Psyllid ID: psy695

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210----
Protein Sequence
MNVPVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHccccccccccccEEEcccEEEEEEcHHHHHHHHHHHHHccccccccccccEEEEEcccccccccccccccHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccccccccHHHHcccEEccccEEEEEccHHHHHHHHHHHHHccccccccccccEEEEEcccHHHHHHHcHcccccEEEcccccHHHHHccccccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
mnvpvsdrmsvrDYLSDVFTHAVQVafpelgdktasvastnekyvhkfgdfqcnDAMALCKIFKdkgekknpfdIAQSIASVVTselatnpslakVIDKIEVAKPGFVNVFLSRVyageqikdiivngvqpptlnkKLRVLVdfsspniakemhvghlsrslchgwgkleeeeeeeeeeeeeeeeeeeeeeeeEEEEEEKEEEEKKKKRRKNKI
Flexible Loop (DISEMBL)
mnvpvsdrmsVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIivngvqpptlnKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGWGKLeeeeeeeeeeeeeeeeeeeeeeeeeeeeeekeeeekkkkrrknki
Low Complexity Region (SEG)
MNVPVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGWGKLeeeeeeeeeeeeeeeeeeeeeeeeeeeeeekeeeekkkkRRKNKI
Disordered region (IsUnstruct)
**********VRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGW************************************************
Disordered Region (DISOPRED)
*********SVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFK******NPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGWGKLE********************************************
Disordered Region (DISEMBL)
********MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGWG***********************************************
Disordered Region (DISPRO)
******DRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRR*NKI
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNVPVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxI
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	214	2.2.26 [Sep-21-2011]
Q9VXN4	665	Probable arginine--tRNA l	yes	N/A	0.668	0.215	0.477	6e-32
Q5RA20	660	Arginine--tRNA ligase, cy	yes	N/A	0.700	0.227	0.422	1e-30
P54136	660	Arginine--tRNA ligase, cy	yes	N/A	0.700	0.227	0.422	1e-30
P37880	661	Arginine--tRNA ligase, cy	yes	N/A	0.691	0.223	0.415	1e-30
Q9D0I9	660	Arginine--tRNA ligase, cy	yes	N/A	0.691	0.224	0.427	2e-30
P40329	660	Arginine--tRNA ligase, cy	yes	N/A	0.691	0.224	0.402	5e-29
A7YW98	660	Arginine--tRNA ligase, cy	yes	N/A	0.700	0.227	0.391	9e-29
Q5ZM11	661	Arginine--tRNA ligase, cy	yes	N/A	0.686	0.222	0.408	1e-28
Q6P1S4	660	Arginine--tRNA ligase, cy	yes	N/A	0.635	0.206	0.409	6e-28
Q19825	713	Probable arginine--tRNA l	yes	N/A	0.672	0.201	0.404	4e-22

>sp|Q9VXN4|SYRC_DROME Probable arginine--tRNA ligase, cytoplasmic OS=Drosophila melanogaster GN=Aats-arg PE=2 SV=1

 Score =  137 bits (345), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 73/153 (47%), Positives = 98/153 (64%), Gaps = 10/153 (6%)

Query: 10  SVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEK 69
           S+ ++L  VF  A+  AFPE  D    +A  N     KFGD+QCN+AM L K  K+KG  
Sbjct: 78  SITEHLESVFRQAIASAFPEFRDTPVIIAPVNSTSA-KFGDYQCNNAMGLSKKLKEKGIN 136

Query: 70  KNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGV 129
           K P DIA        +EL  +   + +I+K+E+A  GFVNVFLS+ YA   + +++ NGV
Sbjct: 137 KAPRDIA--------TELKGHCPASPIIEKLEIAGAGFVNVFLSKDYASLALSNLLRNGV 188

Query: 130 QPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           +PP + KK RVLVDFSSPNIAK+MHVGHL  ++
Sbjct: 189 KPPEVIKK-RVLVDFSSPNIAKQMHVGHLRSTI 220

Forms part of a macromolecular complex that catalyzes the attachment of specific amino acids to cognate tRNAs during protein synthesis.
Drosophila melanogaster (taxid: 7227)
EC: 6EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 9

>sp|Q5RA20|SYRC_PONAB Arginine--tRNA ligase, cytoplasmic OS=Pongo abelii GN=RARS PE=2 SV=1

 Score =  133 bits (334), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 68/161 (42%), Positives = 103/161 (63%), Gaps = 11/161 (6%)

Query: 2   NVPVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCK 61
           N P  + ++V   L +VF HA++ A+P+L +    V  + +    KFGD+QCN AM + +
Sbjct: 67  NKPTKNMINVISRLQEVFGHAIKAAYPDLENPPLLVTPSQQA---KFGDYQCNSAMGISQ 123

Query: 62  IFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQI 121
           + K K +K NP +IA++I    T  L  N    + I+K+E+A PGF+N+ L + +  EQ+
Sbjct: 124 MLKTKEQKVNPREIAENI----TKHLPDN----ECIEKVEIAGPGFINIHLRKDFVSEQL 175

Query: 122 KDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             ++VNGVQ P L +  +V+VDFSSPNIAKEMHVGHL  ++
Sbjct: 176 TSLLVNGVQLPALGENKKVIVDFSSPNIAKEMHVGHLRSTI 216

Forms part of a macromolecular complex that catalyzes the attachment of specific amino acids to cognate tRNAs during protein synthesis. Modulates the secretion of AIMP1 and may be involved in generation of the inflammatory cytokine EMAP2 from AIMP1.

Pongo abelii (taxid: 9601)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 9

>sp|P54136|SYRC_HUMAN Arginine--tRNA ligase, cytoplasmic OS=Homo sapiens GN=RARS PE=1 SV=2

 Score =  133 bits (334), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 68/161 (42%), Positives = 103/161 (63%), Gaps = 11/161 (6%)

Query: 2   NVPVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCK 61
           N P  + +++   L +VF HA++ A+P+L +    V  + +    KFGD+QCN AM + +
Sbjct: 67  NKPTKNMINIISRLQEVFGHAIKAAYPDLENPPLLVTPSQQA---KFGDYQCNSAMGISQ 123

Query: 62  IFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQI 121
           + K K +K NP +IA++I    T  L  N    + I+K+E+A PGF+NV L + +  EQ+
Sbjct: 124 MLKTKEQKVNPREIAENI----TKHLPDN----ECIEKVEIAGPGFINVHLRKDFVSEQL 175

Query: 122 KDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             ++VNGVQ P L +  +V+VDFSSPNIAKEMHVGHL  ++
Sbjct: 176 TSLLVNGVQLPALGENKKVIVDFSSPNIAKEMHVGHLRSTI 216

Forms part of a macromolecular complex that catalyzes the attachment of specific amino acids to cognate tRNAs during protein synthesis. Modulates the secretion of AIMP1 and may be involved in generation of the inflammatory cytokine EMAP2 from AIMP1.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 9

>sp|P37880|SYRC_CRIGR Arginine--tRNA ligase, cytoplasmic OS=Cricetulus griseus GN=RARS PE=2 SV=1

 Score =  132 bits (333), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 66/159 (41%), Positives = 101/159 (63%), Gaps = 11/159 (6%)

Query: 4   PVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIF 63
           P  + +++   L DVF  A++ A+P+L +    V  + +    KFGD+QCN AM + ++ 
Sbjct: 70  PTKNMININSRLQDVFGCAIKAAYPDLDNPPLVVTPSQQP---KFGDYQCNSAMGISQML 126

Query: 64  KDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKD 123
           K K +K NP  IA++I    T  L  N    + ID++E+A PGF+NV L + +  EQ+ +
Sbjct: 127 KAKEQKVNPRGIAENI----TKHLPNN----EYIDRVEIAGPGFINVHLRKDFVSEQLTN 178

Query: 124 IIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           ++VNG+Q P L +  +V+VDFSSPNIAKEMHVGHL  ++
Sbjct: 179 LLVNGIQLPALGENKKVIVDFSSPNIAKEMHVGHLRSTI 217

Forms part of a macromolecular complex that catalyzes the attachment of specific amino acids to cognate tRNAs during protein synthesis. Modulates the secretion of AIMP1 and may be involved in generation of the inflammatory cytokine EMAP2 from AIMP1.

Cricetulus griseus (taxid: 10029)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 9

>sp|Q9D0I9|SYRC_MOUSE Arginine--tRNA ligase, cytoplasmic OS=Mus musculus GN=Rars PE=2 SV=2

 Score =  132 bits (331), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 68/159 (42%), Positives = 101/159 (63%), Gaps = 11/159 (6%)

Query: 4   PVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIF 63
           P  + +++   L +VF  A++ A+P+L +    V  + +    KFGD+QCN AM + ++ 
Sbjct: 69  PTKNMININSRLQEVFGCAIRAAYPDLENPPLIVTPSQQP---KFGDYQCNSAMGISQML 125

Query: 64  KDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKD 123
           K K +K +P +IA++I    T  L  N    K IDK+E+A PGF+NV L + +  EQ+  
Sbjct: 126 KAKEQKVSPREIAENI----TKHLPNN----KYIDKVEIAGPGFINVHLRKDFVSEQLTS 177

Query: 124 IIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           ++VNGVQ P L  K +V+VDFSSPNIAKEMHVGHL  ++
Sbjct: 178 LLVNGVQLPVLGDKEKVIVDFSSPNIAKEMHVGHLRSTI 216

Forms part of a macromolecular complex that catalyzes the attachment of specific amino acids to cognate tRNAs during protein synthesis. Modulates the secretion of AIMP1 and may be involved in generation of the inflammatory cytokine EMAP2 from AIMP1.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 9

>sp|P40329|SYRC_RAT Arginine--tRNA ligase, cytoplasmic OS=Rattus norvegicus GN=Rars PE=1 SV=2

 Score =  127 bits (319), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 64/159 (40%), Positives = 102/159 (64%), Gaps = 11/159 (6%)

Query: 4   PVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIF 63
           P  + +++   L ++F  A++ A+P+L +    V  + +    KFGD+QCN AM + ++ 
Sbjct: 69  PTKNMININSRLQELFGCAIKAAYPDLENPPLVVTPSQQP---KFGDYQCNSAMGISQML 125

Query: 64  KDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKD 123
           K K +K +P +IA++I    T  L  N    + ID++E+A PGF+NV L + +  EQ+ +
Sbjct: 126 KAKEQKVSPREIAENI----TKHLPNN----EYIDRVEIAGPGFINVHLRKDFVSEQLTN 177

Query: 124 IIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           ++VNGVQ P L +  +V+VDFSSPNIAKEMHVGHL  ++
Sbjct: 178 LLVNGVQLPVLGENEKVIVDFSSPNIAKEMHVGHLRSTI 216

Forms part of a macromolecular complex that catalyzes the attachment of specific amino acids to cognate tRNAs during protein synthesis. Modulates the secretion of AIMP1 and may be involved in generation of the inflammatory cytokine EMAP2 from AIMP1.

Rattus norvegicus (taxid: 10116)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 9

>sp|A7YW98|SYRC_BOVIN Arginine--tRNA ligase, cytoplasmic OS=Bos taurus GN=RARS PE=2 SV=1

 Score =  126 bits (317), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 63/161 (39%), Positives = 102/161 (63%), Gaps = 11/161 (6%)

Query: 2   NVPVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCK 61
           N P    +++   L +VF  A++ A+P L +    V  + +    KFGD+QCN AM +C+
Sbjct: 67  NKPTKTMININSCLEEVFGCAIKAAYPVLENPPLIVTPSQQP---KFGDYQCNSAMGICQ 123

Query: 62  IFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQI 121
           + K K +K NP +IA++I       L  N    + I+K+E+A PGF+N+ L + +  +Q+
Sbjct: 124 MLKTKEQKVNPREIAENI----VKHLPDN----EYIEKVEIAGPGFINIHLRKGFVSQQL 175

Query: 122 KDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
            +++VNGV+ P++ +  +V+VDFSSPNIAKEMHVGHL  ++
Sbjct: 176 TNLLVNGVKIPSIGENKKVIVDFSSPNIAKEMHVGHLRSTI 216

Forms part of a macromolecular complex that catalyzes the attachment of specific amino acids to cognate tRNAs during protein synthesis. Modulates the secretion of AIMP1 and may be involved in generation of the inflammatory cytokine EMAP2 from AIMP1.

Bos taurus (taxid: 9913)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 9

>sp|Q5ZM11|SYRC_CHICK Arginine--tRNA ligase, cytoplasmic OS=Gallus gallus GN=RARS PE=2 SV=1

 Score =  126 bits (317), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/159 (40%), Positives = 101/159 (63%), Gaps = 12/159 (7%)

Query: 5   VSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIF- 63
           V   +++   L ++F  A+Q A+PEL +    V  + +    KFGD+QCN AM + +I  
Sbjct: 70  VKSMININSRLQEIFGAAIQAAYPELENPPLVVTPSQQP---KFGDYQCNSAMGITQILL 126

Query: 64  KDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKD 123
           K K +K +P +IA+ I    T  +  N    + I+K+E+A PGF+NV L + +  +Q+  
Sbjct: 127 KTKEQKVSPREIAEKI----TKHIPAN----ECIEKVEIAGPGFINVHLRKDFVSKQLSS 178

Query: 124 IIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           ++VNGVQPP + K+ +V++DFSSPNIAKEMHVGHL  ++
Sbjct: 179 LLVNGVQPPAIGKRKKVILDFSSPNIAKEMHVGHLRSTI 217

Forms part of a macromolecular complex that catalyzes the attachment of specific amino acids to cognate tRNAs during protein synthesis.

Gallus gallus (taxid: 9031)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 9

>sp|Q6P1S4|SYRC_XENTR Arginine--tRNA ligase, cytoplasmic OS=Xenopus tropicalis GN=rars PE=2 SV=1

 Score =  124 bits (310), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 61/149 (40%), Positives = 98/149 (65%), Gaps = 13/149 (8%)

Query: 15  LSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFD 74
           + ++F  A+  A+PEL +   +V  + +    KFGD+QCN AMA+ ++ K   +K +P +
Sbjct: 80  IQEIFGTAIGAAYPELQNAPLAVTPSQQP---KFGDYQCNSAMAITQMLKAMNQKVSPRE 136

Query: 75  IAQSIA-SVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPT 133
           IA  I  ++ T+EL         ++K+++A PGF+NV L + +  +QI  ++VNGVQPP 
Sbjct: 137 IADKIVKNIPTNEL---------VEKVDIAGPGFINVHLHKDFTSKQISKLLVNGVQPPV 187

Query: 134 LNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           + ++ +V+VDFSSPNIAKEMHVGHL  ++
Sbjct: 188 IWERKKVVVDFSSPNIAKEMHVGHLRSTV 216

Forms part of a macromolecular complex that catalyzes the attachment of specific amino acids to cognate tRNAs during protein synthesis.

Xenopus tropicalis (taxid: 8364)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 9

>sp|Q19825|SYRC_CAEEL Probable arginine--tRNA ligase, cytoplasmic OS=Caenorhabditis elegans GN=rrt-1 PE=2 SV=2

 Score =  104 bits (259), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 66/163 (40%), Positives = 89/163 (54%), Gaps = 19/163 (11%)

Query: 7   DRMSVRDY-------LSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMAL 59
           D ++V DY       L  +F  A++ AFP L D    +A T      +FGD+QCN AM +
Sbjct: 118 DYVTVEDYGSSIFGRLQSLFKKAIEDAFPGL-DVPLLLAETPNP---QFGDYQCNSAMPI 173

Query: 60  CKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGE 119
               K     K P D+A+ I        A  P+    ++KI+V   GF+N+FL+  Y   
Sbjct: 174 AAKLKANKINKRPGDVAKEIQ-------AKLPTKIDFVEKIDVMPAGFINIFLNTDYLRR 226

Query: 120 QIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           QI  +   GV+ P L +K RVLVDFSSPNIAKEMHVGHL  ++
Sbjct: 227 QISLLASEGVKLPKLTRK-RVLVDFSSPNIAKEMHVGHLRSTI 268

Forms part of a macromolecular complex that catalyzes the attachment of specific amino acids to cognate tRNAs during protein synthesis.

