidopsis thalian	0.976	0.984	0.75	5.4e-102
ASPGD\|ASPL0000072203		283	AN11110 [Emericella nidulans (	0.779	0.710	0.299	3.6e-18
UNIPROTKB\|Q57984		892	alaS "Alanine--tRNA ligase" [M	0.891	0.257	0.293	9.6e-16
UNIPROTKB\|O28029		906	alaS "Alanine--tRNA ligase" [A	0.922	0.262	0.288	2.4e-14
UNIPROTKB\|Q46AR9		243	alaXM "Alanyl-tRNA editing pro	0.883	0.938	0.268	3e-14
TIGR_CMR\|BA_1720		236	BA_1720 "alanyl-tRNA synthetas	0.751	0.822	0.306	1.6e-13
UNIPROTKB\|O58035		915	alaS "Alanine--tRNA ligase" [P	0.887	0.250	0.287	2.6e-12
UNIPROTKB\|Q97ZX2		236	alaXM "Alanyl-tRNA editing pro	0.806	0.881	0.283	1.8e-11
UNIPROTKB\|O57848		216	alaXM "Alanyl-tRNA editing pro	0.589	0.703	0.324	3.6e-11
WB\|WBGene00000196		793	aars-1 [Caenorhabditis elegans	0.744	0.242	0.284	1.4e-09

TAIR\|locus:504955757 AT3G16565 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1011 (360.9 bits), Expect = 5.4e-102, P = 5.4e-102
 Identities = 189/252 (75%), Positives = 214/252 (84%)

Query:     7 PTKLDYYDNMLKLQSTSKLISYFKGDDGRRALILESTIFHPQGGGQPSDTGFIIVADSDF 66
             PTKLDY+ +M  LQS S+ +S FK  DGR ALILEST+FHPQGGGQPSDTG I+ + SD 
Sbjct:     5 PTKLDYHVDMFNLQSHSRFLSLFKAQDGRIALILESTVFHPQGGGQPSDTGLIVFSGSDL 64

Query:    67 KFIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHSAGHLLD 126
             KF V DVRSKDGIV HYGV E S  E  ++ EKGKEV L VDESRRKLNSRLHSAGHLLD
Sbjct:    65 KFSVQDVRSKDGIVLHYGVFEGSNPESGIDSEKGKEVYLTVDESRRKLNSRLHSAGHLLD 124

Query:   127 VCMQKVGLGHLEPGKGYHFPDGPYVEYKGSVPQNELQSKTKELELEANALISRGGKVMVA 186
             +CMQKVGLGHLEPGKGYHFPDGP+VEYKGSVPQ E Q K KELE EAN LIS+GGKV  A
Sbjct:   125 MCMQKVGLGHLEPGKGYHFPDGPFVEYKGSVPQEEFQVKQKELEAEANELISKGGKVYAA 184

Query:   187 VLPYEEASMLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMKVSQIRTK 246
             +LPYEEAS+LCGG LP YI +GSTPRI+KLGD+PGCPCGGTHVS++S+IISMK++Q+RTK
Sbjct:   185 ILPYEEASVLCGGSLPDYISKGSTPRIIKLGDSPGCPCGGTHVSNLSDIISMKITQMRTK 244

Query:   247 KGTTKVFYSVGS 258
             KG TKVFY++ S
Sbjct:   245 KGMTKVFYTIAS 256

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004813 "alanine-tRNA ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM;IEA

GO:0006419 "alanyl-tRNA aminoacylation" evidence=IEA

GO:0016876 "ligase activity, forming aminoacyl-tRNA and related compounds" evidence=IEA

GO:0043039 "tRNA aminoacylation" evidence=IEA

ASPGD\|ASPL0000072203 AN11110 [Emericella nidulans (taxid:162425)]	Back alignment and assigned GO terms

UNIPROTKB\|Q57984 alaS "Alanine--tRNA ligase" [Methanocaldococcus jannaschii DSM 2661 (taxid:243232)]	Back alignment and assigned GO terms

UNIPROTKB\|O28029 alaS "Alanine--tRNA ligase" [Archaeoglobus fulgidus DSM 4304 (taxid:224325)]	Back alignment and assigned GO terms

UNIPROTKB\|Q46AR9 alaXM "Alanyl-tRNA editing protein AlaX-M" [Methanosarcina barkeri str. Fusaro (taxid:269797)]	Back alignment and assigned GO terms

TIGR_CMR\|BA_1720 BA_1720 "alanyl-tRNA synthetase domain protein" [Bacillus anthracis str. Ames (taxid:198094)]	Back alignment and assigned GO terms

UNIPROTKB\|O58035 alaS "Alanine--tRNA ligase" [Pyrococcus horikoshii OT3 (taxid:70601)]	Back alignment and assigned GO terms

UNIPROTKB\|Q97ZX2 alaXM "Alanyl-tRNA editing protein AlaX-M" [Sulfolobus solfataricus P2 (taxid:273057)]	Back alignment and assigned GO terms

UNIPROTKB\|O57848 alaXM "Alanyl-tRNA editing protein AlaX-M" [Pyrococcus horikoshii OT3 (taxid:70601)]	Back alignment and assigned GO terms

WB\|WBGene00000196 aars-1 [Caenorhabditis elegans (taxid:6239)]	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

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00019776001	SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (243 aa)
		(Vitis vinifera)
Predicted Functional Partners:
		Sorry, there are no predicted associations at the current settings.