Caenorhabditis elegans (taxid: 6239)

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 9

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	214
194745067	666	GF16459 [Drosophila ananassae] gi|190628	0.705	0.226	0.459	5e-32
195175085	664	GL14083 [Drosophila persimilis] gi|19411	0.691	0.222	0.449	1e-31
443718167	656	hypothetical protein CAPTEDRAFT_225710 [	0.658	0.214	0.461	3e-31
195479011	664	GE16015 [Drosophila yakuba] gi|194188256	0.691	0.222	0.468	4e-31
198456442	282	GA24005 [Drosophila pseudoobscura pseudo	0.691	0.524	0.443	4e-31
195553723	665	GD24677 [Drosophila simulans] gi|1942027	0.668	0.215	0.477	2e-30
195355443	665	GM22521 [Drosophila sechellia] gi|194129	0.668	0.215	0.477	2e-30
242009305	575	Arginyl-tRNA synthetase, putative [Pedic	0.663	0.246	0.450	3e-30
18859963	665	Arginyl-tRNA synthetase [Drosophila mela	0.668	0.215	0.477	3e-30
156383395	588	predicted protein [Nematostella vectensi	0.640	0.232	0.432	5e-30

>gi|194745067|ref|XP_001955014.1| GF16459 [Drosophila ananassae] gi|190628051|gb|EDV43575.1| GF16459 [Drosophila ananassae]

 Score =  143 bits (360), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 74/161 (45%), Positives = 106/161 (65%), Gaps = 10/161 (6%)

Query: 2   NVPVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCK 61
           ++ V +  S+ ++L  VF  A+ +AFPE  D   S+A  N     KFGD+QCN+AM L K
Sbjct: 71  SIEVQENSSITEHLHFVFAQAIALAFPEYKDTPVSIAPVNSASA-KFGDYQCNNAMKLAK 129

Query: 62  IFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQI 121
             K+KG  K+P DIA        +E+  N  ++ +I+K+EVA  GFVNVFLS+ YA + +
Sbjct: 130 QLKEKGINKSPGDIA--------TEIQRNCPVSPLIEKLEVAGAGFVNVFLSKNYASQAL 181

Query: 122 KDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             ++ NGV+PP + K+ RVL+DFSSPNIAK+MHVGHL  ++
Sbjct: 182 SGLLRNGVKPPPVPKR-RVLIDFSSPNIAKQMHVGHLRSTI 221

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195175085|ref|XP_002028293.1| GL14083 [Drosophila persimilis] gi|194117430|gb|EDW39473.1| GL14083 [Drosophila persimilis]

 Score =  142 bits (357), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 71/158 (44%), Positives = 104/158 (65%), Gaps = 10/158 (6%)

Query: 5   VSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFK 64
           V++  S+ ++L +VF  A+ +AFPE G+    +A  N     K+GD+QCN+AM L K  K
Sbjct: 72  VTESFSITEHLENVFARAISLAFPEYGNIPVIIAPVNSASA-KYGDYQCNNAMGLAKKMK 130

Query: 65  DKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDI 124
           + G  + P DIA        +EL     L+ +I+K+EV   GFVNV+LS+ YA + +K+I
Sbjct: 131 EMGVNRTPRDIA--------NELQKCCPLSPIINKLEVGGAGFVNVYLSKDYAAQSLKNI 182

Query: 125 IVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           + NG++PP + K+ RVLVDFSSPNIAK+MHVGHL  ++
Sbjct: 183 LRNGIKPPRVLKR-RVLVDFSSPNIAKQMHVGHLRSTI 219

Source: Drosophila persimilis

Species: Drosophila persimilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|443718167|gb|ELU08912.1| hypothetical protein CAPTEDRAFT_225710 [Capitella teleta]

 Score =  140 bits (354), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 105/156 (67%), Gaps = 15/156 (9%)

Query: 5   VSDR---MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCK 61
           VSD+   +S+   LS +F  A+Q A+P+L D   +V  + ++    FGD+QCN AM L K
Sbjct: 61  VSDKKNMVSIMTGLSQLFGQAIQSAYPDLVDPPTTVVPSTQR----FGDYQCNSAMGLVK 116

Query: 62  IFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQI 121
           + KDKG K NP +IAQ+IA+ V+     NP    +I+K++VA PGF+NV+L++ Y  ++I
Sbjct: 117 MLKDKGVKANPREIAQNIANNVSE----NP----LIEKVDVAGPGFINVYLTKAYVIDEI 168

Query: 122 KDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGH 157
            +++  GV+PP +  + RVLVD SSPNIAK MHVGH
Sbjct: 169 NNLLSMGVRPPYVGARKRVLVDMSSPNIAKVMHVGH 204

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|195479011|ref|XP_002100732.1| GE16015 [Drosophila yakuba] gi|194188256|gb|EDX01840.1| GE16015 [Drosophila yakuba]

 Score =  140 bits (353), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 74/158 (46%), Positives = 100/158 (63%), Gaps = 10/158 (6%)

Query: 5   VSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFK 64
           + D  S+ ++L  VF  A+  AFPE  D    +A  N     KFGD+QCN+AM L K  K
Sbjct: 72  LKDSSSITEHLESVFGQAIASAFPEFRDTPVIIAPVNSTSA-KFGDYQCNNAMGLSKKLK 130

Query: 65  DKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDI 124
           +KG  K P DIA        +EL  +   + +I+K+E+A  GFVNVFLS+ YA   + ++
Sbjct: 131 EKGISKAPRDIA--------TELKGHCPPSPLIEKLEIAGAGFVNVFLSKDYAASALSNL 182

Query: 125 IVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           + NGV PP +NK+ RVLVDFSSPNIAK+MHVGHL  ++
Sbjct: 183 LRNGVSPPEVNKR-RVLVDFSSPNIAKQMHVGHLRSTI 219

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|198456442|ref|XP_002136329.1| GA24005 [Drosophila pseudoobscura pseudoobscura] gi|198142680|gb|EDY71404.1| GA24005 [Drosophila pseudoobscura pseudoobscura]

 Score =  140 bits (353), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 70/158 (44%), Positives = 104/158 (65%), Gaps = 10/158 (6%)

Query: 5   VSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFK 64
           V++  S+ ++L +VF  A+ +AFPE G+    +A  N     K+GD+QCN+AM L K  K
Sbjct: 72  VTESFSITEHLENVFARAISLAFPEYGNIPVIIAPVNSASA-KYGDYQCNNAMGLAKKMK 130

Query: 65  DKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDI 124
           + G  + P DIA        +EL     L+ +I+K+EV   GFVNV+LS+ YA + +K+I
Sbjct: 131 EMGVNRTPRDIA--------NELQKCCPLSPIINKLEVGGAGFVNVYLSKDYAAQSLKNI 182

Query: 125 IVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           + +G++PP + K+ RVLVDFSSPNIAK+MHVGHL  ++
Sbjct: 183 LRHGIKPPRVLKR-RVLVDFSSPNIAKQMHVGHLRSTI 219

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195553723|ref|XP_002076727.1| GD24677 [Drosophila simulans] gi|194202717|gb|EDX16293.1| GD24677 [Drosophila simulans]

 Score =  137 bits (346), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 73/153 (47%), Positives = 97/153 (63%), Gaps = 10/153 (6%)

Query: 10  SVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEK 69
           S+ ++L  VF  A+  AFPE  D    +A  N     KFGD+QCN+AM L K  K+KG  
Sbjct: 78  SITEHLESVFGQAIASAFPEFRDTPVIIAPVNSTSA-KFGDYQCNNAMGLSKKLKEKGIN 136

Query: 70  KNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGV 129
           K P DIA        +EL  +   + +I+K+E+A  GFVNVFLS+ YA   + +++ NGV
Sbjct: 137 KAPRDIA--------TELKGHCPASPIIEKLEIAGAGFVNVFLSKDYASSALSNLLRNGV 188

Query: 130 QPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
            PP + KK RVLVDFSSPNIAK+MHVGHL  ++
Sbjct: 189 TPPEVIKK-RVLVDFSSPNIAKQMHVGHLRSTI 220

Source: Drosophila simulans

Species: Drosophila simulans

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195355443|ref|XP_002044201.1| GM22521 [Drosophila sechellia] gi|194129490|gb|EDW51533.1| GM22521 [Drosophila sechellia]

 Score =  137 bits (346), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 73/153 (47%), Positives = 97/153 (63%), Gaps = 10/153 (6%)

Query: 10  SVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEK 69
           S+ ++L  VF  A+  AFPE  D    +A  N     KFGD+QCN+AM L K  K+KG  
Sbjct: 78  SITEHLESVFGQAIASAFPEFRDTPVIIAPVNSTSA-KFGDYQCNNAMGLSKKLKEKGIN 136

Query: 70  KNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGV 129
           K P DIA        +EL  +   + +I+K+E+A  GFVNVFLS+ YA   + +++ NGV
Sbjct: 137 KAPRDIA--------TELKGHCPASPIIEKLEIAGAGFVNVFLSKDYASSALSNLLRNGV 188

Query: 130 QPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
            PP + KK RVLVDFSSPNIAK+MHVGHL  ++
Sbjct: 189 TPPEVIKK-RVLVDFSSPNIAKQMHVGHLRSTI 220

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242009305|ref|XP_002425430.1| Arginyl-tRNA synthetase, putative [Pediculus humanus corporis] gi|212509247|gb|EEB12692.1| Arginyl-tRNA synthetase, putative [Pediculus humanus corporis]

 Score =  137 bits (345), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 69/153 (45%), Positives = 99/153 (64%), Gaps = 11/153 (7%)

Query: 10  SVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEK 69
           S+++ L  +F  A+Q AFPEL +    +A++N     KFGD+QCN AM + ++ K +G+K
Sbjct: 59  SIQNTLVSIFKEAIQRAFPELKNAPVVIAASNNS---KFGDYQCNSAMPIVQLLKSEGKK 115

Query: 70  KNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGV 129
            NP ++A+ I S V+           +I+K+EVA  GF+NV LSR      ++ I+ NGV
Sbjct: 116 SNPREVAEKIKSCVSPH--------NLIEKLEVAGAGFINVTLSRTEGQNCLQFILKNGV 167

Query: 130 QPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
            PP +N K RV+VDFSSPNIAKEMHVGHL  ++
Sbjct: 168 LPPKVNAKCRVIVDFSSPNIAKEMHVGHLRSTI 200

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|18859963|ref|NP_573081.1| Arginyl-tRNA synthetase [Drosophila melanogaster] gi|20178140|sp|Q9VXN4.1|SYRC_DROME RecName: Full=Probable arginine--tRNA ligase, cytoplasmic; AltName: Full=Arginyl-tRNA synthetase; Short=ArgRS gi|7293140|gb|AAF48524.1| Arginyl-tRNA synthetase [Drosophila melanogaster] gi|17944966|gb|AAL48546.1| RE02962p [Drosophila melanogaster] gi|220947778|gb|ACL86432.1| Aats-arg-PA [synthetic construct]

 Score =  137 bits (345), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 73/153 (47%), Positives = 98/153 (64%), Gaps = 10/153 (6%)

Query: 10  SVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEK 69
           S+ ++L  VF  A+  AFPE  D    +A  N     KFGD+QCN+AM L K  K+KG  
Sbjct: 78  SITEHLESVFRQAIASAFPEFRDTPVIIAPVNSTSA-KFGDYQCNNAMGLSKKLKEKGIN 136

Query: 70  KNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGV 129
           K P DIA        +EL  +   + +I+K+E+A  GFVNVFLS+ YA   + +++ NGV
Sbjct: 137 KAPRDIA--------TELKGHCPASPIIEKLEIAGAGFVNVFLSKDYASLALSNLLRNGV 188

Query: 130 QPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
           +PP + KK RVLVDFSSPNIAK+MHVGHL  ++
Sbjct: 189 KPPEVIKK-RVLVDFSSPNIAKQMHVGHLRSTI 220

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156383395|ref|XP_001632819.1| predicted protein [Nematostella vectensis] gi|156219881|gb|EDO40756.1| predicted protein [Nematostella vectensis]

 Score =  136 bits (343), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 64/148 (43%), Positives = 97/148 (65%), Gaps = 11/148 (7%)

Query: 15  LSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFD 74
           L+++F  A++VAFP + D    V ST      KFGD+QCN AM L +I K+ G+K NP  
Sbjct: 8   LNELFKQAIRVAFPAVTDPPILVQSTQND---KFGDYQCNSAMGLSQILKNNGQKANP-- 62

Query: 75  IAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTL 134
             Q+IA  + + L  N     +I+K+++A PGF+NV +++ +  + ++D++ NGV PP +
Sbjct: 63  --QAIAKSIIASLPPN----DLIEKVDIAGPGFINVHMNKKFIKDILRDVVANGVHPPAI 116

Query: 135 NKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             + R +VDFSSPNIAKEMHVGHL  ++
Sbjct: 117 RSRQRCIVDFSSPNIAKEMHVGHLRSTI 144

Source: Nematostella vectensis

Species: Nematostella vectensis

Genus: Nematostella

Family: Edwardsiidae

Order: Actiniaria

Class: Anthozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	214
UNIPROTKB|P54136	660	RARS "Arginine--tRNA ligase, c	0.700	0.227	0.422	2.4e-29
FB|FBgn0027093	665	Aats-arg "Arginyl-tRNA synthet	0.668	0.215	0.477	4e-29
MGI|MGI:1914297	660	Rars "arginyl-tRNA synthetase"	0.691	0.224	0.427	1.4e-28
ZFIN|ZDB-GENE-030131-9014	661	rars "arginyl-tRNA synthetase"	0.705	0.228	0.413	2.3e-28
UNIPROTKB|F1NFP5	608	RARS "Arginine--tRNA ligase, c	0.686	0.241	0.402	7.8e-28
UNIPROTKB|Q5ZM11	661	RARS "Arginine--tRNA ligase, c	0.686	0.222	0.408	7.9e-28
UNIPROTKB|A7YW98	660	RARS "Arginine--tRNA ligase, c	0.700	0.227	0.391	1.7e-27
UNIPROTKB|J9P440	643	RARS "Uncharacterized protein"	0.691	0.230	0.396	2.6e-27
UNIPROTKB|E2QRR5	660	RARS "Uncharacterized protein"	0.691	0.224	0.396	2.8e-27
RGD|1309215	660	Rars "arginyl-tRNA synthetase"	0.691	0.224	0.402	2.8e-27

UNIPROTKB|P54136 RARS "Arginine--tRNA ligase, cytoplasmic" [Homo sapiens (taxid:9606)]

 Score = 333 (122.3 bits), Expect = 2.4e-29, P = 2.4e-29
 Identities = 68/161 (42%), Positives = 103/161 (63%)

Query:     2 NVPVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCK 61
             N P  + +++   L +VF HA++ A+P+L +    V  + +    KFGD+QCN AM + +
Sbjct:    67 NKPTKNMINIISRLQEVFGHAIKAAYPDLENPPLLVTPSQQA---KFGDYQCNSAMGISQ 123

Query:    62 IFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQI 121
             + K K +K NP +IA++I    T  L  N    + I+K+E+A PGF+NV L + +  EQ+
Sbjct:   124 MLKTKEQKVNPREIAENI----TKHLPDN----ECIEKVEIAGPGFINVHLRKDFVSEQL 175

Query:   122 KDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
               ++VNGVQ P L +  +V+VDFSSPNIAKEMHVGHL  ++
Sbjct:   176 TSLLVNGVQLPALGENKKVIVDFSSPNIAKEMHVGHLRSTI 216

GO:0000049 "tRNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0006420 "arginyl-tRNA aminoacylation" evidence=IEA

GO:0017101 "aminoacyl-tRNA synthetase multienzyme complex" evidence=IEA

GO:0034618 "arginine binding" evidence=IEA

GO:0004814 "arginine-tRNA ligase activity" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006418 "tRNA aminoacylation for protein translation" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

FB|FBgn0027093 Aats-arg "Arginyl-tRNA synthetase" [Drosophila melanogaster (taxid:7227)]

 Score = 331 (121.6 bits), Expect = 4.0e-29, P = 4.0e-29
 Identities = 73/153 (47%), Positives = 98/153 (64%)

Query:    10 SVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEK 69
             S+ ++L  VF  A+  AFPE  D    +A  N     KFGD+QCN+AM L K  K+KG  
Sbjct:    78 SITEHLESVFRQAIASAFPEFRDTPVIIAPVNSTSA-KFGDYQCNNAMGLSKKLKEKGIN 136

Query:    70 KNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGV 129
             K P DIA        +EL  +   + +I+K+E+A  GFVNVFLS+ YA   + +++ NGV
Sbjct:   137 KAPRDIA--------TELKGHCPASPIIEKLEIAGAGFVNVFLSKDYASLALSNLLRNGV 188

Query:   130 QPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             +PP + KK RVLVDFSSPNIAK+MHVGHL  ++
Sbjct:   189 KPPEVIKK-RVLVDFSSPNIAKQMHVGHLRSTI 220

GO:0006420 "arginyl-tRNA aminoacylation" evidence=IEA;NAS

GO:0004814 "arginine-tRNA ligase activity" evidence=ISS;NAS

GO:0005737 "cytoplasm" evidence=IEA;NAS

GO:0005524 "ATP binding" evidence=IEA

MGI|MGI:1914297 Rars "arginyl-tRNA synthetase" [Mus musculus (taxid:10090)]

 Score = 326 (119.8 bits), Expect = 1.4e-28, P = 1.4e-28
 Identities = 68/159 (42%), Positives = 101/159 (63%)

Query:     4 PVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIF 63
             P  + +++   L +VF  A++ A+P+L +    V  + +    KFGD+QCN AM + ++ 
Sbjct:    69 PTKNMININSRLQEVFGCAIRAAYPDLENPPLIVTPSQQP---KFGDYQCNSAMGISQML 125

Query:    64 KDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKD 123
             K K +K +P +IA++I    T  L  N    K IDK+E+A PGF+NV L + +  EQ+  
Sbjct:   126 KAKEQKVSPREIAENI----TKHLPNN----KYIDKVEIAGPGFINVHLRKDFVSEQLTS 177

Query:   124 IIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             ++VNGVQ P L  K +V+VDFSSPNIAKEMHVGHL  ++
Sbjct:   178 LLVNGVQLPVLGDKEKVIVDFSSPNIAKEMHVGHLRSTI 216

GO:0000049 "tRNA binding" evidence=ISO

GO:0000166 "nucleotide binding" evidence=IEA

GO:0004812 "aminoacyl-tRNA ligase activity" evidence=IEA

GO:0004814 "arginine-tRNA ligase activity" evidence=ISO

GO:0005524 "ATP binding" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0006412 "translation" evidence=IEA

GO:0006418 "tRNA aminoacylation for protein translation" evidence=IEA

GO:0006420 "arginyl-tRNA aminoacylation" evidence=ISO

GO:0016874 "ligase activity" evidence=IEA

GO:0017101 "aminoacyl-tRNA synthetase multienzyme complex" evidence=ISO

GO:0034618 "arginine binding" evidence=ISO

ZFIN|ZDB-GENE-030131-9014 rars "arginyl-tRNA synthetase" [Danio rerio (taxid:7955)]

 Score = 324 (119.1 bits), Expect = 2.3e-28, P = 2.3e-28
 Identities = 67/162 (41%), Positives = 100/162 (61%)

Query:     1 MNVPVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALC 60
             MN      +++   L  +F  A+  A+P+L +   SV  + +    KFGD+QCN AMA+ 
Sbjct:    67 MNHNGKTMLNINQLLQQIFGEAISSAYPDLENPPLSVTPSQQA---KFGDYQCNSAMAMS 123

Query:    61 KIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQ 120
             ++ K KG K +P +IA+ I   + +          +I+K E+A PGF+NV L R +  + 
Sbjct:   124 QMMKAKGLKVSPREIAEKIVQNIPNN--------DLIEKTEIAGPGFINVHLKRNFVSKL 175

Query:   121 IKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             + +++VNGVQPP L KK +V+VDFSSPNIAKEMHVGHL  ++
Sbjct:   176 LSNVLVNGVQPPPLQKKKKVIVDFSSPNIAKEMHVGHLRSTI 217

GO:0000166 "nucleotide binding" evidence=IEA

GO:0004814 "arginine-tRNA ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006418 "tRNA aminoacylation for protein translation" evidence=IEA

GO:0006420 "arginyl-tRNA aminoacylation" evidence=IEA

GO:0004812 "aminoacyl-tRNA ligase activity" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

UNIPROTKB|F1NFP5 RARS "Arginine--tRNA ligase, cytoplasmic" [Gallus gallus (taxid:9031)]

 Score = 318 (117.0 bits), Expect = 7.8e-28, P = 7.8e-28
 Identities = 64/159 (40%), Positives = 101/159 (63%)

Query:     5 VSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIF- 63
             V   +++   L ++F  A+Q A+PEL +    V  + +    KFGD+QCN AM + +I  
Sbjct:    70 VKSMININSRLQEIFGAAIQAAYPELENPPLVVTPSQQP---KFGDYQCNSAMGITQILL 126

Query:    64 KDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKD 123
             K K +K +P +IA+ I    T  +  N    + I+K+E+A PGF+N+ L + +  +Q+  
Sbjct:   127 KTKEQKVSPREIAEKI----TKHIPAN----ECIEKVEIAGPGFINIHLRKDFVSKQLSS 178

Query:   124 IIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             ++VNGVQPP + K+ +V++DFSSPNIAKEMHVGHL  ++
Sbjct:   179 LLVNGVQPPAIGKRKKVILDFSSPNIAKEMHVGHLRSTI 217

GO:0004814 "arginine-tRNA ligase activity" evidence=IEA

GO:0006420 "arginyl-tRNA aminoacylation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

UNIPROTKB|Q5ZM11 RARS "Arginine--tRNA ligase, cytoplasmic" [Gallus gallus (taxid:9031)]

 Score = 319 (117.4 bits), Expect = 7.9e-28, P = 7.9e-28
 Identities = 65/159 (40%), Positives = 101/159 (63%)

Query:     5 VSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIF- 63
             V   +++   L ++F  A+Q A+PEL +    V  + +    KFGD+QCN AM + +I  
Sbjct:    70 VKSMININSRLQEIFGAAIQAAYPELENPPLVVTPSQQP---KFGDYQCNSAMGITQILL 126

Query:    64 KDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKD 123
             K K +K +P +IA+ I    T  +  N    + I+K+E+A PGF+NV L + +  +Q+  
Sbjct:   127 KTKEQKVSPREIAEKI----TKHIPAN----ECIEKVEIAGPGFINVHLRKDFVSKQLSS 178

Query:   124 IIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             ++VNGVQPP + K+ +V++DFSSPNIAKEMHVGHL  ++
Sbjct:   179 LLVNGVQPPAIGKRKKVILDFSSPNIAKEMHVGHLRSTI 217

GO:0006420 "arginyl-tRNA aminoacylation" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0004814 "arginine-tRNA ligase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|A7YW98 RARS "Arginine--tRNA ligase, cytoplasmic" [Bos taurus (taxid:9913)]

 Score = 316 (116.3 bits), Expect = 1.7e-27, P = 1.7e-27
 Identities = 63/161 (39%), Positives = 102/161 (63%)

Query:     2 NVPVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCK 61
             N P    +++   L +VF  A++ A+P L +    V  + +    KFGD+QCN AM +C+
Sbjct:    67 NKPTKTMININSCLEEVFGCAIKAAYPVLENPPLIVTPSQQP---KFGDYQCNSAMGICQ 123

Query:    62 IFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQI 121
             + K K +K NP +IA++I       L  N    + I+K+E+A PGF+N+ L + +  +Q+
Sbjct:   124 MLKTKEQKVNPREIAENIVK----HLPDN----EYIEKVEIAGPGFINIHLRKGFVSQQL 175

Query:   122 KDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
              +++VNGV+ P++ +  +V+VDFSSPNIAKEMHVGHL  ++
Sbjct:   176 TNLLVNGVKIPSIGENKKVIVDFSSPNIAKEMHVGHLRSTI 216

GO:0005739 "mitochondrion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0004814 "arginine-tRNA ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006420 "arginyl-tRNA aminoacylation" evidence=IEA

UNIPROTKB|J9P440 RARS "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 314 (115.6 bits), Expect = 2.6e-27, P = 2.6e-27
 Identities = 63/159 (39%), Positives = 102/159 (64%)

Query:     4 PVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIF 63
             P  + +++   L +VF  A++ A+P+L +    V  + +    KFGD+QCN AM + ++ 
Sbjct:    69 PTKNMININSRLQEVFGCAIKAAYPDLENPPLIVTPSQQP---KFGDYQCNSAMGISQML 125

Query:    64 KDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKD 123
             K K +K NP +IA++I    T  L  N    + ++++E+A PGF+NV L + +  +Q+ +
Sbjct:   126 KTKEQKVNPREIAENI----TKHLPDN----ECVERVEIAGPGFINVHLRKDFVSQQLTN 177

Query:   124 IIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             ++VNGVQ P L +  +V+VDFSSPNIAKEMHVGHL  ++
Sbjct:   178 LLVNGVQLPALGENKKVVVDFSSPNIAKEMHVGHLRSTI 216

GO:0005524 "ATP binding" evidence=IEA

GO:0006420 "arginyl-tRNA aminoacylation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0004814 "arginine-tRNA ligase activity" evidence=IEA

UNIPROTKB|E2QRR5 RARS "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 314 (115.6 bits), Expect = 2.8e-27, P = 2.8e-27
 Identities = 63/159 (39%), Positives = 102/159 (64%)

Query:     4 PVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIF 63
             P  + +++   L +VF  A++ A+P+L +    V  + +    KFGD+QCN AM + ++ 
Sbjct:    69 PTKNMININSRLQEVFGCAIKAAYPDLENPPLIVTPSQQP---KFGDYQCNSAMGISQML 125

Query:    64 KDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKD 123
             K K +K NP +IA++I    T  L  N    + ++++E+A PGF+NV L + +  +Q+ +
Sbjct:   126 KTKEQKVNPREIAENI----TKHLPDN----ECVERVEIAGPGFINVHLRKDFVSQQLTN 177

Query:   124 IIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             ++VNGVQ P L +  +V+VDFSSPNIAKEMHVGHL  ++
Sbjct:   178 LLVNGVQLPALGENKKVVVDFSSPNIAKEMHVGHLRSTI 216

GO:0005739 "mitochondrion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006420 "arginyl-tRNA aminoacylation" evidence=IEA

GO:0004814 "arginine-tRNA ligase activity" evidence=IEA

RGD|1309215 Rars "arginyl-tRNA synthetase" [Rattus norvegicus (taxid:10116)]

 Score = 314 (115.6 bits), Expect = 2.8e-27, P = 2.8e-27
 Identities = 64/159 (40%), Positives = 102/159 (64%)

Query:     4 PVSDRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIF 63
             P  + +++   L ++F  A++ A+P+L +    V  + +    KFGD+QCN AM + ++ 
Sbjct:    69 PTKNMININSRLQELFGCAIKAAYPDLENPPLVVTPSQQP---KFGDYQCNSAMGISQML 125

Query:    64 KDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKD 123
             K K +K +P +IA++I    T  L  N    + ID++E+A PGF+NV L + +  EQ+ +
Sbjct:   126 KAKEQKVSPREIAENI----TKHLPNN----EYIDRVEIAGPGFINVHLRKDFVSEQLTN 177

Query:   124 IIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSL 162
             ++VNGVQ P L +  +V+VDFSSPNIAKEMHVGHL  ++
Sbjct:   178 LLVNGVQLPVLGENEKVIVDFSSPNIAKEMHVGHLRSTI 216

GO:0000049 "tRNA binding" evidence=IDA

GO:0004814 "arginine-tRNA ligase activity" evidence=IDA

GO:0005524 "ATP binding" evidence=IDA

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0006420 "arginyl-tRNA aminoacylation" evidence=IDA

GO:0017101 "aminoacyl-tRNA synthetase multienzyme complex" evidence=IDA

GO:0034618 "arginine binding" evidence=IDA

GO:0005730 "nucleolus" evidence=ISO

---

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 EFICAz Software

Prediction Level	EC number	Confidence of Prediction
4th Layer	6.1.1.19	LOW CONFIDENCE prediction!
3rd Layer	6.1.1	LOW CONFIDENCE prediction!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	214
PLN02286	576	PLN02286, PLN02286, arginine-tRNA ligase	8e-34
PRK01611	507	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	5e-29
COG0018	577	COG0018, ArgS, Arginyl-tRNA synthetase [Translatio	3e-26
TIGR00456	566	TIGR00456, argS, arginyl-tRNA synthetase	3e-15
pfam03485	84	pfam03485, Arg_tRNA_synt_N, Arginyl tRNA synthetas	5e-15
smart01016	85	smart01016, Arg_tRNA_synt_N, Arginyl tRNA syntheta	3e-13
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	7e-12
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	6e-11
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-10
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	4e-10
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	3e-09
pfam00750	345	pfam00750, tRNA-synt_1d, tRNA synthetases class I	4e-09
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-08
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	4e-08
pfam00183	529	pfam00183, HSP90, Hsp90 protein	9e-08
pfam00183	529	pfam00183, HSP90, Hsp90 protein	2e-07
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	2e-07
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	3e-07
PRK12451	562	PRK12451, PRK12451, arginyl-tRNA synthetase; Revie	6e-07
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	6e-07
pfam00183	529	pfam00183, HSP90, Hsp90 protein	7e-07
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-06
pfam00183	529	pfam00183, HSP90, Hsp90 protein	1e-06
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-06
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	1e-06
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	1e-06
cd00671	212	cd00671, ArgRS_core, catalytic core domain of argi	1e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	3e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-06
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	5e-06
pfam04147	809	pfam04147, Nop14, Nop14-like family	5e-06
pfam04147	809	pfam04147, Nop14, Nop14-like family	5e-06
pfam04147	809	pfam04147, Nop14, Nop14-like family	6e-06
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	6e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	7e-06
pfam04147	809	pfam04147, Nop14, Nop14-like family	7e-06
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	8e-06
pfam03344	715	pfam03344, Daxx, Daxx Family	8e-06
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	8e-06
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	1e-05
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	1e-05
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-05
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	1e-05
pfam03344	715	pfam03344, Daxx, Daxx Family	1e-05
pfam03344	715	pfam03344, Daxx, Daxx Family	1e-05
pfam03344	715	pfam03344, Daxx, Daxx Family	1e-05
pfam03985	431	pfam03985, Paf1, Paf1	1e-05
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	2e-05
pfam04147	809	pfam04147, Nop14, Nop14-like family	2e-05
pfam04147	809	pfam04147, Nop14, Nop14-like family	2e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-05
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	2e-05
pfam03344	715	pfam03344, Daxx, Daxx Family	2e-05
pfam02724	583	pfam02724, CDC45, CDC45-like protein	2e-05
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	2e-05
pfam04147	809	pfam04147, Nop14, Nop14-like family	3e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-05
pfam03344	715	pfam03344, Daxx, Daxx Family	3e-05
pfam03344	715	pfam03344, Daxx, Daxx Family	3e-05
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	3e-05
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	3e-05
pfam11831	363	pfam11831, Myb_Cef, pre-mRNA splicing factor compo	3e-05
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	4e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	4e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	4e-05
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	4e-05
pfam03344	715	pfam03344, Daxx, Daxx Family	4e-05
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	4e-05
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	5e-05
PRK05658	619	PRK05658, PRK05658, RNA polymerase sigma factor Rp	5e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	6e-05
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	6e-05
pfam03344	715	pfam03344, Daxx, Daxx Family	6e-05
pfam03344	715	pfam03344, Daxx, Daxx Family	6e-05
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	7e-05
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	7e-05
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	7e-05
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	7e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	8e-05
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	1e-04
pfam02724	583	pfam02724, CDC45, CDC45-like protein	1e-04
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-04
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	1e-04
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	1e-04
PRK05658	619	PRK05658, PRK05658, RNA polymerase sigma factor Rp	1e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-04
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	2e-04
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	2e-04
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	2e-04
PRK05658	619	PRK05658, PRK05658, RNA polymerase sigma factor Rp	2e-04
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	2e-04
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	2e-04
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	2e-04
pfam02724	583	pfam02724, CDC45, CDC45-like protein	3e-04
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	3e-04
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	3e-04
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	3e-04
pfam04615	728	pfam04615, Utp14, Utp14 protein	3e-04
pfam04147	809	pfam04147, Nop14, Nop14-like family	4e-04
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	4e-04
PRK05658	619	PRK05658, PRK05658, RNA polymerase sigma factor Rp	4e-04
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	4e-04
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	4e-04
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	4e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	4e-04
PRK14140	191	PRK14140, PRK14140, heat shock protein GrpE; Provi	4e-04
pfam05340	565	pfam05340, DUF740, Protein of unknown function (DU	4e-04
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	4e-04
pfam04147	809	pfam04147, Nop14, Nop14-like family	5e-04
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	5e-04
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	5e-04
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	5e-04
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	5e-04
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	5e-04
pfam04546	211	pfam04546, Sigma70_ner, Sigma-70, non-essential re	5e-04
pfam04147	809	pfam04147, Nop14, Nop14-like family	6e-04
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	6e-04
pfam05793	528	pfam05793, TFIIF_alpha, Transcription initiation f	6e-04
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	6e-04
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	6e-04
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	7e-04
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	7e-04
pfam04546	211	pfam04546, Sigma70_ner, Sigma-70, non-essential re	7e-04
cd11486	635	cd11486, SLC5sbd_SGLT1, Na(+)/glucose cotransporte	7e-04
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	7e-04
pfam04147	809	pfam04147, Nop14, Nop14-like family	8e-04
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	8e-04
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	8e-04
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	8e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	8e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	8e-04
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	8e-04
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	8e-04
pfam04147	809	pfam04147, Nop14, Nop14-like family	0.001
pfam04147	809	pfam04147, Nop14, Nop14-like family	0.001
pfam04147	809	pfam04147, Nop14, Nop14-like family	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam02724	583	pfam02724, CDC45, CDC45-like protein	0.001
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.001
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.001
pfam04546	211	pfam04546, Sigma70_ner, Sigma-70, non-essential re	0.001
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	0.001
PRK14715	1627	PRK14715, PRK14715, DNA polymerase II large subuni	0.001
pfam05285	317	pfam05285, SDA1, SDA1	0.001
pfam05758	832	pfam05758, Ycf1, Ycf1	0.001
pfam04147	809	pfam04147, Nop14, Nop14-like family	0.002
pfam04147	809	pfam04147, Nop14, Nop14-like family	0.002
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	0.002
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	0.002
pfam03985	431	pfam03985, Paf1, Paf1	0.002
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	0.002
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	0.002
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	0.002
pfam04546	211	pfam04546, Sigma70_ner, Sigma-70, non-essential re	0.002
pfam04546	211	pfam04546, Sigma70_ner, Sigma-70, non-essential re	0.002
pfam05793	528	pfam05793, TFIIF_alpha, Transcription initiation f	0.002
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	0.002
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	0.002
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	0.002
pfam05285	317	pfam05285, SDA1, SDA1	0.002
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	0.002
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	0.002
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	0.002
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	0.002
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	0.002
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	0.002
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam05327	554	pfam05327, RRN3, RNA polymerase I specific transcr	0.002
pfam09184	285	pfam09184, PPP4R2, PPP4R2	0.002
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	0.003
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	0.003
pfam03344	715	pfam03344, Daxx, Daxx Family	0.003
pfam02724	583	pfam02724, CDC45, CDC45-like protein	0.003
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	0.003
PRK05658	619	PRK05658, PRK05658, RNA polymerase sigma factor Rp	0.003
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	0.003
PRK14140	191	PRK14140, PRK14140, heat shock protein GrpE; Provi	0.003
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.003
pfam04546	211	pfam04546, Sigma70_ner, Sigma-70, non-essential re	0.003
pfam05285	317	pfam05285, SDA1, SDA1	0.003
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	0.003
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	0.003
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	0.003
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	0.003
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	0.003
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	0.003
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	0.003
TIGR00570	309	TIGR00570, cdk7, CDK-activating kinase assembly fa	0.003
pfam08229	196	pfam08229, SHR3_chaperone, ER membrane protein SH3	0.003
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.003
pfam03344	715	pfam03344, Daxx, Daxx Family	0.004
pfam02724	583	pfam02724, CDC45, CDC45-like protein	0.004
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	0.004
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	0.004
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	0.004
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	0.004
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	0.004
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	0.004
pfam09184	285	pfam09184, PPP4R2, PPP4R2	0.004
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	0.004
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.004
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.004
pfam11748	115	pfam11748, DUF3306, Protein of unknown function (D	0.004
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	0.004
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	0.004

>gnl|CDD|215160 PLN02286, PLN02286, arginine-tRNA ligase

 Score =  126 bits (318), Expect = 8e-34
 Identities = 64/151 (42%), Positives = 89/151 (58%), Gaps = 18/151 (11%)

Query: 15  LSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKG-EKKNPF 73
           L+ +F  ++++  P+       VA+       KFGD+QCN+AM L    K KG   KNP 
Sbjct: 3   LAKLFEASLRLTVPDEPSVEPLVAACTNP---KFGDYQCNNAMGLWSKLKGKGTSFKNPR 59

Query: 74  DIAQSI-ASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQP- 131
            +AQ+I  ++  SE+         I+   VA PGFVNV LS  +  ++I+ ++V+G+   
Sbjct: 60  AVAQAIVKNLPASEM---------IESTSVAGPGFVNVRLSASWLAKRIERMLVDGIDTW 110