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		258
PLN02961		223	PLN02961, PLN02961, alanine-tRNA ligase	1e-140
COG2872		241	COG2872, COG2872, Predicted metal-dependent hydrol	1e-31
PRK13902		900	PRK13902, alaS, alanyl-tRNA synthetase; Provisiona	2e-26
TIGR03683		902	TIGR03683, A-tRNA_syn_arch, alanyl-tRNA synthetase	3e-26
COG0013		879	COG0013, AlaS, Alanyl-tRNA synthetase [Translation	3e-25
TIGR00344		851	TIGR00344, alaS, alanine--tRNA ligase	9e-23
PRK00252		865	PRK00252, alaS, alanyl-tRNA synthetase; Reviewed	8e-22
pfam01411		551	pfam01411, tRNA-synt_2c, tRNA synthetases class II	7e-12
PLN02900		936	PLN02900, PLN02900, alanyl-tRNA synthetase	2e-11
smart00863		43	smart00863, tRNA_SAD, Threonyl and Alanyl tRNA syn	1e-04
pfam07973		44	pfam07973, tRNA_SAD, Threonyl and Alanyl tRNA synt	0.002

>gnl\|CDD\|178546 PLN02961, PLN02961, alanine-tRNA ligase	Back alignment and domain information

 Score =  393 bits (1012), Expect = e-140
 Identities = 155/223 (69%), Positives = 180/223 (80%)

Query: 34  GRRALILESTIFHPQGGGQPSDTGFIIVADSDFKFIVHDVRSKDGIVFHYGVVENSGGEF 93
           GR AL+L+ TIFHPQGGGQPSDTG I+++  D KF V DVR KDG+V+HYGV E S  E 
Sbjct: 1   GRIALVLDRTIFHPQGGGQPSDTGRIVISGGDTKFSVQDVRRKDGVVYHYGVFEGSNPES 60

Query: 94  EMELEKGKEVRLWVDESRRKLNSRLHSAGHLLDVCMQKVGLGHLEPGKGYHFPDGPYVEY 153
               E G EV + VDESRRKL+SRLHSAGHLLDVCM +VGLG LEPGKGYHFPDGP+VEY
Sbjct: 61  ASPFEAGDEVTVTVDESRRKLHSRLHSAGHLLDVCMARVGLGPLEPGKGYHFPDGPFVEY 120

Query: 154 KGSVPQNELQSKTKELELEANALISRGGKVMVAVLPYEEASMLCGGCLPHYIPQGSTPRI 213
           KG +PQ EL SK  ELE EAN LI+ GGKV  AVLPY+EA+ LCGG LP YI + STPRI
Sbjct: 121 KGKIPQGELDSKQDELEAEANELIAEGGKVSAAVLPYDEAAELCGGSLPDYIAKDSTPRI 180

Query: 214 VKLGDNPGCPCGGTHVSDISEIISMKVSQIRTKKGTTKVFYSV 256
           VK+GD+PGCPCGGTHV+D+SEI S+KV+QIR KKG T+V Y++
Sbjct: 181 VKIGDSPGCPCGGTHVADVSEITSVKVTQIRVKKGVTRVSYTI 223

Length = 223

>gnl\|CDD\|225427 COG2872, COG2872, Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]	Back alignment and domain information

>gnl\|CDD\|237551 PRK13902, alaS, alanyl-tRNA synthetase; Provisional	Back alignment and domain information

>gnl\|CDD\|234309 TIGR03683, A-tRNA_syn_arch, alanyl-tRNA synthetase	Back alignment and domain information

>gnl\|CDD\|223092 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|232931 TIGR00344, alaS, alanine--tRNA ligase	Back alignment and domain information

>gnl\|CDD\|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed	Back alignment and domain information

>gnl\|CDD\|216484 pfam01411, tRNA-synt_2c, tRNA synthetases class II (A)	Back alignment and domain information

>gnl\|CDD\|215487 PLN02900, PLN02900, alanyl-tRNA synthetase	Back alignment and domain information

>gnl\|CDD\|197931 smart00863, tRNA_SAD, Threonyl and Alanyl tRNA synthetase second additional domain	Back alignment and domain information