Query: 132 -PTLNKKLRVLVDFSSPNIAKEMHVGHLSRS 161
            PTL  K R +VDFSSPNIAKEMHVGHL RS
Sbjct: 111 APTLPVK-RAVVDFSSPNIAKEMHVGHL-RS 139

Length = 576

>gnl|CDD|234964 PRK01611, argS, arginyl-tRNA synthetase; Reviewed

 Score =  112 bits (283), Expect = 5e-29
 Identities = 42/155 (27%), Positives = 68/155 (43%), Gaps = 26/155 (16%)

Query: 9   MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGE 68
           M +++ L++    A++                + +     GD+  N AM L K  K    
Sbjct: 3   MDIKELLAEALAAALEAGGLPELPAVLIERPKDPE----HGDYATNVAMQLAKKLK---- 54

Query: 69  KKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNG 128
            KNP +IA+ I               + I+K+E+A PGF+N FL      E +  I+  G
Sbjct: 55  -KNPREIAEEIV--------------EAIEKVEIAGPGFINFFLDPAALAELVLAILEAG 99

Query: 129 VQ--PPTLNKKLRVLVDFSSPNIAKEMHVGHLSRS 161
            +     + K  +V+V++ S N    +HVGHL RS
Sbjct: 100 ERYGRSDIGKGKKVVVEYVSANPTGPLHVGHL-RS 133

Length = 507

>gnl|CDD|223097 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

 Score =  105 bits (263), Expect = 3e-26
 Identities = 61/240 (25%), Positives = 97/240 (40%), Gaps = 59/240 (24%)

Query: 9   MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGE 68
           M+++  L +    A+  A  ++ +    V    +    + GDF  N A  L K       
Sbjct: 1   MNIKQLLKEKIAEALSAAGLDVEEIEILVEPPKDP---EHGDFATNIAFQLAKK-----L 52

Query: 69  KKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNG 128
            KNP +IA+ IA     +L T+     +I+K+E+A PGF+N FLS  +  E + +I+  G
Sbjct: 53  GKNPREIAEEIAE----KLDTDE----IIEKVEIAGPGFINFFLSPEFLAELLLEILEKG 104

Query: 129 VQ---PPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG-------------------- 165
                   L K  +V++++SS N    +H+GHL R+   G                    
Sbjct: 105 DDRYGRSKLGKGKKVVIEYSSANPTGPLHIGHL-RNAIIGDSLARILEFLGYDVTRENYV 163

Query: 166 --WGK--------LEEEEEEEEEEEEEEEEEEEE---------EEEEEEEEEEKEEEEKK 206
             WG          E+   E      E +    E         EE+   +EEE  EE +K
Sbjct: 164 NDWGTQIGMLALSYEKRGREALGLTPEPDGYLGEYYVKIAKDLEEDPGNDEEEAREEVEK 223

Length = 577

>gnl|CDD|232981 TIGR00456, argS, arginyl-tRNA synthetase

 Score = 73.5 bits (181), Expect = 3e-15
 Identities = 37/117 (31%), Positives = 58/117 (49%), Gaps = 22/117 (18%)

Query: 47  KFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPG 106
           +FGD+  N A  L K+ K     KNP  IA+        E+       ++I+K+E A P 
Sbjct: 33  EFGDYASNIAFPLAKVLK-----KNPRAIAE--------EIVLKLKTGEIIEKVEAAGP- 78

Query: 107 FVNVFLSRVYAGEQIKDIIVN-----GVQPPTLNKKLRVLVDFSSPNIAKEMHVGHL 158
           F+N FLS     E++   I+      G +     K  +++++FSS N A  +H+GHL
Sbjct: 79  FINFFLSPQKLLERLIQKILTQKEDYGSKKL---KNKKIIIEFSSANPAGPLHIGHL 132

This model recognizes arginyl-tRNA synthetase in every completed genome to date. An interesting feature of the alignment of all arginyl-tRNA synthetases is a fairly deep split between two families. One family includes archaeal, eukaryotic and organellar, spirochete, E. coli, and Synechocystis sp. The second, sharing a deletion of about 25 residues in the central region relative to the first, includes Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and Mycobacteria, and the Gram-negative bacterium Helicobacter pylori [Protein synthesis, tRNA aminoacylation]. Length = 566

>gnl|CDD|217589 pfam03485, Arg_tRNA_synt_N, Arginyl tRNA synthetase N terminal domain

 Score = 67.3 bits (165), Expect = 5e-15
 Identities = 33/100 (33%), Positives = 47/100 (47%), Gaps = 16/100 (16%)

Query: 13  DYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNP 72
           D L      A+  A  +L      + +  +    +FGD+  N AM L K  K     KNP
Sbjct: 1   DLLKKAIAEALAKAGLDLEVIDPVIETPKDP---EFGDYATNVAMKLAKKLK-----KNP 52

Query: 73  FDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFL 112
            +IA+ IA     +L  +      I+K+EVA PGF+N FL
Sbjct: 53  REIAEEIAE----KLPKSDL----IEKVEVAGPGFINFFL 84

This domain is found at the amino terminus of Arginyl tRNA synthetase, also called additional domain 1 (Add-1). It is about 140 residues long and it has been suggested that this domain will be involved in tRNA recognition. Length = 84

>gnl|CDD|214975 smart01016, Arg_tRNA_synt_N, Arginyl tRNA synthetase N terminal dom

 Score = 62.2 bits (152), Expect = 3e-13
 Identities = 27/101 (26%), Positives = 46/101 (45%), Gaps = 17/101 (16%)

Query: 13  DYLSDVFTHAVQVAFPELGDKT-ASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKN 71
           D L +    A++ A    G+    ++    +      GD+  N A  L K  K     KN
Sbjct: 1   DLLKEAIAEALKKALGVEGEPIDIALERPKDP---DHGDYATNVAFRLAKKLK-----KN 52

Query: 72  PFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFL 112
           P ++A+ IA  +          + +++K+E+A PGF+N FL
Sbjct: 53  PRELAEEIAEKL--------PKSDLVEKVEIAGPGFINFFL 85

This domain is found at the amino terminus of Arginyl tRNA synthetase, also called additional domain 1 (Add-1). It is about 140 residues long and it has been suggested that this domain will be involved in tRNA recognition. Length = 85

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 63.5 bits (154), Expect = 7e-12
 Identities = 32/44 (72%), Positives = 34/44 (77%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           EEEEEEEEEEEEEEEEEEEEEEEEEE EE    E  + R+K  I
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSLEWPETRQKQAI 907

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 60.8 bits (147), Expect = 6e-11
 Identities = 29/32 (90%), Positives = 29/32 (90%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 198
           G  EEEEEEEEEEEEEEEEEEEEEEEEEE EE
Sbjct: 861 GDSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 59.2 bits (143), Expect = 2e-10
 Identities = 27/31 (87%), Positives = 29/31 (93%)

Query: 174 EEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           + EEEEEEEEEEEEEEEEEEEEEEEE+E EE
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 58.5 bits (141), Expect = 4e-10
 Identities = 29/40 (72%), Positives = 32/40 (80%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKR 209
           EEEEEEEEEEEEEEEEEEEEEEEE EE    E  E ++K+
Sbjct: 866 EEEEEEEEEEEEEEEEEEEEEEEENEEPLSLEWPETRQKQ 905

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 55.8 bits (134), Expect = 3e-09
 Identities = 25/38 (65%), Positives = 30/38 (78%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKK 207
               +  + EEEEEEEEEEEEEEEEEEEEE+EEEE ++
Sbjct: 855 GGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|216097 pfam00750, tRNA-synt_1d, tRNA synthetases class I (R)

 Score = 55.2 bits (133), Expect = 4e-09
 Identities = 17/39 (43%), Positives = 24/39 (61%)

Query: 120 QIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHL 158
            +  I+  G     L +  +V+V+FSSPN AK +HVGHL
Sbjct: 1   IVTKILAQGGLGSALLENKKVVVEFSSPNPAKPIHVGHL 39

Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only arginyl tRNA synthetase. Length = 345

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 53.5 bits (128), Expect = 2e-08
 Identities = 24/38 (63%), Positives = 30/38 (78%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
               +  + EEEEEEEEEEEEEEEEEEEE+EEEE+ ++
Sbjct: 855 GGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 52.3 bits (125), Expect = 4e-08
 Identities = 23/40 (57%), Positives = 31/40 (77%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
           ++     +  + EEEEEEEEEEEEEEEEEEE+EEEE++ +
Sbjct: 852 VDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENE 891

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 51.3 bits (123), Expect = 9e-08
 Identities = 26/42 (61%), Positives = 37/42 (88%)

Query: 172 EEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           +EEEEEE+EE++EEEE+  ++EEE +EE+E+EEKKKK +K K
Sbjct: 37  DEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVK 78

Length = 529

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 50.5 bits (121), Expect = 2e-07
 Identities = 26/44 (59%), Positives = 37/44 (84%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           +EEEEEE+EE++EEEE+  ++EEE +EEEEKEE++KK K+ K  
Sbjct: 37  DEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKET 80

Length = 529

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 50.4 bits (121), Expect = 2e-07
 Identities = 24/34 (70%), Positives = 24/34 (70%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEE 203
               E EEEEEEEEE  EEEEEEEEEEE   EEE
Sbjct: 300 PSPPEPEEEEEEEEEVPEEEEEEEEEEERTFEEE 333

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 49.6 bits (119), Expect = 3e-07
 Identities = 24/34 (70%), Positives = 24/34 (70%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
               E EEEEEEEEE  EEEEEEEEEEE   EEE
Sbjct: 300 PSPPEPEEEEEEEEEVPEEEEEEEEEEERTFEEE 333

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|183534 PRK12451, PRK12451, arginyl-tRNA synthetase; Reviewed

 Score = 49.0 bits (117), Expect = 6e-07
 Identities = 30/96 (31%), Positives = 45/96 (46%), Gaps = 13/96 (13%)

Query: 66  KGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSR-VYAGEQIKDI 124
           K  KK P  IA+ +A  ++    T         K+E   P +VNVF +R   +   +K I
Sbjct: 48  KQYKKAPAIIAKEVAEKLSDPFFT---------KVEAVGP-YVNVFFNRETVSDAVLKTI 97

Query: 125 IV--NGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHL 158
           +             +  V++D+SSPNIAK   +GHL
Sbjct: 98  LAEKEEYGQNHFGCEKTVVIDYSSPNIAKPFSMGHL 133

Length = 562

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 46.9 bits (112), Expect = 6e-07
 Identities = 19/38 (50%), Positives = 31/38 (81%)

Query: 174 EEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
            EE+E +++EE+EEEE++EE+++E+E EEEE   K+ K
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEESPVKKVK 146

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 48.6 bits (116), Expect = 7e-07
 Identities = 23/45 (51%), Positives = 37/45 (82%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           EEEEEE+EE++EEEE+  ++EEE +EEEE++E+++K KK ++   
Sbjct: 38  EEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETTT 82

Length = 529

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 48.1 bits (114), Expect = 1e-06
 Identities = 22/50 (44%), Positives = 34/50 (68%)

Query: 164 HGWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
            G  K +E+  +     +  + EEEEEEEEEEEEEE+EEEE++++  +N+
Sbjct: 842 QGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENE 891

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 47.8 bits (114), Expect = 1e-06
 Identities = 24/42 (57%), Positives = 36/42 (85%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
           E  +EEEEEE+EE++EEEE+  ++EEE +E+EE+E+KKK+ K
Sbjct: 34  EVPDEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTK 75

Length = 529

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 24/40 (60%), Positives = 36/40 (90%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
           LEEEEE+ +  +EEE+EE+E+ ++E++EEEE+EE+EKKKK
Sbjct: 342 LEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKK 381

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 46.5 bits (111), Expect = 1e-06
 Identities = 22/46 (47%), Positives = 36/46 (78%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           L+++E+EEEEEEE E EE +EEE+ +E  E++  + K++KRR+N+ 
Sbjct: 96  LDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENER 141

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 46.1 bits (110), Expect = 1e-06
 Identities = 21/58 (36%), Positives = 36/58 (62%)

Query: 157 HLSRSLCHGWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
            + + L     + EEEEEEE E EE +EEE+ +E  E+E  + K E+ ++ +R++ +I
Sbjct: 89  KVRKLLGLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKEI 146

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|185675 cd00671, ArgRS_core, catalytic core domain of arginyl-tRNA synthetases

 Score = 47.2 bits (113), Expect = 1e-06
 Identities = 10/20 (50%), Positives = 14/20 (70%)

Query: 139 RVLVDFSSPNIAKEMHVGHL 158
           ++LV+F S N    +HVGHL
Sbjct: 1   KILVEFVSANPTGPLHVGHL 20

Arginyl tRNA synthetase (ArgRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. There are at least three subgroups of ArgRS. One type contains both characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The second subtype lacks the KMSKS motif; however, it has a lysine N-terminal to the HIGH motif, which serves as the functional counterpart to the second lysine of the KMSKS motif. A third group, which is found primarily in archaea and a few bacteria, lacks both the KMSKS motif and the HIGH loop lysine. Length = 212

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.0 bits (107), Expect = 3e-06
 Identities = 18/38 (47%), Positives = 31/38 (81%)

Query: 173 EEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRR 210
            EE+E +++EE+EEEE++EE+++E+E +EEE   KK +
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEESPVKKVK 146

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 46.5 bits (111), Expect = 3e-06
 Identities = 28/43 (65%), Positives = 37/43 (86%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKR 209
                +++EEEEEEE+E++EEE+EEEEEE EEEKEEEE+KKK+
Sbjct: 433 KAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKKKK 475

Length = 482

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 46.2 bits (110), Expect = 5e-06
 Identities = 23/30 (76%), Positives = 23/30 (76%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 198
             EEEEEEEEE  EEEEEEEEEEE   EEE
Sbjct: 304 EPEEEEEEEEEVPEEEEEEEEEEERTFEEE 333

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 46.1 bits (110), Expect = 5e-06
 Identities = 22/44 (50%), Positives = 38/44 (86%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           + EEEEE+ +  +EEE+EE+E+ ++E++EE+EEEEK+KK++K+ 
Sbjct: 341 DLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSA 384

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 46.1 bits (110), Expect = 5e-06
 Identities = 22/42 (52%), Positives = 36/42 (85%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
           EEEE+ +  +EEE+EE+E+ ++E++EEEEE+E+E+KKKK  +
Sbjct: 344 EEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAE 385

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 46.1 bits (110), Expect = 6e-06
 Identities = 21/44 (47%), Positives = 37/44 (84%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
            EEEEE+ +  +EEE+EE+E+ ++E++EEE+EEE++KKK++  +
Sbjct: 342 LEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAE 385

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 44.4 bits (105), Expect = 6e-06
 Identities = 19/44 (43%), Positives = 28/44 (63%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           ++EEEE EEE  +E E+E+  E + E +E+K+ E  K K  K K
Sbjct: 95  DDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEK 138

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 43.9 bits (104), Expect = 7e-06
 Identities = 19/38 (50%), Positives = 31/38 (81%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
            EE+E +++EE+EEEE++EE+++E+E EE+E   KK K
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEESPVKKVK 146

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 45.8 bits (109), Expect = 7e-06
 Identities = 20/42 (47%), Positives = 34/42 (80%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
           EEE+ +  +EEE+EE+E+ ++E++EEEEEE++E++KKK    
Sbjct: 345 EEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAES 386

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 45.4 bits (108), Expect = 8e-06
 Identities = 21/37 (56%), Positives = 27/37 (72%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEE 203
           G+      E+++EEEE+E+EEEEEEEEE EE E EE 
Sbjct: 337 GRCTWVNPEQKDEEEEQEDEEEEEEEEEPEEPEPEEG 373

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 45.7 bits (108), Expect = 8e-06
 Identities = 28/35 (80%), Positives = 31/35 (88%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EEE  EEEEEEEEEEEEEE+E EEEE E+E+EEEE
Sbjct: 441 EEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEE 475

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 45.5 bits (108), Expect = 8e-06
 Identities = 21/47 (44%), Positives = 29/47 (61%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
              EEEE+EEEEEEE+E+E   +E  ++EE EE + E K +    N 
Sbjct: 388 RDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDVESKYEDSDGNS 434

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 20/32 (62%), Positives = 25/32 (78%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 201
            E+++EEEE+E+EEEEEEEEE EE E EE   
Sbjct: 344 PEQKDEEEEQEDEEEEEEEEEPEEPEPEEGPP 375

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 43.5 bits (103), Expect = 1e-05
 Identities = 18/38 (47%), Positives = 31/38 (81%)

Query: 172 EEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKR 209
            EE+E +++EE+EEEE++EE+++E+E E+EE   KK +
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEESPVKKVK 146

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 43.5 bits (103), Expect = 1e-05
 Identities = 18/38 (47%), Positives = 31/38 (81%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKK 206
            EE+E +++EE+EEEE++EE+++E+E EEEE   ++ K
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEESPVKKVK 146

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 44.6 bits (106), Expect = 1e-05
 Identities = 19/44 (43%), Positives = 38/44 (86%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           +++ EEEEE+ +  +EEE+EE+E+ ++E+++EEEE++K+++K K
Sbjct: 339 DDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKK 382

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 45.1 bits (107), Expect = 1e-05
 Identities = 21/33 (63%), Positives = 26/33 (78%)

Query: 166 WGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 198
           W   E+++EEEE+E+EEEEEEEEE EE E EE 
Sbjct: 341 WVNPEQKDEEEEQEDEEEEEEEEEPEEPEPEEG 373

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 45.3 bits (107), Expect = 1e-05
 Identities = 27/35 (77%), Positives = 30/35 (85%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           E  EEEEEEEEEEEEEE+E EEEE E+EEE+EE E
Sbjct: 443 ESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVE 477

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 45.3 bits (107), Expect = 1e-05
 Identities = 28/45 (62%), Positives = 34/45 (75%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           E EEEE  EEEEEEEEEEEEEE+E EEEE ++EEE+++    N  
Sbjct: 438 ESEEEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADNGS 482

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 44.9 bits (106), Expect = 1e-05
 Identities = 27/38 (71%), Positives = 31/38 (81%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
            + EE  EEEEEEEEEEEEEE+E EEEE E+EE+EEE 
Sbjct: 439 SEEEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEV 476

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 45.1 bits (107), Expect = 1e-05
 Identities = 16/45 (35%), Positives = 25/45 (55%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
            +E+E+EEEE+  +E EEEE E+ EEE  +  E+   +       
Sbjct: 370 VDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGS 414

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 42.3 bits (100), Expect = 2e-05
 Identities = 18/42 (42%), Positives = 31/42 (73%)

Query: 164 HGWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
           H     E+E +++EE+EEEE++EE+++E+E EEEE   ++ K
Sbjct: 105 HLVASEEDESDDDEEDEEEEDDEEDDDEDESEEEESPVKKVK 146

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 44.6 bits (106), Expect = 2e-05
 Identities = 20/44 (45%), Positives = 37/44 (84%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           ++ EEEEE+ +  +EEE+EE+E+ ++E++E+EEEE+K+K++K  
Sbjct: 340 DDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKS 383

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 44.2 bits (105), Expect = 2e-05
 Identities = 20/44 (45%), Positives = 33/44 (75%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           EE+ +  +EEE+EE+E+ ++E++EEEEEEEKE+++KK       
Sbjct: 346 EEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTRS 389

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 44.5 bits (106), Expect = 2e-05
 Identities = 22/46 (47%), Positives = 37/46 (80%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           + +++    +++EEEEEEE+E++EEE+EEEEE+ EEEK+++  K K
Sbjct: 429 EKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKKK 474

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 44.5 bits (106), Expect = 2e-05
 Identities = 24/48 (50%), Positives = 38/48 (79%)

Query: 166 WGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
             K     +++EEEEEEE+E++EEE+EEEEEE E+E+EE+++K++K  
Sbjct: 430 KKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKKKKQA 477

Length = 482

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 44.3 bits (105), Expect = 2e-05
 Identities = 19/33 (57%), Positives = 25/33 (75%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEE 203
             E+++EEEE+E+EEEEEEEEE EE E E+   
Sbjct: 343 NPEQKDEEEEQEDEEEEEEEEEPEEPEPEEGPP 375

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 44.5 bits (105), Expect = 2e-05
 Identities = 27/37 (72%), Positives = 30/37 (81%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
             +E EEEE  EEEEEEEEEEEEEE+E EEEE E+EE
Sbjct: 435 ASQESEEEESVEEEEEEEEEEEEEEQESEEEEGEDEE 471

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 44.2 bits (105), Expect = 2e-05
 Identities = 12/46 (26%), Positives = 34/46 (73%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
            LEE+++++EE +EE+EE  + E++E++++++ +++   ++R   +
Sbjct: 122 DLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDDDDIATRERSLER 167

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 43.9 bits (104), Expect = 2e-05
 Identities = 21/37 (56%), Positives = 31/37 (83%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
           LE+ EEEEEE++  E E+E+EE+E+EEEEE+ +E +K
Sbjct: 283 LEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 43.8 bits (104), Expect = 3e-05
 Identities = 19/44 (43%), Positives = 36/44 (81%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           ++++ EEEEE+ +  +EEE+EE+E+ ++E+ EEEE+++K +K K
Sbjct: 338 DDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKK 381

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 43.8 bits (104), Expect = 3e-05
 Identities = 21/47 (44%), Positives = 37/47 (78%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
            K ++++    +++EEEEEEE+E++EEE+EEEE+E EE+K++  + K
Sbjct: 427 KKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKK 473

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 43.4 bits (103), Expect = 3e-05
 Identities = 19/48 (39%), Positives = 37/48 (77%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
            K E++ EEE++E++++    +++EEEEEEE+EK+EEEK+++  + + 
Sbjct: 417 EKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEE 464

Length = 482

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 43.7 bits (103), Expect = 3e-05
 Identities = 27/43 (62%), Positives = 31/43 (72%)

Query: 163 CHGWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
                 +EEEEEEEEEEEEEE+E EEEE E+EEEEEE E +  
Sbjct: 439 SEEEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADNG 481

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 43.7 bits (103), Expect = 3e-05
 Identities = 25/35 (71%), Positives = 28/35 (80%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EEEEEEEEEE+E EEEE E+EEEEEE E +   EE
Sbjct: 450 EEEEEEEEEEQESEEEEGEDEEEEEEVEADNGSEE 484

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 43.2 bits (102), Expect = 3e-05
 Identities = 17/36 (47%), Positives = 32/36 (88%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEE 203
           +LE E+ +EE+E++EEEEEEEEEE+E+ ++++ +++
Sbjct: 162 ELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDD 197

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 43.2 bits (102), Expect = 3e-05
 Identities = 19/37 (51%), Positives = 32/37 (86%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           KL+E E E+ +EE+E++EEEEEEEEEE+E+ + ++++
Sbjct: 159 KLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDD 195

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component

 Score = 43.5 bits (103), Expect = 3e-05
 Identities = 19/48 (39%), Positives = 33/48 (68%), Gaps = 1/48 (2%)

Query: 168 KLEEEEEEEEEEEEEEEE-EEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           +LE  EEEEEE EE EEE EE+  + +  +   +E +E+++ RR++++
Sbjct: 146 ELELPEEEEEEPEEMEEELEEDAADRDARKRAAEEAKEQEELRRRSQV 193

This family is a region of the Myb-Related Cdc5p/Cef1 proteins, in fungi, and is part of the pre-mRNA splicing factor complex. Length = 363

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 41.9 bits (99), Expect = 4e-05
 Identities = 18/46 (39%), Positives = 29/46 (63%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           + EEEE E EE +EEE+ +E  E+E  + + EK  E ++K++   K
Sbjct: 103 EEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKEILK 148

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 43.4 bits (103), Expect = 4e-05
 Identities = 18/46 (39%), Positives = 37/46 (80%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           K  EEE++E++++    +++EEEEEEE+E++E+E+EE++++  + K
Sbjct: 421 KKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEK 466

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 43.4 bits (103), Expect = 4e-05
 Identities = 17/46 (36%), Positives = 38/46 (82%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           + E++E++++    +++EEEEEEE+E++EEE++EEEE+ ++ ++ +
Sbjct: 424 EEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEE 469

Length = 482

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 43.1 bits (102), Expect = 4e-05
 Identities = 19/31 (61%), Positives = 25/31 (80%)

Query: 174 EEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
             E+++EEEE+E+EEEEEEEEE EE + EE 
Sbjct: 343 NPEQKDEEEEQEDEEEEEEEEEPEEPEPEEG 373

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 43.4 bits (102), Expect = 4e-05
 Identities = 25/35 (71%), Positives = 28/35 (80%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EEEEEEEEE+E EEEE E+EEEEEE E +   EEE
Sbjct: 451 EEEEEEEEEQESEEEEGEDEEEEEEVEADNGSEEE 485

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 43.2 bits (102), Expect = 4e-05
 Identities = 19/56 (33%), Positives = 31/56 (55%)

Query: 153 MHVGHLSRSLCHGWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
           +  G+            E+EE E++  +E+EE+E   EE+E E  EE+E+EE + K
Sbjct: 19  LTFGNGKGPFASAQDLTEDEEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGEVK 74

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 41.5 bits (98), Expect = 5e-05
 Identities = 17/47 (36%), Positives = 29/47 (61%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
            + EE E EE +EEE+ +E  E+E  + + E+ +E E K+K+  K +
Sbjct: 104 EEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKEILKEQ 150

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|235549 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated

 Score = 42.9 bits (102), Expect = 5e-05
 Identities = 13/45 (28%), Positives = 22/45 (48%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
              EE+      E EE +++E+EEEEE+E  +     +     K+
Sbjct: 176 PNAEEDPAHVGSELEELDDDEDEEEEEDENDDSLAADESELPEKV 220

Length = 619

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 42.6 bits (101), Expect = 6e-05
 Identities = 16/41 (39%), Positives = 33/41 (80%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
             + E++ EEE++E++++    +++EEEEEEEKE++E++K+
Sbjct: 416 VEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKE 456

Length = 482

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 42.7 bits (101), Expect = 6e-05
 Identities = 19/30 (63%), Positives = 23/30 (76%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEE 197
           + +EEEE+E+EEEEEEEEE EE E EE   
Sbjct: 346 QKDEEEEQEDEEEEEEEEEPEEPEPEEGPP 375

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 43.0 bits (101), Expect = 6e-05
 Identities = 25/35 (71%), Positives = 27/35 (77%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EEEEEEEEEEE+E EEEE E+EEEEEE E     E
Sbjct: 449 EEEEEEEEEEEQESEEEEGEDEEEEEEVEADNGSE 483

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 43.0 bits (101), Expect = 6e-05
 Identities = 24/36 (66%), Positives = 28/36 (77%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
           EEEEEEEE+E EEEE E+EEEEEE E +   EEE +
Sbjct: 452 EEEEEEEEQESEEEEGEDEEEEEEVEADNGSEEEME 487

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 42.7 bits (101), Expect = 7e-05
 Identities = 19/33 (57%), Positives = 25/33 (75%)

Query: 172 EEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
             E+++EEEE+E+EEEEEEEEE EE E +E   
Sbjct: 343 NPEQKDEEEEQEDEEEEEEEEEPEEPEPEEGPP 375

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 42.0 bits (99), Expect = 7e-05
 Identities = 17/37 (45%), Positives = 30/37 (81%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
             E E E+ +EE+E++EEEEEEEEEE+E+ ++ ++++
Sbjct: 160 LKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDD 196

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 42.0 bits (99), Expect = 7e-05
 Identities = 17/37 (45%), Positives = 31/37 (83%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           K  E E+ +EE+E++EEEEEEEEEE+E+ +++ ++++
Sbjct: 161 KELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDD 197

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 43.1 bits (101), Expect = 7e-05
 Identities = 16/37 (43%), Positives = 33/37 (89%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
           +++++E+E+E++++EE++EEEEEEEEE +   +E+E+
Sbjct: 153 IDDDDEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEE 189

Length = 2849

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 42.2 bits (100), Expect = 8e-05
 Identities = 21/47 (44%), Positives = 37/47 (78%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
            K E++++    +++EEEEEEE+E++EEE+EEE+EE E++K+  + K
Sbjct: 426 EKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEK 472

Length = 482

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 42.3 bits (100), Expect = 1e-04
 Identities = 16/45 (35%), Positives = 37/45 (82%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           E+ +  +EEE+EE+E+ ++E++EEEEEEE++++++K  +  ++++
Sbjct: 347 EDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTRSEL 391

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 41.8 bits (99), Expect = 1e-04
 Identities = 15/44 (34%), Positives = 35/44 (79%)

Query: 166 WGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKR 209
             K+ E+ E++ EEE++E++++    +++EEEEE+E+E+K++++
Sbjct: 412 IKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEK 455

Length = 482

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 42.3 bits (100), Expect = 1e-04
 Identities = 11/42 (26%), Positives = 32/42 (76%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
           EE +EE+EE  + E++E++++++++++   +E   ++++RR+
Sbjct: 131 EESDEEDEESSKSEDDEDDDDDDDDDDIATRERSLERRRRRR 172

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 41.6 bits (98), Expect = 1e-04
 Identities = 19/35 (54%), Positives = 30/35 (85%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEE 202
           K EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 285 KAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 41.7 bits (98), Expect = 1e-04
 Identities = 19/38 (50%), Positives = 30/38 (78%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
            KL   E++ +E E E+ +EE+E++EEEEEEEE+E+E+
Sbjct: 151 EKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDED 188

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 41.3 bits (97), Expect = 1e-04
 Identities = 18/37 (48%), Positives = 31/37 (83%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
            LE++ +E E E+ +EE+E++EEEEEEEEEE+++ ++
Sbjct: 155 MLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDD 191

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|235549 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated

 Score = 42.1 bits (100), Expect = 1e-04
 Identities = 12/44 (27%), Positives = 20/44 (45%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
               +   EE+      E EE +++E+EEEEE E ++       
Sbjct: 171 DGFVDPNAEEDPAHVGSELEELDDDEDEEEEEDENDDSLAADES 214

Length = 619

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 41.4 bits (98), Expect = 2e-04
 Identities = 15/44 (34%), Positives = 32/44 (72%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
             E+ E++ EEE++E++++    +++EEE+EEE++KK+  K + 
Sbjct: 415 IVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEE 458

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 41.4 bits (98), Expect = 2e-04
 Identities = 17/46 (36%), Positives = 38/46 (82%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           + ++E++++    +++EEEEEEE+E++EEE+E+EEEE ++++ + +
Sbjct: 425 EEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEE 470

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 41.4 bits (98), Expect = 2e-04
 Identities = 16/46 (34%), Positives = 35/46 (76%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           K+++  E+ E++ EEE++E++++    +++EE+EEEEK+KK  + +
Sbjct: 411 KIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKE 456

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 41.1 bits (97), Expect = 2e-04
 Identities = 16/46 (34%), Positives = 35/46 (76%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           K   E+ E++ EEE++E++++    +++EEEE+EE+EKK++ ++ +
Sbjct: 413 KKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEE 458

Length = 482

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 39.7 bits (93), Expect = 2e-04
 Identities = 17/47 (36%), Positives = 29/47 (61%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
              EEEE EEE  +E E+E+  E + E +E++++E  + K ++ K K
Sbjct: 94  SDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPK 140

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.2 bits (97), Expect = 2e-04
 Identities = 18/30 (60%), Positives = 25/30 (83%)

Query: 176 EEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
             E+++EEEE+E+EEEEEEEEE E+ E E+
Sbjct: 343 NPEQKDEEEEQEDEEEEEEEEEPEEPEPEE 372

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 41.3 bits (97), Expect = 2e-04
 Identities = 19/44 (43%), Positives = 28/44 (63%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
             E ++EEEE+EEEEEEE+E+E   +E  + EE E+     K +
Sbjct: 385 NTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDVESKYE 428

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|235549 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated

 Score = 41.3 bits (98), Expect = 2e-04
 Identities = 11/43 (25%), Positives = 19/43 (44%)

Query: 172 EEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
             +   EE+      E EE +++E+EEE+E+E           
Sbjct: 173 FVDPNAEEDPAHVGSELEELDDDEDEEEEEDENDDSLAADESE 215

Length = 619

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 42.0 bits (98), Expect = 2e-04
 Identities = 21/49 (42%), Positives = 36/49 (73%), Gaps = 5/49 (10%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEE-----EEEEEEEKEEEEKKKKRRKNK 213
           +E+E+E++++EE++EEEEEEEEE     +E+EE+E  E+   +K   +K
Sbjct: 157 DEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEEDEGGEDFTYEKSEVDK 205

Length = 2849

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 42.0 bits (98), Expect = 2e-04
 Identities = 15/36 (41%), Positives = 33/36 (91%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKK 206
           ++++E+E+E++++EE++EEEEEEEEE +  ++E+++
Sbjct: 154 DDDDEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEE 189

Length = 2849

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 41.0 bits (97), Expect = 2e-04
 Identities = 20/35 (57%), Positives = 23/35 (65%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 286 EELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 40.7 bits (96), Expect = 3e-04
 Identities = 11/46 (23%), Positives = 32/46 (69%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
            ++EE +EE+EE  + E++E++++++++++    E   ++RR+ + 
Sbjct: 128 DDDEESDEEDEESSKSEDDEDDDDDDDDDDIATRERSLERRRRRRE 173

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 40.4 bits (95), Expect = 3e-04
 Identities = 21/38 (55%), Positives = 30/38 (78%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKK 206
           L E+ EEEEEE++  E E+E+EE+E+EEEEE ++E  K
Sbjct: 282 LLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 40.4 bits (95), Expect = 3e-04
 Identities = 19/36 (52%), Positives = 30/36 (83%)

Query: 172 EEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKK 207
           E+ EEEEEE++  E E+E+EE+E+EEEE++++E  K
Sbjct: 284 EKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 40.6 bits (96), Expect = 3e-04
 Identities = 19/38 (50%), Positives = 24/38 (63%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
             L+EE +E    + +    EEEEEEEEEEEEE+  EE
Sbjct: 282 DALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEE 319

Length = 330

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 40.8 bits (96), Expect = 3e-04
 Identities = 19/44 (43%), Positives = 26/44 (59%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
           + E  ++EE + E EE   E E EEE +EEE +E  +K   RRK
Sbjct: 381 RAEARKKEENDAEIEELRRELEGEEESDEEENEEPSKKNVGRRK 424

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 40.4 bits (95), Expect = 4e-04
 Identities = 15/40 (37%), Positives = 29/40 (72%)

Query: 166 WGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
                EE+EEEEE+  ++E+EE+++++ EEEEE+ +  ++
Sbjct: 315 GLGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDE 354

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 40.5 bits (95), Expect = 4e-04
 Identities = 19/37 (51%), Positives = 26/37 (70%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
           LE E+   E ++EEEE+EEEEEEE+E+E   KE  + 
Sbjct: 379 LEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDD 415

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|235549 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated

 Score = 40.5 bits (96), Expect = 4e-04
 Identities = 11/44 (25%), Positives = 24/44 (54%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
             +   EE+      E EE +++E+EEEE++E +      ++++
Sbjct: 173 FVDPNAEEDPAHVGSELEELDDDEDEEEEEDENDDSLAADESEL 216

Length = 619

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 39.5 bits (92), Expect = 4e-04
 Identities = 18/35 (51%), Positives = 25/35 (71%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           + + EE EE+EEE E+ E+  +EE+EE EE EEE 
Sbjct: 25  DSQAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEET 59

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 39.5 bits (92), Expect = 4e-04
 Identities = 16/40 (40%), Positives = 23/40 (57%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
           +EE+EEE E+ E+  +EE+EE EE EEE     +      
Sbjct: 31  VEEDEEEMEDWEDSLDEEDEEAEEVEEETAASSKAPSSSS 70