>gnl\|CDD\|219676 pfam07973, tRNA_SAD, Threonyl and Alanyl tRNA synthetase second additional domain	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		258
PLN02961		223	alanine-tRNA ligase	100.0
COG2872		241	Predicted metal-dependent hydrolases related to al	100.0
TIGR03683		902	A-tRNA_syn_arch alanyl-tRNA synthetase. This famil	100.0
PRK13902		900	alaS alanyl-tRNA synthetase; Provisional	100.0
COG0013		879	AlaS Alanyl-tRNA synthetase [Translation, ribosoma	100.0
TIGR00344		851	alaS alanine--tRNA ligase. The model describes ala	100.0
PRK00252		865	alaS alanyl-tRNA synthetase; Reviewed	100.0
PLN02900		936	alanyl-tRNA synthetase	100.0
KOG0188		895	consensus Alanyl-tRNA synthetase [Translation, rib	100.0
KOG2105		415	consensus Predicted metal-dependent hydrolase, con	100.0
PRK01584		594	alanyl-tRNA synthetase; Provisional	99.95
PLN02837		614	threonine-tRNA ligase	99.84
PRK12305		575	thrS threonyl-tRNA synthetase; Reviewed	99.84
PRK00413		638	thrS threonyl-tRNA synthetase; Reviewed	99.83
PRK12444		639	threonyl-tRNA synthetase; Reviewed	99.77
PLN02908		686	threonyl-tRNA synthetase	99.73
PF01411		552	tRNA-synt_2c: tRNA synthetases class II (A); Inter	99.7
TIGR00418		563	thrS threonyl-tRNA synthetase. This model represen	99.66
PF07973		44	tRNA_SAD: Threonyl and Alanyl tRNA synthetase seco	99.58
COG0441		589	ThrS Threonyl-tRNA synthetase [Translation, riboso	99.57
smart00863		44	tRNA_SAD Threonyl and Alanyl tRNA synthetase secon	99.43
KOG1637		560	consensus Threonyl-tRNA synthetase [Translation, r	97.49
PRK14799		545	thrS threonyl-tRNA synthetase; Provisional	96.95

>PLN02961 alanine-tRNA ligase	Back alignment and domain information

Probab=100.00  E-value=2e-59  Score=399.90  Aligned_cols=221  Identities=69%  Similarity=1.167  Sum_probs=191.5

Q ss_pred             EEEEEcCccccCCCCCCCCCeEEEEecCCCeEEEEEEEEEeCCEEEEEEEEecCCcccccccCCCCEEEEEEcchhhhhh
Q 025098           36 RALILESTIFHPQGGGQPSDTGFIIVADSDFKFIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLN  115 (258)
Q Consensus        36 ~~ivld~T~Fype~GGQ~~D~G~i~~~~~~~~~~V~~v~~~~~~i~H~~~~~~~~~~~~~~~~~g~~V~~~iD~~rR~~~  115 (258)
                      ++|+||+|+|||||||||+|+|+|...+++..|.|.+|++.+|.++|++.+..+..+...++.+|++|+++|||+||+.+
T Consensus         3 ~~viLd~T~FYpegGGQp~D~G~i~~~~~~~~~~V~~v~~~~g~i~H~~~~~~~~~~~~~~l~~G~~V~~~ID~~rR~~~   82 (223)
T PLN02961          3 IALVLDRTIFHPQGGGQPSDTGRIVISGGDTKFSVQDVRRKDGVVYHYGVFEGSNPESASPFEAGDEVTVTVDESRRKLH   82 (223)
T ss_pred             eEEEeCCceEcCCCCCCCCcEEEEEecCCCcEEEEEEEEEECCEEEEEEEecCcccccCCCCCCCCEEEEEECHHHHhhh
Confidence            68999999999999999999999987554456789999999999999976642111112467899999999999999999


Q ss_pred             hhcccHHHHHHHHHHHhCCCcccCCccccCCCCceEeecCCCCHHHHhhhHHHHHHHHHHHHHcCCceEEEEcCHHHHhh
Q 025098          116 SRLHSAGHLLDVCMQKVGLGHLEPGKGYHFPDGPYVEYKGSVPQNELQSKTKELELEANALISRGGKVMVAVLPYEEASM  195 (258)
Q Consensus       116 ~~~HTa~HlL~~al~~~~~~~~~~~~g~~~~~~~~~d~~~~~~~~~l~~~~~~IE~~~n~~I~~~~~v~~~~~~~~ea~~  195 (258)
                      |++|||+|||++||++++++....++|+++++++|++|...++.+++.+.+++||+++|++|++++||++.+++++||++
T Consensus        83 m~~HTa~HLL~~al~~~~~~~~~~~~g~~~~~~~~v~~~~~i~~~~~~~~~~~iE~~~N~~I~~~~~V~~~~~~~~ea~~  162 (223)
T PLN02961         83 SRLHSAGHLLDVCMARVGLGPLEPGKGYHFPDGPFVEYKGKIPQGELDSKQDELEAEANELIAEGGKVSAAVLPYDEAAE  162 (223)
T ss_pred             hccCcHHHHHHHHHHHcCCCccccccccccCCccceeecccCCHHHHHhHHHHHHHHHHHHHHcCCceeEEEeCHHHHHH
Confidence            99999999999999986443344567888888999999888998887555678999999999999999999999999998