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 39.5 bits (92), Expect = 4e-04
 Identities = 20/49 (40%), Positives = 27/49 (55%)

Query: 166 WGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           W    EE EE+EEE E+ E+  +EE+EE EE EE+     K     +K 
Sbjct: 24  WDSQAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEETAASSKAPSSSSKS 72

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 39.8 bits (94), Expect = 4e-04
 Identities = 23/35 (65%), Positives = 24/35 (68%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 201
           G+     E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 224 GRQGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional

 Score = 39.6 bits (93), Expect = 4e-04
 Identities = 21/39 (53%), Positives = 26/39 (66%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKK 206
           ++EEE EE E EE  E+E EEE  EEE E E  +EE+ K
Sbjct: 7   QVEEEVEETEVEEAVEDEVEEETVEEESEAELLDEEQAK 45

Length = 191

>gnl|CDD|218561 pfam05340, DUF740, Protein of unknown function (DUF740)

 Score = 40.4 bits (94), Expect = 4e-04
 Identities = 22/41 (53%), Positives = 28/41 (68%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
            LEEEEE E EE+EE  E+E  +  +E+ EEE+EEE K  K
Sbjct: 139 VLEEEEEVEMEEDEEYYEKEPGKVVDEKSEEEEEEELKTMK 179

This family consists of several uncharacterized plant proteins of unknown function. Length = 565

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 40.2 bits (94), Expect = 4e-04
 Identities = 14/47 (29%), Positives = 36/47 (76%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           G++++E +  EE E + +EE+ ++EE E++++E+ +E+K+K+++  +
Sbjct: 386 GEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKDER 432

Length = 434

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 40.0 bits (94), Expect = 5e-04
 Identities = 16/37 (43%), Positives = 30/37 (81%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
            E+EEEEE+  ++E+EE+++++ EEEEE+ +  +EE+
Sbjct: 320 EEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEE 356

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 39.0 bits (91), Expect = 5e-04
 Identities = 25/59 (42%), Positives = 34/59 (57%), Gaps = 1/59 (1%)

Query: 156 GHLSRSLCHGWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           G L R+L   W K+  E    ++EEEE EEE  +E E+E+  E K E ++KKKR   K 
Sbjct: 75  GPLVRNLPAMW-KIFRELSSSDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKP 132

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 39.0 bits (91), Expect = 5e-04
 Identities = 16/41 (39%), Positives = 27/41 (65%)

Query: 174 EEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
            ++EEEE EEE  +E E+E+  E + + +E+KK++  K K 
Sbjct: 94  SDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKT 134

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 40.1 bits (94), Expect = 5e-04
 Identities = 17/41 (41%), Positives = 28/41 (68%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRR 210
           +   E ++EEEE+EEEEEEE+E+E   +E  ++EE ++   
Sbjct: 383 DANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDV 423

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 40.0 bits (94), Expect = 5e-04
 Identities = 19/40 (47%), Positives = 31/40 (77%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
            E  E+ EEEEEE++  E E+E+EE+E+EEE+E++++  K
Sbjct: 280 EELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 40.4 bits (94), Expect = 5e-04
 Identities = 15/36 (41%), Positives = 32/36 (88%)

Query: 172 EEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKK 207
           ++++E+E+E++++EE++EEEEEEEEE +  ++E ++
Sbjct: 154 DDDDEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEE 189

Length = 2849

>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/35 (31%), Positives = 22/35 (62%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
                   E E +EE+ E++++++E+E+E+ EEE 
Sbjct: 37  AAATAAAIESELDEEDLEDDDDDDEDEDEDDEEEA 71

The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Length = 211

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 40.0 bits (94), Expect = 6e-04
 Identities = 17/45 (37%), Positives = 33/45 (73%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           + +  +EEE+EE+E+ ++E++EEEEEEE+EK++++  +  R    
Sbjct: 348 DVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTRSELP 392

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 39.5 bits (93), Expect = 6e-04
 Identities = 16/46 (34%), Positives = 33/46 (71%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           + E +EE +E++EE+++EE E +  +   EE+++ EEK++K++  K
Sbjct: 277 EEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERKKQARK 322

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

 Score = 39.9 bits (93), Expect = 6e-04
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           E   + E E++E+ EE EEE+ EEE    +K ++ KK K +KN +
Sbjct: 307 EIPAKPEIEQDEDSEESEEEKNEEEGGLSKKGKKLKKLKGKKNGL 351

Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) or RNA polymerase II-associating protein 74 (RAP74) is the large subunit of transcription factor IIF (TFIIF), which is essential for accurate initiation and stimulates elongation by RNA polymerase II. Length = 528

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 39.3 bits (92), Expect = 6e-04
 Identities = 26/50 (52%), Positives = 34/50 (68%), Gaps = 6/50 (12%)

Query: 170 EEEEEEEEEEEE------EEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           E EEEEEEEE +      E++E E ++EEE E+E ++EE  KKKKR K K
Sbjct: 44  EIEEEEEEEEVDSDFDDSEDDEPESDDEEEGEKELQREERLKKKKRVKTK 93

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 39.7 bits (93), Expect = 6e-04
 Identities = 15/46 (32%), Positives = 25/46 (54%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           L EE +++ EEE ++E   E  E E E   +    ++K K ++NK 
Sbjct: 241 LLEESDDDGEEESDDESAWEGFESEYEPINKPVRPKRKTKAQRNKE 286

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 39.3 bits (92), Expect = 7e-04
 Identities = 23/47 (48%), Positives = 33/47 (70%), Gaps = 2/47 (4%)

Query: 167 GKLEEEEEE--EEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
           G  EE+ EE  E+ EEEEEE++  E E+E+EE+E++EEEE   +  K
Sbjct: 273 GGDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 39.0 bits (91), Expect = 7e-04
 Identities = 18/37 (48%), Positives = 29/37 (78%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
            + E++ +E E E+ +EE+E++EEEEEEEEEE E+ +
Sbjct: 154 SMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFD 190

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region

 Score = 39.1 bits (92), Expect = 7e-04
 Identities = 10/35 (28%), Positives = 24/35 (68%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
                  E E +EE+ E++++++E+E+E+++EE +
Sbjct: 38  AATAAAIESELDEEDLEDDDDDDEDEDEDDEEEAD 72

The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Length = 211

>gnl|CDD|212055 cd11486, SLC5sbd_SGLT1, Na(+)/glucose cotransporter SGLT1;solute binding domain

 Score = 39.9 bits (93), Expect = 7e-04
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 3/44 (6%)

Query: 157 HLSRSLCHGWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 200
           HL R LC  W      EE  + + ++  E+E+E E E +EE +K
Sbjct: 529 HLYR-LC--WSLRNSTEERIDLDADDWTEDEDENEMETDEERKK 569

Human SGLT1 (hSGLT1) is a high-affinity/low-capacity glucose transporter, which can also transport galactose. In the transport mechanism, two Na+ ions first bind to the extracellular side of the transporter and induce a conformational change in the glucose binding site. This results in an increased affinity for glucose. A second conformational change in the transporter follows, bringing the Na+ and glucose binding sites to the inner surface of the membrane. Glucose is then released, followed by the Na+ ions. In the process, hSGLT1 is also able to transport water and urea and may be a major pathway for transport of these across the intestinal brush-border membrane. hSGLT1 is encoded by the SLC5A1 gene and expressed mostly in the intestine, but also in the trachea, kidney, heart, brain, testis, and prostate. The WHO/UNICEF oral rehydration solution (ORS) for the treatment of secretory diarrhea contains salt and glucose. The glucose, along with sodium ions, is transported by hSGLT1 and water is either co-transported along with these or follows by osmosis. Mutations in SGLT1 are associated with intestinal glucose galactose malabsorption (GGM). Up-regulation of intestinal SGLT1 may protect against enteric infections. SGLT1 is expressed in colorectal, head and neck, and prostate tumors. Epidermal growth factor receptor (EGFR) functions in cell survival by stabilizing SGLT1, and thereby maintaining intracellular glucose levels. SGLT1 is predicted to have 14 membrane-spanning regions. This subgroup belongs to the solute carrier 5 (SLC5)transporter family. Length = 635

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 39.6 bits (92), Expect = 7e-04
 Identities = 13/37 (35%), Positives = 32/37 (86%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           KL +E EEE  EEE+++EE+++++++E+E+++ ++++
Sbjct: 40  KLGKEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDD 76

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 39.6 bits (93), Expect = 8e-04
 Identities = 18/40 (45%), Positives = 32/40 (80%)

Query: 165 GWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           G G+ +EEEEE+  ++E+EE+++++ EEEEE+ +  +EEE
Sbjct: 317 GQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEE 356

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 39.7 bits (93), Expect = 8e-04
 Identities = 21/50 (42%), Positives = 27/50 (54%), Gaps = 10/50 (20%)

Query: 166 WGKLEEEE----------EEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
           W K +E E           E E+   E ++EEEE+EEEEEEE+E E   K
Sbjct: 361 WTKAKETEQDYILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSK 410

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 39.1 bits (92), Expect = 8e-04
 Identities = 18/31 (58%), Positives = 20/31 (64%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEE 197
             L  + +    EEEEEEEEEEEEEE  EEE
Sbjct: 290 EVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 39.1 bits (92), Expect = 8e-04
 Identities = 19/36 (52%), Positives = 22/36 (61%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEE 203
             E +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 285 DEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 39.0 bits (92), Expect = 8e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEE 203
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 39.0 bits (92), Expect = 8e-04
 Identities = 21/34 (61%), Positives = 23/34 (67%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEE 202
            +    E  EEEEEE EEEEEEEEEEE EE + E
Sbjct: 225 RQGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 39.4 bits (92), Expect = 8e-04
 Identities = 15/46 (32%), Positives = 31/46 (67%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           KL E ++E +  EE E + +EE+ ++EE E++++E+  + K ++ K
Sbjct: 384 KLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQK 429

Length = 434

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 38.3 bits (89), Expect = 8e-04
 Identities = 24/44 (54%), Positives = 32/44 (72%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           EEEEE+EEE EE E+ E+EEE  E+EEEEE++EE+    +   K
Sbjct: 53  EEEEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEK 96

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 39.2 bits (92), Expect = 0.001
 Identities = 16/35 (45%), Positives = 28/35 (80%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EEEEE+  ++E+EE+++++ EEEEE+ +   EEE+
Sbjct: 323 EEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEED 357

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 38.8 bits (91), Expect = 0.001
 Identities = 14/35 (40%), Positives = 29/35 (82%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EE+  ++E+EE+++++ EEEEE+ +  +EE++EE+
Sbjct: 326 EEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEED 360

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 38.8 bits (91), Expect = 0.001
 Identities = 15/35 (42%), Positives = 29/35 (82%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EEEE+  ++E+EE+++++ EEEEE+ +  ++EE+E
Sbjct: 324 EEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDE 358

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 38.9 bits (91), Expect = 0.001
 Identities = 25/36 (69%), Positives = 27/36 (75%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
           EEEEEEEE  E +EE+E EEEEEEE EE  KEEE  
Sbjct: 171 EEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEEGT 206

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 39.2 bits (92), Expect = 0.001
 Identities = 9/44 (20%), Positives = 33/44 (75%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           E+++++EE +EE+EE  + E++E+++++++ ++   +++  + +
Sbjct: 125 EDDDDDEESDEEDEESSKSEDDEDDDDDDDDDDIATRERSLERR 168

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 38.6 bits (90), Expect = 0.001
 Identities = 14/41 (34%), Positives = 30/41 (73%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
             EE E + +EE+ ++EE E++++E+ +E +E+ +K +R+K
Sbjct: 394 ASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKDERKK 434

Length = 434

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 38.6 bits (90), Expect = 0.001
 Identities = 16/46 (34%), Positives = 32/46 (69%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           K E +  EE E + +EE+ ++EE E++++E+  E++EK++K  + K
Sbjct: 389 KDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKDERKK 434

Length = 434

>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region

 Score = 38.3 bits (90), Expect = 0.001
 Identities = 11/36 (30%), Positives = 22/36 (61%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
                    E E +EE+ E++++++E+E+E +EEE 
Sbjct: 36  AAAATAAAIESELDEEDLEDDDDDDEDEDEDDEEEA 71

The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Length = 211

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 38.8 bits (90), Expect = 0.001
 Identities = 13/38 (34%), Positives = 33/38 (86%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           GK  EEE  EEE+++EE+++++++E+E++++++ +E++
Sbjct: 42  GKEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDD 79

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|237799 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional

 Score = 39.4 bits (92), Expect = 0.001
 Identities = 19/49 (38%), Positives = 33/49 (67%)

Query: 155 VGHLSRSLCHGWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEE 203
           + H+ +    GW  L+E +E++EE++EE+ EE + EE +EE EEE++  
Sbjct: 262 LRHVDKLGIEGWDWLKELKEKKEEKDEEKSEEVKTEEVDEEFEEEEKGF 310

Length = 1627

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 38.9 bits (91), Expect = 0.001
 Identities = 17/47 (36%), Positives = 27/47 (57%)

Query: 165 GWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
            W   E+E+ ++E E  + E ++E E  + E+EEEK+E  KK K   
Sbjct: 103 EWEVEEDEDSDDEGEWIDVESDKEIESSDSEDEEEKDEAAKKAKEDS 149

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|218734 pfam05758, Ycf1, Ycf1

 Score = 38.8 bits (91), Expect = 0.001
 Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 5/52 (9%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-----KEEEEKKKKRRKNKI 214
           + EE EEE + E E   E +  ++E+E   EE      EE+E   K      
Sbjct: 231 ETEEREEETDVEIETTSETKGTKQEQEGSTEEDPSLFSEEKEDPDKTEDLDK 282

The chloroplast genomes of most higher plants contain two giant open reading frames designated ycf1 and ycf2. Although the function of Ycf1 is unknown, it is known to be an essential gene. Length = 832

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 38.4 bits (90), Expect = 0.002
 Identities = 13/40 (32%), Positives = 29/40 (72%)

Query: 165 GWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
              +   ++E+EE+++++ EEEEE+ +  +EEE+E++E+ 
Sbjct: 324 EEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDS 363

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 38.1 bits (89), Expect = 0.002
 Identities = 16/43 (37%), Positives = 33/43 (76%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
           ++  +EEE+EE+E+ ++E++EEEEEEE+E++K++  +  +   
Sbjct: 349 VDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTRSEL 391

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 38.4 bits (90), Expect = 0.002
 Identities = 15/46 (32%), Positives = 34/46 (73%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           K  ++  E+ E++ EEE++E++++    +++E+EEEE+K+K+ + K
Sbjct: 410 KKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEK 455

Length = 482

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 37.4 bits (87), Expect = 0.002
 Identities = 14/45 (31%), Positives = 26/45 (57%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           EEE  +E E+E+  E + E +E+++ E  + + E++K K    K 
Sbjct: 102 EEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPKKP 146

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 13/47 (27%), Positives = 20/47 (42%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
            +   +E EEEE E+ EEE  +  E+   E       + + K  K  
Sbjct: 378 EEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADKES 424

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 19/38 (50%), Positives = 25/38 (65%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKK 207
           EE E++  +E+EE+E   EE+E E  EEEE EE E K 
Sbjct: 38  EEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGEVKA 75

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 37.8 bits (89), Expect = 0.002
 Identities = 21/33 (63%), Positives = 23/33 (69%)

Query: 172 EEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           +    E  EEEEEE EEEEEEEEEEE E+ E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 37.5 bits (88), Expect = 0.002
 Identities = 22/37 (59%), Positives = 25/37 (67%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
           LE  +    E  EEEEEE EEEEEEEEEEE +E E +
Sbjct: 222 LEGRQGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region

 Score = 37.9 bits (89), Expect = 0.002
 Identities = 13/39 (33%), Positives = 30/39 (76%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
           E E +EE+ E++++++E+E+E++EEE +   + EE +++
Sbjct: 45  ESELDEEDLEDDDDDDEDEDEDDEEEADLGPDPEEARER 83

The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Length = 211

>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region

 Score = 37.6 bits (88), Expect = 0.002
 Identities = 11/35 (31%), Positives = 24/35 (68%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
               E E +EE+ E++++++E+E+E++EEE +   
Sbjct: 41  AAAIESELDEEDLEDDDDDDEDEDEDDEEEADLGP 75

The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Length = 211

>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

 Score = 38.0 bits (88), Expect = 0.002
 Identities = 17/47 (36%), Positives = 27/47 (57%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
            + ++   E   + E E++E+ EE EEE+ EEE    +K KK +K K
Sbjct: 299 EREDKLSPEIPAKPEIEQDEDSEESEEEKNEEEGGLSKKGKKLKKLK 345

Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) or RNA polymerase II-associating protein 74 (RAP74) is the large subunit of transcription factor IIF (TFIIF), which is essential for accurate initiation and stimulates elongation by RNA polymerase II. Length = 528

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 38.1 bits (88), Expect = 0.002
 Identities = 12/37 (32%), Positives = 33/37 (89%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           + EEE  EEE+++EE+++++++E+E+++++++ E++E
Sbjct: 44  EAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDE 80

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 37.1 bits (86), Expect = 0.002
 Identities = 22/44 (50%), Positives = 34/44 (77%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           +E++EEEEEE+EEE EE E+ E+EEE  E++EEEE+ ++   + 
Sbjct: 48  QEDDEEEEEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDL 91

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 37.1 bits (86), Expect = 0.002
 Identities = 25/44 (56%), Positives = 31/44 (70%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           EEEE+EEE EE E+ E+EEE  E+EEEEEE EE+    K  + K
Sbjct: 54  EEEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKK 97

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 37.7 bits (88), Expect = 0.002
 Identities = 16/46 (34%), Positives = 30/46 (65%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
             + E+EEE++E  ++ +E+ +EE  EE+EE+  EE++ +  K K 
Sbjct: 129 SSDSEDEEEKDEAAKKAKEDSDEELSEEDEEEAAEEEEAEAEKEKA 174