Q ss_pred             hcCCCCCCCCCCCCCcEEEEECCCCCcCccccccccccccccEEEEEEEEeCCEEEEEEEe
Q 025098          196 LCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMKVSQIRTKKGTTKVFYSV  256 (258)
Q Consensus       196 ~~~~~~~~~~~~~~~vRvv~ig~~~~~~CgGtHV~~T~eIg~~~I~~~~~~~~~~Ri~~~~  256 (258)
                      +.+..+|.+.++++.+|+|+|++++.+|||||||.||++||.|+|+++++++|..||+|.+
T Consensus       163 ~~~~~~~~~~~~~~~vRiV~I~~~d~~~CgGTHv~nT~eig~i~I~~~~~~kg~~Rv~~~~  223 (223)
T PLN02961        163 LCGGSLPDYIAKDSTPRIVKIGDSPGCPCGGTHVADVSEITSVKVTQIRVKKGVTRVSYTI  223 (223)
T ss_pred             hcCCcCCCcCCCCCceEEEEECCCccCccCCcccCchhccccEEEEEEEecCCEEEEEEeC
Confidence            8655566666667789999999999999999999999999999999999889999999974

>COG2872 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]	Back alignment and domain information

>TIGR03683 A-tRNA_syn_arch alanyl-tRNA synthetase	Back alignment and domain information

>PRK13902 alaS alanyl-tRNA synthetase; Provisional	Back alignment and domain information

>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR00344 alaS alanine--tRNA ligase	Back alignment and domain information

>PRK00252 alaS alanyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PLN02900 alanyl-tRNA synthetase	Back alignment and domain information

>KOG0188 consensus Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG2105 consensus Predicted metal-dependent hydrolase, contains AlaS domain [General function prediction only]	Back alignment and domain information

>PRK01584 alanyl-tRNA synthetase; Provisional	Back alignment and domain information

>PLN02837 threonine-tRNA ligase	Back alignment and domain information

>PRK12305 thrS threonyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PRK00413 thrS threonyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PRK12444 threonyl-tRNA synthetase; Reviewed	Back alignment and domain information

>PLN02908 threonyl-tRNA synthetase	Back alignment and domain information

>PF01411 tRNA-synt_2c: tRNA synthetases class II (A); InterPro: IPR018164 The aminoacyl-tRNA synthetases (6	Back alignment and domain information

>TIGR00418 thrS threonyl-tRNA synthetase	Back alignment and domain information

>PF07973 tRNA_SAD: Threonyl and Alanyl tRNA synthetase second additional domain; InterPro: IPR012947 The catalytically active form of threonyl/alanyl tRNA synthetase is a dimer	Back alignment and domain information

>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>smart00863 tRNA_SAD Threonyl and Alanyl tRNA synthetase second additional domain	Back alignment and domain information

>KOG1637 consensus Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PRK14799 thrS threonyl-tRNA synthetase; Provisional	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		258
2zzf_A		752	Crystal Structure Of Alanyl-Trna Synthetase Without		9e-14
2ztg_A		739	Crystal Structure Of Archaeoglobus Fulgidus Alanyl-		6e-11
2e1b_A		216	Crystal Structure Of The Alax-M Trans-Editing Enzym		6e-10
2zze_A		752	Crystal Structure Of Alanyl-Trna Synthetase Without		9e-06

>pdb|2ZZF|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without Oligomerization Domain Length = 752

Back alignment and structure

Iteration: 1

Score = 73.9 bits (180), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 71/261 (27%), Positives = 120/261 (45%), Gaps = 34/261 (13%) Query: 8 TKLDYYDNMLKLQSTSKLISYFKGDDGRRALILESTIFHPQGGGQPSDTGFIIVADSDFK 67 T+ YY++ + +K++ K +IL++T F+P+GGGQP DTG +IV + K Sbjct: 516 TRRLYYEDPFMKEFDAKVLRVIKD-----WVILDATAFYPEGGGQPYDTGVLIVNGREVK 570 Query: 68 FIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHSAGHLLDV 127 V +V+ ++ H VE+ G E + GK +D RR + R H+ H+L Sbjct: 571 --VTNVQKVGKVIIHK--VEDPGAFKEGMIVHGK-----IDWKRRIQHMRHHTGTHVLMG 621 Query: 128 CMQKVGLGHLEPGKGYHFPDGPYVE---YKGSVPQNELQSKTKELELEANALISRGGKVM 184 + +V H+ D ++ YK + + EL KE+E+ AN ++ KV Sbjct: 622 ALVRVLGRHVWQAGSQLTTDWARLDISHYK-RISEEEL----KEIEMLANRIVMEDRKVT 676 Query: 185 VAVLPYEEAS------MLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISM 238 LP A + GG +P G R+VK+ D CGGTH+ + + Sbjct: 677 WEWLPRTTAEQKYGFRLYQGGVVP-----GREIRVVKIEDWDVQACGGTHLPSTGLVGPI 731 Query: 239 KVSQI-RTKKGTTKVFYSVGS 258 K+ + R + G ++ ++ G Sbjct: 732 KILRTERIQDGVERIIFACGE 752

PyMOL of 2zzf

>pdb|2ZTG|A Chain A, Crystal Structure Of Archaeoglobus Fulgidus Alanyl-Trna Synthetase Lacking The C-Terminal Dimerization Domain In Complex With Ala-Sa Length = 739

Back alignment and structure

>pdb|2E1B|A Chain A, Crystal Structure Of The Alax-M Trans-Editing Enzyme From Pyrococcus Horikoshii Length = 216

Back alignment and structure

>pdb|2ZZE|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without Oligomerization Domain In Lysine-Methylated Form Length = 752

Back alignment and structure

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		258
3kew_A		241	DHHA1 domain protein; structural genomics, PSI-2,	4e-37
2ztg_A		739	Alanyl-tRNA synthetase; class-II aminoacyl-tRNA sy	5e-26
2e1b_A		216	PH0108, 216AA long hypothetical alanyl-tRNA synthe	6e-26
2zze_A		752	Alanyl-tRNA synthetase; ligase, hydrolase; HET: ML	1e-21
1v4p_A		157	Alanyl-tRNA synthetase; alanine-tRNA ligase, riken	5e-08

>3kew_A DHHA1 domain protein; structural genomics, PSI-2, tRNA synthase, protein structure initiative; 2.00A {Clostridium perfringens} Length = 241	Back alignment and structure

 Score =  129 bits (328), Expect = 4e-37
 Identities = 62/258 (24%), Positives = 102/258 (39%), Gaps = 31/258 (12%)

Query: 1   MNTEVIPTKLDYYDNMLKLQSTSKLISYFKGDDGRRALILESTIFHPQGGGQPSDTGFII 60
           M+      KL YY++    +   ++I   +  DG+  ++L+ T F P GGGQ  D G I 
Sbjct: 1   MSLT----KL-YYEDQYIKEFKGEIIEVKE-IDGKFHVLLDQTAFFPGGGGQMGDLGLID 54

Query: 61  VADSDFKFIVHDVRSKDGIVFHYGVVENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHS 120
                    V DV  ++G V+H           E E +K K ++  +D  RR    + H 
Sbjct: 55  ------GIKVLDVYEEEGKVYHVL---------EKEPKKLKNLQCELDWERRFDGMQQHL 99

Query: 121 AGHLLDVCMQKVGLGHLEPGKGYH-FPDGPYVEYKGSVPQNELQSKTKELELEANALISR 179
             HLL  C   +  G      G+H   +   V+  G + +  +    +E E EAN LI  
Sbjct: 100 GQHLLSGCFYDL-FG--ANTCGFHLGKEISTVDIVGFLDEKTI----REAEKEANRLIFE 152

Query: 180 GGKVMVAVLPYEEASMLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMK 239
             +V       +E   +               RIV++       C G H  +  ++  +K
Sbjct: 153 NLEVKSYAPSKKELKKVKTRRAL--PKTDEEIRIVEIVGLDLNACCGVHPRNTRDLQVIK 210

Query: 240 VSQIRTKKGTTKVFYSVG 257
           + +    K  T++ Y  G
Sbjct: 211 IRRWEKHKNATRIEYVAG 228

PyMOL of 3kew

>2ztg_A Alanyl-tRNA synthetase; class-II aminoacyl-tRNA synthetase, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; HET: A5A; 2.20A {Archaeoglobus fulgidus} Length = 739	Back alignment and structure

>2e1b_A PH0108, 216AA long hypothetical alanyl-tRNA synthetase; zinc-binding motif, trans-editing enzyme, structural genomics, NPPSFA; 2.70A {Pyrococcus horikoshii} SCOP: b.43.3.6 d.67.1.2 Length = 216	Back alignment and structure

>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A {Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A* Length = 752	Back alignment and structure

>1v4p_A Alanyl-tRNA synthetase; alanine-tRNA ligase, riken structural genomics/proteomics initiative RSGI, structural genomics; 1.45A {Pyrococcus horikoshii} SCOP: d.67.1.2 PDB: 1wxo_A 1v7o_A 1wnu_A 3rhu_A 3rfn_A Length = 157	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		258
3kew_A		241	DHHA1 domain protein; structural genomics, PSI-2,	100.0
2e1b_A		216	PH0108, 216AA long hypothetical alanyl-tRNA synthe	100.0
2zze_A		752	Alanyl-tRNA synthetase; ligase, hydrolase; HET: ML	100.0
2ztg_A		739	Alanyl-tRNA synthetase; class-II aminoacyl-tRNA sy	100.0
1v4p_A		157	Alanyl-tRNA synthetase; alanine-tRNA ligase, riken	99.97
1tke_A		224	Threonyl-tRNA synthetase; ligase; 1.46A {Escherich	99.95
1nyr_A		645	Threonyl-tRNA synthetase 1; ATP, threonine, ligase	99.91
1qf6_A		642	THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, m	99.9