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 38.4 bits (89), Expect = 0.002
 Identities = 10/39 (25%), Positives = 14/39 (35%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
           G+     + + E      EE      E  +E E E  EK
Sbjct: 381 GQAPAAHQVDAEAASAAPEEPAALASEAHDETEPEVPEK 419

Length = 460

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 38.5 bits (90), Expect = 0.002
 Identities = 11/35 (31%), Positives = 21/35 (60%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
            EEE        E++++  E+EEE+++ E++  EE
Sbjct: 265 PEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 38.1 bits (89), Expect = 0.002
 Identities = 10/36 (27%), Positives = 19/36 (52%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           L    +  EEE        E++++  E+EEE+++ E
Sbjct: 258 LPAPPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAE 293

Length = 584

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 13/36 (36%), Positives = 17/36 (47%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           L+ E EE  E E+ E  EE+    E     E E E+
Sbjct: 398 LQREAEERLEAEQAERAEEDARLRELYPLPEDEFED 433

Length = 449

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 13/35 (37%), Positives = 16/35 (45%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EEE  + E EE  E E+ E  EE+    E     E
Sbjct: 394 EEEALQREAEERLEAEQAERAEEDARLRELYPLPE 428

Length = 449

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 37.8 bits (88), Expect = 0.002
 Identities = 14/44 (31%), Positives = 24/44 (54%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRK 211
           +LE E+ E  EE+    E     E+E E+E+E EE + +++   
Sbjct: 405 RLEAEQAERAEEDARLRELYPLPEDEFEDEDELEEAQPEEEEEA 448

Length = 449

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 37.8 bits (88), Expect = 0.002
 Identities = 14/38 (36%), Positives = 21/38 (55%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKK 206
              EE+    E     E+E E+E+E EE + +EEEE +
Sbjct: 412 ERAEEDARLRELYPLPEDEFEDEDELEEAQPEEEEEAR 449

Length = 449

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 35.7 bits (83), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 199
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|218556 pfam05327, RRN3, RNA polymerase I specific transcription initiation factor RRN3

 Score = 38.1 bits (89), Expect = 0.002
 Identities = 10/46 (21%), Positives = 31/46 (67%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           +L++ ++EEEE    +E++++E++  + +++++EE + + +R    
Sbjct: 221 ELDDIDDEEEERVLADEDDDDEDDMFDMDDDDEEESDPEVERTSTI 266

This family consists of several eukaryotic proteins which are homologous to the yeast RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in Saccharomyces cerevisiae. Length = 554

>gnl|CDD|220135 pfam09184, PPP4R2, PPP4R2

 Score = 37.9 bits (88), Expect = 0.002
 Identities = 18/39 (46%), Positives = 32/39 (82%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKK 206
           K ++EE+++++ +  EE+E +E+EEEEE EEE+EEE++ 
Sbjct: 246 KSDDEEDDDQDGDYVEEKELKEDEEEEETEEEEEEEDED 284

PPP4R2 (protein phosphatase 4 core regulatory subunit R2) is the regulatory subunit of the histone H2A phosphatase complex. It has been shown to confer resistance to the anticancer drug cisplatin in yeast, and may confer resistance in higher eukaryotes. Length = 285

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 17/30 (56%), Positives = 22/30 (73%)

Query: 181 EEEEEEEEEEEEEEEEEEEKEEEEKKKKRR 210
               E EEEEEEEEE  EE+EEEE++++R 
Sbjct: 300 PSPPEPEEEEEEEEEVPEEEEEEEEEEERT 329

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 36.7 bits (85), Expect = 0.003
 Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 5/45 (11%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEE-----EEEEKEEEEKKKKR 209
           EE  +E E+E+  E + E +E+++ E      E+EK + E KK +
Sbjct: 103 EESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPKKPK 147

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 38.0 bits (88), Expect = 0.003
 Identities = 21/33 (63%), Positives = 24/33 (72%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 201
            EEEE+E EEEE E+EEEEEE E +   EEE E
Sbjct: 455 EEEEEQESEEEEGEDEEEEEEVEADNGSEEEME 487

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 11/45 (24%), Positives = 31/45 (68%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
            + EE+++++EE +EE+EE  + E++E+++ ++++     R+  +
Sbjct: 121 RDLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDDDDIATRERSL 165

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 37.4 bits (87), Expect = 0.003
 Identities = 17/39 (43%), Positives = 27/39 (69%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
           +EE E++  +E+EE+E   EE+E E  EEE++EE + K 
Sbjct: 37  DEEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGEVKA 75

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|235549 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated

 Score = 37.9 bits (89), Expect = 0.003
 Identities = 13/42 (30%), Positives = 24/42 (57%)

Query: 167 GKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
            + +      E EE +++E+EEEEE+E ++    +E E  +K
Sbjct: 178 AEEDPAHVGSELEELDDDEDEEEEEDENDDSLAADESELPEK 219

Length = 619

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 36.8 bits (85), Expect = 0.003
 Identities = 17/35 (48%), Positives = 26/35 (74%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EEE+ + + EE EE+EEE E+ E+  +EE++E EE
Sbjct: 20  EEEDWDSQAEEVEEDEEEMEDWEDSLDEEDEEAEE 54

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional

 Score = 37.3 bits (87), Expect = 0.003
 Identities = 21/37 (56%), Positives = 24/37 (64%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKK 207
           EEE EE E EE  E+E EEE  EEE E E  +EE+ K
Sbjct: 9   EEEVEETEVEEAVEDEVEEETVEEESEAELLDEEQAK 45

Length = 191

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 37.9 bits (88), Expect = 0.003
 Identities = 15/46 (32%), Positives = 31/46 (67%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           KL++  ++  E ++E +  EE E + +EE+ ++EE EKK+K + ++
Sbjct: 377 KLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADE 422

Length = 434

>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region

 Score = 36.8 bits (86), Expect = 0.003
 Identities = 13/40 (32%), Positives = 30/40 (75%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKR 209
            E E +EE+ E++++++E+E+E++EEE +   + E+ ++R
Sbjct: 44  IESELDEEDLEDDDDDDEDEDEDDEEEADLGPDPEEARER 83

The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Length = 211

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 17/45 (37%), Positives = 33/45 (73%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNKI 214
           E+EEE++E  ++ +E+ +EE  EE+EEE  +EEE + +K + +++
Sbjct: 133 EDEEEKDEAAKKAKEDSDEELSEEDEEEAAEEEEAEAEKEKASEL 177

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 38.1 bits (89), Expect = 0.003
 Identities = 9/35 (25%), Positives = 19/35 (54%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
            +  EEE        E++++  E+EEE+++ E+  
Sbjct: 262 PQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRA 296

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 9/36 (25%), Positives = 19/36 (52%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
              +  EEE        E++++  E+EEE+ + E++
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDR 295

Length = 584

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 37.8 bits (88), Expect = 0.003
 Identities = 12/45 (26%), Positives = 23/45 (51%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKN 212
           +  EE  E E+ E  EE+    E     E+E ++E+E ++ + + 
Sbjct: 400 REAEERLEAEQAERAEEDARLRELYPLPEDEFEDEDELEEAQPEE 444

Length = 449

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 37.8 bits (88), Expect = 0.003
 Identities = 13/35 (37%), Positives = 16/35 (45%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EEEE  + E EE  E E+ E  EE+    E     
Sbjct: 393 EEEEALQREAEERLEAEQAERAEEDARLRELYPLP 427

Length = 449

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 37.8 bits (88), Expect = 0.003
 Identities = 13/35 (37%), Positives = 18/35 (51%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           + EEEE  + E EE  E E+ E  EE+   +E   
Sbjct: 391 QREEEEALQREAEERLEAEQAERAEEDARLRELYP 425

Length = 449

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 37.9 bits (88), Expect = 0.003
 Identities = 18/30 (60%), Positives = 18/30 (60%)

Query: 172 EEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 201
           E   EEEEEEEEEEEEE  E E   EE   
Sbjct: 399 ERWAEEEEEEEEEEEEEAAEAEAPMEEPVP 428

Length = 470

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 37.5 bits (87), Expect = 0.003
 Identities = 20/38 (52%), Positives = 22/38 (57%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKK 206
           L+E+     E   EEEEEEEEEEEEE  E E   EE  
Sbjct: 390 LKEKGHPVVERWAEEEEEEEEEEEEEAAEAEAPMEEPV 427

Length = 470

>gnl|CDD|129661 TIGR00570, cdk7, CDK-activating kinase assembly factor MAT1

 Score = 37.5 bits (87), Expect = 0.003
 Identities = 20/38 (52%), Positives = 27/38 (71%)

Query: 176 EEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           E+EE EE  E E+EEEE+     +KEEEE++  +RKNK
Sbjct: 143 EQEELEEALEFEKEEEEQRRLLLQKEEEEQQMNKRKNK 180

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 309

>gnl|CDD|149343 pfam08229, SHR3_chaperone, ER membrane protein SH3

 Score = 36.9 bits (86), Expect = 0.003
 Identities = 15/39 (38%), Positives = 22/39 (56%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
           E ++ +  EE   EE E     +EEE  E +++E KKKK
Sbjct: 158 EWKDAKLLEEFAAEEAEAAAAAKEEESAEGEKKESKKKK 196

This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs). SH3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of SH3, AAPs are retained in the ER. Length = 196

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 35.5 bits (81), Expect = 0.003
 Identities = 13/35 (37%), Positives = 30/35 (85%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEE 203
           LE EE+ + + +EEE++++E+EE+++E+++E ++E
Sbjct: 6   LEGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 37.6 bits (87), Expect = 0.004
 Identities = 20/35 (57%), Positives = 24/35 (68%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EEE+E EEEE E+EEEEEE E +   EEE +   E
Sbjct: 457 EEEQESEEEEGEDEEEEEEVEADNGSEEEMEGSSE 491

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 37.3 bits (87), Expect = 0.004
 Identities = 9/44 (20%), Positives = 30/44 (68%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
            +EE+EE  + E++E++++++++++    E+  E ++++R   +
Sbjct: 133 SDEEDEESSKSEDDEDDDDDDDDDDIATRERSLERRRRRREWEE 176

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 36.7 bits (85), Expect = 0.004
 Identities = 16/41 (39%), Positives = 27/41 (65%)

Query: 165 GWGKLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEK 205
           G    EEE+ +E+    E++ +E E E+ +EE+E+ EEEE+
Sbjct: 140 GLFTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEE 180

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 37.7 bits (87), Expect = 0.004
 Identities = 16/42 (38%), Positives = 32/42 (76%), Gaps = 3/42 (7%)

Query: 169 LEEEEEEEEEE---EEEEEEEEEEEEEEEEEEEEKEEEEKKK 207
           L EE+    +    ++++E+E+E++++EE++EEE+EEEE+ K
Sbjct: 140 LAEEDMSPRDNFVIDDDDEDEDEDDDDEEDDEEEEEEEEEIK 181

Length = 2849

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 37.2 bits (87), Expect = 0.004
 Identities = 16/45 (35%), Positives = 31/45 (68%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           L+  EEE +EE +E++EE+++EE E +  +   EE++K + ++ K
Sbjct: 273 LKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERK 317

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 37.5 bits (87), Expect = 0.004
 Identities = 13/36 (36%), Positives = 18/36 (50%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           + + EEEE  + E EE  E E+ E  EE+    E  
Sbjct: 389 ISQREEEEALQREAEERLEAEQAERAEEDARLRELY 424

Length = 449

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 37.1 bits (86), Expect = 0.004
 Identities = 14/40 (35%), Positives = 22/40 (55%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKK 208
             E  EE+    E     E+E E+E+E EE + EEE++ +
Sbjct: 410 QAERAEEDARLRELYPLPEDEFEDEDELEEAQPEEEEEAR 449

Length = 449

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 37.1 bits (86), Expect = 0.004
 Identities = 14/36 (38%), Positives = 19/36 (52%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           L  + EEEE  + E EE  E E+ E  EE+ +  E 
Sbjct: 388 LISQREEEEALQREAEERLEAEQAERAEEDARLREL 423

Length = 449

>gnl|CDD|220135 pfam09184, PPP4R2, PPP4R2

 Score = 36.7 bits (85), Expect = 0.004
 Identities = 18/37 (48%), Positives = 30/37 (81%)

Query: 168 KLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           K  ++EE+++++ +  EE+E +E+EEEEE EE+EEEE
Sbjct: 245 KKSDDEEDDDQDGDYVEEKELKEDEEEEETEEEEEEE 281

PPP4R2 (protein phosphatase 4 core regulatory subunit R2) is the regulatory subunit of the histone H2A phosphatase complex. It has been shown to confer resistance to the anticancer drug cisplatin in yeast, and may confer resistance in higher eukaryotes. Length = 285

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 37.1 bits (86), Expect = 0.004
 Identities = 18/31 (58%), Positives = 19/31 (61%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 199
           +E   EEEEEEEEEEEEE  E E   EE   
Sbjct: 398 VERWAEEEEEEEEEEEEEAAEAEAPMEEPVP 428

Length = 470

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 37.3 bits (87), Expect = 0.004
 Identities = 10/39 (25%), Positives = 35/39 (89%)

Query: 169 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKK 207
           L++++ ++++++E+++E++++++ ++E+EE+KE +E +K
Sbjct: 142 LDDDDIDDDDDDEDDDEDDDDDDVDDEDEEKKEAKELEK 180

Length = 509

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 37.3 bits (87), Expect = 0.004
 Identities = 10/44 (22%), Positives = 29/44 (65%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEEKKKKRRKNK 213
           +++ ++E+EE++E +E E+  ++++   +E + E  ++ R+  K
Sbjct: 162 DDDVDDEDEEKKEAKELEKLSDDDDFVWDEDDSEALRQARKDAK 205

Length = 509

>gnl|CDD|221203 pfam11748, DUF3306, Protein of unknown function (DUF3306)

 Score = 35.4 bits (82), Expect = 0.004
 Identities = 16/35 (45%), Positives = 17/35 (48%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEEEE 204
           EE  E  E  EEE          EEEEE E E+EE
Sbjct: 16  EEPAEPAETAEEEAAAAAPAPAPEEEEEAELEDEE 50

This family of proteobacterial species proteins has no known function. Length = 115

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 35.3 bits (82), Expect = 0.004
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 170 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 198
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 35.3 bits (82), Expect = 0.004
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 171 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 199
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	214
KOG4426|consensus	656		100.0
COG0018	577	ArgS Arginyl-tRNA synthetase [Translation, ribosom	99.97
PLN02286	576	arginine-tRNA ligase	99.96
PRK12451	562	arginyl-tRNA synthetase; Reviewed	99.93
PRK01611	507	argS arginyl-tRNA synthetase; Reviewed	99.92
TIGR00456	566	argS arginyl-tRNA synthetase. This model recognize	99.91
PF03485	85	Arg_tRNA_synt_N: Arginyl tRNA synthetase N termina	99.74
KOG1195|consensus	567		99.52
PF00750	354	tRNA-synt_1d: tRNA synthetases class I (R); InterP	99.14
cd00671	212	ArgRS_core catalytic core domain of arginyl-tRNA s	98.5
cd00802	143	class_I_aaRS_core catalytic core domain of class I	95.23
cd00818	338	IleRS_core catalytic core domain of isoleucyl-tRNA	85.52
cd00668	312	Ile_Leu_Val_MetRS_core catalytic core domain of is	85.07
PRK13208	800	valS valyl-tRNA synthetase; Reviewed	84.86
PTZ00419	995	valyl-tRNA synthetase-like protein; Provisional	84.83
PF00749	314	tRNA-synt_1c: tRNA synthetases class I (E and Q),	84.4
PRK05729	874	valS valyl-tRNA synthetase; Reviewed	84.33
PF00133	601	tRNA-synt_1: tRNA synthetases class I (I, L, M and	84.19
PLN02381	1066	valyl-tRNA synthetase	83.51
cd00418	230	GlxRS_core catalytic core domain of glutamyl-tRNA	82.94
cd00817	382	ValRS_core catalytic core domain of valyl-tRNA syn	82.67
PLN02943	958	aminoacyl-tRNA ligase	82.48
cd00812	314	LeuRS_core catalytic core domain of leucyl-tRNA sy	82.28
cd00807	238	GlnRS_core catalytic core domain of glutaminyl-tRN	81.83
TIGR00422	861	valS valyl-tRNA synthetase. The valyl-tRNA synthet	81.19
TIGR03838	272	queuosine_YadB glutamyl-queuosine tRNA(Asp) synthe	80.89
COG0008	472	GlnS Glutamyl- and glutaminyl-tRNA synthetases [Tr	80.54
TIGR00392	861	ileS isoleucyl-tRNA synthetase. The isoleucyl tRNA	80.43
PLN02959	1084	aminoacyl-tRNA ligase	80.24

>KOG4426|consensus

Probab=100.00  E-value=6.3e-33  Score=255.90  Aligned_cols=145  Identities=48%  Similarity=0.798  Sum_probs=136.0

Q ss_pred             ccHHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhc
Q psy695            9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELA   88 (214)
Q Consensus         9 m~i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~   88 (214)
                      -||+.+++..|..+|..++|....+++.|.+++.+   +|||||||+||.|++++|.+|+++.|++||+.|...    ++
T Consensus        71 ~ni~~~L~~lF~~aik~a~Pd~~~vp~liaps~~~---kFGDYQCNnAMgl~~~lK~kg~~~~P~~va~~l~~~----lP  143 (656)
T KOG4426|consen   71 SNIFRRLQSLFDVAIKLAFPDLPDVPLLIAPSPNA---KFGDYQCNNAMGLSSKLKGKGINKRPRDVAQELQKH----LP  143 (656)
T ss_pred             ccHHHHHHHHHHHHHHHhCCCCCCCCceeccCccc---ccccccccchhhHHHHHhhcCCccCcHHHHHHHHhh----CC
Confidence            58999999999999999999887778888888777   999999999999999999999999999999999999    98