>3kew_A DHHA1 domain protein; structural genomics, PSI-2, tRNA synthase, protein structure initiative; 2.00A {Clostridium perfringens}	Back alignment and structure

Probab=100.00  E-value=1e-63  Score=429.29  Aligned_cols=226  Identities=26%  Similarity=0.339  Sum_probs=198.9

Q ss_pred             cc-eeceeccccceEeeeEEEEEEecCCCeEEEEEcCccccCCCCCCCCCeEEEEecCCCeEEEEEEEEEeCCEEEEEEE
Q 025098            7 PT-KLDYYDNMLKLQSTSKLISYFKGDDGRRALILESTIFHPQGGGQPSDTGFIIVADSDFKFIVHDVRSKDGIVFHYGV   85 (258)
Q Consensus         7 ~t-~~ly~~~~y~~~~~a~V~~v~~~~~~~~~ivld~T~Fype~GGQ~~D~G~i~~~~~~~~~~V~~v~~~~~~i~H~~~   85 (258)
                      || ++|||+|||+++++|+|+++.. .++.++|+||+|||||||||||+|+|+|.    +  +.|.+|++.+|.++|++ 
T Consensus         1 mT~~~ly~~d~y~~~~~a~V~~~~~-~~~~~~vvLd~T~FYpegGGQ~~D~G~i~----~--~~V~~v~~~~g~i~H~~-   72 (241)
T 3kew_A            1 MSLTKLYYEDQYIKEFKGEIIEVKE-IDGKFHVLLDQTAFFPGGGGQMGDLGLID----G--IKVLDVYEEEGKVYHVL-   72 (241)
T ss_dssp             --CEEGGGTCTTCCEEEECEEEEEE-ETTEEEEEESEECCCCCBTTBCCCCEEET----T--EEEEEEEEETTEEEEEE-
T ss_pred             CcchhhhhhCcccceeEEEEEEEEe-cCCeEEEEEeCCcccCCCCCCCCCEEEEe----e--EEEEEEEEeCCEEEEEE-
Confidence            46 9999999999999999999996 45568999999999999999999999994    3  55999999999999974 


Q ss_pred             EecCCcccccccCCCCEEEEEEcchhhhhhhhcccHHHHHHHHHHHh-CCCcccCCccccC-CCCceEeecCCCCHHHHh
Q 025098           86 VENSGGEFEMELEKGKEVRLWVDESRRKLNSRLHSAGHLLDVCMQKV-GLGHLEPGKGYHF-PDGPYVEYKGSVPQNELQ  163 (258)
Q Consensus        86 ~~~~~~~~~~~~~~g~~V~~~iD~~rR~~~~~~HTa~HlL~~al~~~-~~~~~~~~~g~~~-~~~~~~d~~~~~~~~~l~  163 (258)
                       .       +++.+|++|.+.|||+||+++|++|||+|||++|++++ +..    ..|+++ ++++|+||...++++++.
T Consensus        73 -~-------~~l~~g~~V~~~vD~~rR~~~~~~HTa~HLL~~al~~~~g~~----~~G~~v~~~~~r~Df~~~lt~e~l~  140 (241)
T 3kew_A           73 -E-------KEPKKLKNLQCELDWERRFDGMQQHLGQHLLSGCFYDLFGAN----TCGFHLGKEISTVDIVGFLDEKTIR  140 (241)
T ss_dssp             -S-------SCCCCCSSEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHCCC----EEEEEECSSCEEEEEESCCCHHHHH
T ss_pred             -C-------CcCCCCCEEEEEECHHHhhhHHHHHHHHHHHHHHHHHHCCCC----eEeccccCCeEEEEECCCCCHHHHH
Confidence             2       46789999999999999999999999999999999875 542    257766 578999999889999988


Q ss_pred             hhHHHHHHHHHHHHHcCCceEEEEcCHHHHhhhcCCCCCCCCCCCCCcEEEEECCCCCcCccccccccccccccEEEEEE
Q 025098          164 SKTKELELEANALISRGGKVMVAVLPYEEASMLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMKVSQI  243 (258)
Q Consensus       164 ~~~~~IE~~~n~~I~~~~~v~~~~~~~~ea~~~~~~~~~~~~~~~~~vRvv~ig~~~~~~CgGtHV~~T~eIg~~~I~~~  243 (258)
                      +    ||++||++|++|+||++.+++++||++++..++++  ++++.||+|+||++|.+|||||||+|||+||.|+|++.
T Consensus       141 ~----IE~~vn~~I~~~~pV~~~~~~~~eA~~~~~~~~~e--~~~~~VRvv~ig~~~~~~CgGtHV~~TgeIg~fkI~~~  214 (241)
T 3kew_A          141 E----AEKEANRLIFENLEVKSYAPSKKELKKVKTRRALP--KTDEEIRIVEIVGLDLNACCGVHPRNTRDLQVIKIRRW  214 (241)
T ss_dssp             H----HHHHHHHHHHHTCBEEEECCCTTTTTTCCCSSCCC--CCSSCCCEEEETTTEEEECCSCCCSBSGGGCCEEEEEE
T ss_pred             H----HHHHHHHHHHcCCCEEEEEcCHHHHHhcChhhcCC--ccCCcEEEEEECCeEEEcCCCCCcCCHhhcCCEEEEEE
Confidence            7    99999999999999999999999999875333321  14678999999999999999999999999999999999


Q ss_pred             EEeCCEEEEEEEecC
Q 025098          244 RTKKGTTKVFYSVGS  258 (258)
Q Consensus       244 ~~~~~~~Ri~~~~~~  258 (258)
                      ++.++.+||+|.+|.
T Consensus       215 ~~~~~~~RI~~~~G~  229 (241)
T 3kew_A          215 EKHKNATRIEYVAGN  229 (241)
T ss_dssp             EEETTEEEEEEEEGG
T ss_pred             eccCCcEEEEEEECH
Confidence            988888999999984

PyMOL of 3kew

>2e1b_A PH0108, 216AA long hypothetical alanyl-tRNA synthetase; zinc-binding motif, trans-editing enzyme, structural genomics, NPPSFA; 2.70A {Pyrococcus horikoshii} SCOP: b.43.3.6 d.67.1.2	Back alignment and structure

>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A {Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A*	Back alignment and structure

>2ztg_A Alanyl-tRNA synthetase; class-II aminoacyl-tRNA synthetase, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; HET: A5A; 2.20A {Archaeoglobus fulgidus}	Back alignment and structure

>1v4p_A Alanyl-tRNA synthetase; alanine-tRNA ligase, riken structural genomics/proteomics initiative RSGI, structural genomics; 1.45A {Pyrococcus horikoshii} SCOP: d.67.1.2 PDB: 1wxo_A 1v7o_A 1wnu_A 3rhu_A 3rfn_A	Back alignment and structure

>1tke_A Threonyl-tRNA synthetase; ligase; 1.46A {Escherichia coli} SCOP: d.15.10.1 d.67.1.1 PDB: 1tje_A 1tkg_A* 1tky_A*	Back alignment and structure

>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A {Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1 d.67.1.1 d.104.1.1 PDB: 1nyq_A*	Back alignment and structure

>1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, mRNA, aminoacylati translational regulation, protein/RNA, ligase-RNA complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A {Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1 d.104.1.1	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	E-value
Query		258
d1v4pa_		151	d.67.1.2 (A:) Hypothetical protein PH0574 {Archaeo	3e-12
d2e1ba2		129	d.67.1.2 (A:88-216) AlaX-M trans-editing enzyme, C	4e-12
d2e1ba1		87	b.43.3.6 (A:1-87) AlaX-M trans-editing enzyme, N-t	6e-12

>d1v4pa_ d.67.1.2 (A:) Hypothetical protein PH0574 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Length = 151	Back information, alignment and structure


class: Alpha and beta proteins (a+b)
fold: RRF/tRNA synthetase additional domain-like
superfamily: ThrRS/AlaRS common domain
family: AlaX-like
domain: Hypothetical protein PH0574
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

 Score = 60.7 bits (146), Expect = 3e-12
 Identities = 30/150 (20%), Positives = 56/150 (37%), Gaps = 6/150 (4%)

Query: 112 RKLNSRLHSAGHLLDVCMQKVGLGHLEPGKGYHFPDGPYVEYKGSVPQNELQSKTKELEL 171
             +  R HSA H++   + KV LG         +  G          +     + +E+E 
Sbjct: 2   YSIEVRTHSALHVVKGAVVKV-LGSEAKWTYSTYVKGNKGVLIVKFDRKPSDEEIREIER 60

Query: 172 EANALISRGGKVMVAVLPYEEASMLCGGCLPHYI---PQGSTPRIVKLGDNPGCPCGGTH 228
            AN  +     + +  LP EEA  + G  +             ++V + D     C   H
Sbjct: 61  LANEKVKENAPIKIYELPREEAEKMFGEDMYDLFPVPEDVRILKVVVIEDWNVNACNKEH 120

Query: 229 VSDISEIISMKVSQIRTK--KGTTKVFYSV 256
                EI  +K+ ++R +  KG  ++ + +
Sbjct: 121 TKTTGEIGPIKIRKVRFRKSKGLLEIHFEL 150

PyMOL of d1v4pa_

>d2e1ba2 d.67.1.2 (A:88-216) AlaX-M trans-editing enzyme, C-terminal domain {Pyrococcus horikoshii [TaxId: 53953]} Length = 129	Back information, alignment and structure

>d2e1ba1 b.43.3.6 (A:1-87) AlaX-M trans-editing enzyme, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]} Length = 87	Back information, alignment and structure

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	Probability
Query		258
d2e1ba2		129	AlaX-M trans-editing enzyme, C-terminal domain {Py	100.0
d1v4pa_		151	Hypothetical protein PH0574 {Archaeon Pyrococcus h	100.0
d1nyra3		179	Threonyl-tRNA synthetase (ThrRS), second 'addition	99.93
d2e1ba1		87	AlaX-M trans-editing enzyme, N-terminal domain {Py	99.91
d1tkea2		162	Threonyl-tRNA synthetase (ThrRS), second 'addition	99.86

>d2e1ba2 d.67.1.2 (A:88-216) AlaX-M trans-editing enzyme, C-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}	Back information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: RRF/tRNA synthetase additional domain-like
superfamily: ThrRS/AlaRS common domain
family: AlaX-like
domain: AlaX-M trans-editing enzyme, C-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=100.00  E-value=8e-34  Score=219.68  Aligned_cols=124  Identities=24%  Similarity=0.306  Sum_probs=102.1

Q ss_pred             cchhhhhhhhcccHHHHHHHHHHHh-CCCcccCCccccC-CCCceEeecC--CCCHHHHhhhHHHHHHHHHHHHHcCCce
Q 025098          108 DESRRKLNSRLHSAGHLLDVCMQKV-GLGHLEPGKGYHF-PDGPYVEYKG--SVPQNELQSKTKELELEANALISRGGKV  183 (258)
Q Consensus       108 D~~rR~~~~~~HTa~HlL~~al~~~-~~~~~~~~~g~~~-~~~~~~d~~~--~~~~~~l~~~~~~IE~~~n~~I~~~~~v  183 (258)
                      ||+||+.+|++|||+|||++|++++ |...+ +..|+++ ++.+++||..  .++ ++    .++||+.+|++|.++.||
T Consensus         1 Dw~rR~~~mr~HTa~Hll~~al~~~~g~~~~-~~~G~~i~~~~~r~Df~~~~~l~-~~----~~~ie~~~n~~I~~~~~v   74 (129)
T d2e1ba2           1 DWDYRYKLMRIHTGLHLLEHVLNEVLGEGNW-QLVGSGMSVEKGRYDIAYPENLN-KY----KEQIISLFNKYVDEGGEV   74 (129)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHTTTSC-EEEECCBCSSEEEEEEECSSCGG-GG----HHHHHHHHHHHHHHCCBE
T ss_pred             CHHHHHHHHHHhHHHHHHHHHHHHhcCCCcc-cccccccccceEEEEEecccccc-hH----HHHHHHHHHHHHHhccch
Confidence            8999999999999999999999885 43223 3356666 5568899863  333 22    245999999999999999


Q ss_pred             EEEEcCHHHHhhhcCCCCCCCCCCCCCcEEEEECCCCCcCccccccccccccccEEEEEEEE-eCCEEEEEEEec
Q 025098          184 MVAVLPYEEASMLCGGCLPHYIPQGSTPRIVKLGDNPGCPCGGTHVSDISEIISMKVSQIRT-KKGTTKVFYSVG  257 (258)
Q Consensus       184 ~~~~~~~~ea~~~~~~~~~~~~~~~~~vRvv~ig~~~~~~CgGtHV~~T~eIg~~~I~~~~~-~~~~~Ri~~~~~  257 (258)
                      ...+.                    +.+|+|+|+++|.+|||||||+||++||.|+|++.++ ++|..||+|++.
T Consensus        75 ~~~~~--------------------~~~Riv~I~~~d~~~CgGTHV~~T~eIg~i~I~~~~~~gkg~~RI~~~l~  129 (129)
T d2e1ba2          75 KIWWE--------------------GDRRYTQIRDFEVIPCGGTHVKDIKEIGHIKKLKRSSIGRGKQRLEMWLE  129 (129)
T ss_dssp             EEEES--------------------SSCEEEEETTSCEECCCSCCCSBGGGTCCEEEEEEEEEETTEEEEEEEEC
T ss_pred             hhhhc--------------------ccceEEEeccccccccCCCCCcchhhCccEEEEEEEEEeCCcEEEEEEeC
Confidence            87642                    2579999999999999999999999999999999986 589999999874

PyMOL of d2e1ba2

>d1v4pa_ d.67.1.2 (A:) Hypothetical protein PH0574 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}	Back information, alignment and structure

>d1nyra3 d.67.1.1 (A:63-241) Threonyl-tRNA synthetase (ThrRS), second 'additional' domain {Staphylococcus aureus [TaxId: 1280]}	Back information, alignment and structure

>d2e1ba1 b.43.3.6 (A:1-87) AlaX-M trans-editing enzyme, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}	Back information, alignment and structure

>d1tkea2 d.67.1.1 (A:63-224) Threonyl-tRNA synthetase (ThrRS), second 'additional' domain {Escherichia coli [TaxId: 562]}	Back information, alignment and structure