Q ss_pred             cCCccccccceeEEecCeEEEEEeCHHHHHHHHHHHHHcCCCCCCCCCCeeEEEeecCcccccccccccchhhhhcc
Q psy695           89 TNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus        89 ~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~~l~~i~~~~~~~~~~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+    ++|++++|+||||||++|+..|++.+|..++.+|...|.+. .++|+|||+|||++++|||||+|++|+|+
T Consensus       144 ~s----e~vEk~~iagpGFiNv~Ls~d~~~~~i~nll~~GV~~P~l~-~KrvlVDFSSPNIAKeMHVGHLRSTIIGd  215 (656)
T KOG4426|consen  144 TS----EMVEKCEIAGPGFINVFLSKDYMSKQISNLLVNGVKLPTLS-VKRVLVDFSSPNIAKEMHVGHLRSTIIGD  215 (656)
T ss_pred             ch----hhhhhhcccCCceEEEEechHHHHHHHHHHHHcCCCCcccc-eeeEEEecCCCcHHHHhhhhhhhhhhHhH
Confidence            87    89999999999999999999999999999999999988874 48999999999999999999999999976

>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

Probab=99.97  E-value=3.5e-31  Score=254.55  Aligned_cols=143  Identities=31%  Similarity=0.502  Sum_probs=124.9

Q ss_pred             ccHHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhc
Q psy695            9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELA   88 (214)
Q Consensus         9 m~i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~   88 (214)
                      |+|.+.++..|..+|..++.......+.|+.|+++   +||||+||+||.|||.++     ++|++||++|++.    |.
T Consensus         1 m~i~~~l~~~i~~~l~~~~~~~~~~~~~ve~~~~~---~~GD~a~n~a~~laK~~~-----~~P~eiA~~i~~~----l~   68 (577)
T COG0018           1 MNIKQLLKEKIAEALSAAGLDVEEIEILVEPPKDP---EHGDFATNIAFQLAKKLG-----KNPREIAEEIAEK----LD   68 (577)
T ss_pred             CCHHHHHHHHHHHHHHHhhccccccccceecCCCC---CcccccchHHHHHhhhcC-----CCHHHHHHHHHHh----cc
Confidence            78889999999999999862223446788889998   999999999999999997     8999999999999    87


Q ss_pred             cCCccccccceeEEecCeEEEEEeCHHHHHHHHHHHHHc-CCCCCC--CCCCeeEEEeecCcccccccccccchhhhhcc
Q psy695           89 TNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVN-GVQPPT--LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus        89 ~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~~l~~i~~~-~~~~~~--~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      ..    +.|++|+++|||||||++++.++.+.+..++.. +..||.  .+++++|+|||+||||+|||||||+|++++||
T Consensus        69 ~~----~~~~~veiaGpgfINf~l~~~~~~~~~~~~l~~~~~~~G~~~~~~~~kV~iE~sSaNptkplHiGHlR~aiiGD  144 (577)
T COG0018          69 TD----EIIEKVEIAGPGFINFFLSPEFLAELLLEILEKGDDRYGRSKLGKGKKVVIEYSSANPTGPLHIGHLRNAIIGD  144 (577)
T ss_pred             cc----CcEeEEEEcCCCEEEEEECHHHHHHHHHHHHHhcccccCccccCCCCEEEEEEeCCCCCCCcccchhhhhHHHH
Confidence            65    589999999999999999999999999888775 455654  46789999999999999999999999999976


Q ss_pred             cC
Q psy695          166 WG  167 (214)
Q Consensus       166 w~  167 (214)
                      -+
T Consensus       145 sL  146 (577)
T COG0018         145 SL  146 (577)
T ss_pred             HH
Confidence            43

>PLN02286 arginine-tRNA ligase

Probab=99.96  E-value=6.4e-29  Score=239.25  Aligned_cols=142  Identities=40%  Similarity=0.634  Sum_probs=116.8

Q ss_pred             HHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCC-CChHHHHHHHHHhhhhhhccCCcc
Q psy695           15 LSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEK-KNPFDIAQSIASVVTSELATNPSL   93 (214)
Q Consensus        15 ~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~-~~P~eiA~~i~~~~~~el~~~~~~   93 (214)
                      +...+.++|..+++......+.|+.|+++   .|||||||+||.|||.++..|.+ ++|.+||+.|++.    |...   
T Consensus         3 ~~~~~~~~l~~~~~~~~~~~~~i~~~~~~---~~GD~a~n~a~~lak~~~~~~~~~k~P~~iA~~i~~~----l~~~---   72 (576)
T PLN02286          3 LAKLFEASLRLTVPDEPSVEPLVAACTNP---KFGDYQCNNAMGLWSKLKGKGTSFKNPRAVAQAIVKN----LPAS---   72 (576)
T ss_pred             HHHHHHHHHHHhcCcccccCeEEecCCCC---CCCCcccchHHHHHHHhCccccccCCHHHHHHHHHHh----Cccc---
Confidence            45567777777764322224668888888   99999999999999999755444 7999999999999    7644   


Q ss_pred             ccccceeEEecCeEEEEEeCHHHHHHHHHHHHHcCCCCCC-CCCCeeEEEeecCcccccccccccchhhhhcccC
Q psy695           94 AKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPT-LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGWG  167 (214)
Q Consensus        94 ~~~i~~v~iagpGFIN~~l~~~~~~~~l~~i~~~~~~~~~-~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~w~  167 (214)
                       ++|++|+++|||||||+|++.++.+.+..++..+..|+. ...+++|+|||+||||+|||||||+|+++||+-+
T Consensus        73 -~~i~~v~vagpGfiNf~l~~~~l~~~l~~~~~~~~~~g~~~~~~~~v~VEfsSpNp~kplHvGHlRsaiiGdsL  146 (576)
T PLN02286         73 -EMIESTSVAGPGFVNVRLSASWLAKRIERMLVDGIDTWAPTLPVKRAVVDFSSPNIAKEMHVGHLRSTIIGDTL  146 (576)
T ss_pred             -cceeeEEEcCCCeEEEEECHHHHHHHHHHHHHcCcccCCCCCCCceEEEEecCCCCCCCCccccccchhhHHHH
Confidence             679999999999999999999999999888877766653 3356899999999999999999999999997633

>PRK12451 arginyl-tRNA synthetase; Reviewed

Probab=99.93  E-value=6.2e-26  Score=218.02  Aligned_cols=137  Identities=26%  Similarity=0.447  Sum_probs=110.3

Q ss_pred             ccHHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhc
Q psy695            9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELA   88 (214)
Q Consensus         9 m~i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~   88 (214)
                      |+++..+.+.|..++..+... ....+.|+.|+++   .||||||| ||.|||.++     ++|.+||+.|+..    |.
T Consensus         1 ~~~~~~i~~~l~~~l~~~~~~-~~~~~~i~~~~~~---~~GD~~~~-~~~lak~~~-----~~P~~iA~~i~~~----l~   66 (562)
T PRK12451          1 MDYKTQFAESLSNIFTNELTQ-QQILDLIETPKQD---EFGDAAFP-CFSLAKQYK-----KAPAIIAKEVAEK----LS   66 (562)
T ss_pred             ChHHHHHHHHHHHHHHhhccc-cccceeeecCCCC---CCCcccch-HHHHHHHcC-----CCHHHHHHHHHHh----cc
Confidence            345667777777777655321 1113567778888   99999999 799999997     8999999999999    74


Q ss_pred             cCCccccccceeEEecCeEEEEEeCHHHHHHH-HHHHHHcCCCCCCC--CCCeeEEEeecCcccccccccccchhhhhcc
Q psy695           89 TNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQ-IKDIIVNGVQPPTL--NKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus        89 ~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~~-l~~i~~~~~~~~~~--~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .     +.|.+++++|| ||||+|++.++... +..++..+..||..  +++++|+|||+||||+|||||||+|++++|+
T Consensus        67 ~-----~~i~~ve~~g~-fiN~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~v~vE~sSpNp~kplHvGH~R~aiiGd  140 (562)
T PRK12451         67 D-----PFFTKVEAVGP-YVNVFFNRETVSDAVLKTILAEKEEYGQNHFGCEKTVVIDYSSPNIAKPFSMGHLRSTMIGN  140 (562)
T ss_pred             c-----cccceeEeeCC-EEEEEECHHHHHHHHHHHHHhhHhhcCCCccCCCCEEEEEecCCCCCCCcccchhhhHHHHH
Confidence            3     35899999995 99999999999765 56787777778753  3578999999999999999999999999965

>PRK01611 argS arginyl-tRNA synthetase; Reviewed

Probab=99.92  E-value=1.6e-24  Score=205.72  Aligned_cols=136  Identities=29%  Similarity=0.469  Sum_probs=110.9

Q ss_pred             ccHHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhc
Q psy695            9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELA   88 (214)
Q Consensus         9 m~i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~   88 (214)
                      |++++.+...+..++....... ...+.|+.|+++   .+|||+||+||.+||.++     ++|.+||+.|++.      
T Consensus         3 ~~~~~~i~~~~~~~~~~~~~~~-~~~~~i~~~~~~---~~gd~~~~~a~~lak~~~-----~~p~~ia~~i~~~------   67 (507)
T PRK01611          3 MDIKELLAEALAAALEAGGLPE-LPAVLIERPKDP---EHGDYATNVAMQLAKKLK-----KNPREIAEEIVEA------   67 (507)
T ss_pred             HHHHHHHHHHHHHHHHhccccc-cccceeecCCCC---CccCeecHHHHHHHHHcC-----CCHHHHHHHHHhh------
Confidence            5667777777777665432111 112457778888   999999999999999997     8999999999764      


Q ss_pred             cCCccccccceeEEecCeEEEEEeCHHHHHHHHHHHHHcCCCCCC--CCCCeeEEEeecCcccccccccccchhhhhccc
Q psy695           89 TNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVNGVQPPT--LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGW  166 (214)
Q Consensus        89 ~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~~l~~i~~~~~~~~~--~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~w  166 (214)
                              |++++++|||||||+|++.++...+..++..+..||.  .+++++|+|||+||||++++||||+|++++|+.
T Consensus        68 --------i~~v~~~~~gfiN~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~v~Ie~~spnp~g~lHiGH~R~~iigD~  139 (507)
T PRK01611         68 --------IEKVEIAGPGFINFFLDPAALAELVLAILEAGERYGRSDIGKGKKVVVEYVSANPTGPLHVGHLRSAVIGDA  139 (507)
T ss_pred             --------eeEEEEeCCCEEEEEECHHHHHHHHHHHHhchhhcCCCcCCCCCEEEEEecCCCCCCCCcCCchHHHHHHHH
Confidence                    6789999999999999999999988888776777874  346789999999999999999999999998764


Q ss_pred             C
Q psy695          167 G  167 (214)
Q Consensus       167 ~  167 (214)
                      +
T Consensus       140 l  140 (507)
T PRK01611        140 L  140 (507)
T ss_pred             H
Confidence            3

>TIGR00456 argS arginyl-tRNA synthetase

Probab=99.91  E-value=2.2e-24  Score=207.29  Aligned_cols=135  Identities=33%  Similarity=0.479  Sum_probs=107.5

Q ss_pred             HHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhccCCc
Q psy695           13 DYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPS   92 (214)
Q Consensus        13 ~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~~~~~   92 (214)
                      +.+...|..++..+... ....+.|+.|+++   .|||||||+||.+||.++     ++|.+||+.|+..    |...  
T Consensus         3 ~~i~~~~~~~l~~~~~~-~~~~~~i~~~~~~---~~GD~~~~~a~~lak~~~-----~~P~~iA~~i~~~----l~~~--   67 (566)
T TIGR00456         3 TLLKDEISAALLKAGLS-KESEILLEETPNP---EFGDYASNIAFPLAKVLK-----KNPRAIAEEIVLK----LKTG--   67 (566)
T ss_pred             HHHHHHHHHHHHhcccc-cccceeeecCCCC---CCCccccHHHHHHHHHcC-----CCHHHHHHHHHHh----CCCc--
Confidence            34555566666544211 1113567778888   999999999999999997     8999999999999    7544  


Q ss_pred             cccccceeEEecCeEEEEEeCHHHHHHH-HHHHHHcCCCCCCC-CCCeeEEEeecCcccccccccccchhhhhcc
Q psy695           93 LAKVIDKIEVAKPGFVNVFLSRVYAGEQ-IKDIIVNGVQPPTL-NKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus        93 ~~~~i~~v~iagpGFIN~~l~~~~~~~~-l~~i~~~~~~~~~~-~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                        ++|++|+++|| ||||+|++.++... +..++..+..||.. ..+++|+|||+||||++|+||||+|++++|+
T Consensus        68 --~~i~~ve~~gp-fiN~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~v~ve~~spn~~~~~hiGh~r~~~~gd  139 (566)
T TIGR00456        68 --EIIEKVEAAGP-FINFFLSPQKLLERLIQKILTQKEDYGSKKLKNKKIIIEFSSANPAGPLHIGHLRNAIIGD  139 (566)
T ss_pred             --CcEeEEEEeCC-EEEEEEcHHHHHHHHHHHHHhcccccCCCCCCCCeEEEEecCCCCCCCCchhhhHHHHHHH
Confidence              67999999998 99999999877765 66788777788742 1267999999999999999999999999654

This model recognizes arginyl-tRNA synthetase in every completed genome to date. An interesting feature of the alignment of all arginyl-tRNA synthetases is a fairly deep split between two families. One family includes archaeal, eukaryotic and organellar, spirochete, E. coli, and Synechocystis sp. The second, sharing a deletion of about 25 residues in the central region relative to the first, includes Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and Mycobacteria, and the Gram-negative bacterium Helicobacter pylori.

>PF03485 Arg_tRNA_synt_N: Arginyl tRNA synthetase N terminal domain; InterPro: IPR005148 The aminoacyl-tRNA synthetases (6

Probab=99.74  E-value=5.2e-18  Score=125.27  Aligned_cols=84  Identities=40%  Similarity=0.657  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHHHHhCC-ccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhccCC
Q psy695           13 DYLSDVFTHAVQVAFP-ELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNP   91 (214)
Q Consensus        13 ~~~~~~i~~aI~~a~~-~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~~~~   91 (214)
                      +.+++.|.++|..++. ......+.|+.|+++   .+||||||+||.+||.+|     ++|.+||+.|++.    |... 
T Consensus         1 ~~l~~~i~~~l~~~~~~~~~~~~~~i~~~~~~---~~GD~~~n~a~~lak~~k-----~~P~~iA~~i~~~----l~~~-   67 (85)
T PF03485_consen    1 QQLKKAISEALKKAFGIDLEEIEIQIEKPPNP---KFGDYQTNIAFRLAKKLK-----KNPREIAEEIAEK----LEKS-   67 (85)
T ss_dssp             -HHHHHHHHHHHHCHSTTCCCHGGGEEE-SSG---GG-SEEEEHHHHHHHHTT-----S-HHHHHHHHHHC----HCTT-
T ss_pred             ChHHHHHHHHHHHHhcccccccceEEEcCCCC---CceeeeccchHHHHHHcC-----CCHHHHHHHHHHh----cCCC-
Confidence            4577788888888852 233346778888888   999999999999999998     8999999999999    8766 


Q ss_pred             ccccccceeEEecCeEEEEEe
Q psy695           92 SLAKVIDKIEVAKPGFVNVFL  112 (214)
Q Consensus        92 ~~~~~i~~v~iagpGFIN~~l  112 (214)
                         ++|++++++|||||||+|
T Consensus        68 ---~~i~~vev~gpGFiN~~L   85 (85)
T PF03485_consen   68 ---PIIEKVEVAGPGFINFFL   85 (85)
T ss_dssp             ---TTEEEEEEETTTEEEEEE
T ss_pred             ---CCEEEEEEcCCcEEEEeC
Confidence               679999999999999997

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain is found at the N terminus of Arginyl tRNA synthetase, also called additional domain 1 (Add-1). It is about 140 residues long and it has been suggested that this domain will be involved in tRNA recognition [].; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1F7V_A 1F7U_A 1BS2_A 2ZUE_A 2ZUF_A 1IQ0_A 3GDZ_B.

>KOG1195|consensus

Probab=99.52  E-value=2e-14  Score=135.45  Aligned_cols=131  Identities=24%  Similarity=0.302  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHHhCCccC--CCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhccCCc
Q psy695           15 LSDVFTHAVQVAFPELG--DKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPS   92 (214)
Q Consensus        15 ~~~~i~~aI~~a~~~~~--~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~~~~~   92 (214)
                      +...|..+|..+-+ ..  ..++.++.+...   +-||.-.+    |.++.      ..+.+.|.++++.    ++.+  
T Consensus         5 lr~~i~e~l~~~~~-~~~~~i~~~le~~~~~---~r~~~~~~----lp~i~------~~~~~~a~~~~e~----~~~~--   64 (567)
T KOG1195|consen    5 LRQYISEELSKISG-VDSSLIPPALEQSNSM---DRPDLLLP----LPRIR------VQGKEDALRWAEA----LPCN--   64 (567)
T ss_pred             HHHHHHHHhhhhhC-CCHHHhHHHHHhhccC---CCCCcccc----Ccccc------cCCHHHHHHHHHh----cccc--
Confidence            34455555555543 22  123455666666   67788765    44544      3555899999988    8765  


Q ss_pred             cccccceeEEecCeEEEEEeCHHHHHH-HHHHHHHcCCCCCC--CCCCeeEEEeecCcccccccccccchhhhhcccCC
Q psy695           93 LAKVIDKIEVAKPGFVNVFLSRVYAGE-QIKDIIVNGVQPPT--LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGWGK  168 (214)
Q Consensus        93 ~~~~i~~v~iagpGFIN~~l~~~~~~~-~l~~i~~~~~~~~~--~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~w~~  168 (214)
                        ..|.++.+.|+ |++|++++.++.. .+..|......||.  ++++++|+|||+|||+++++|+||+|++++|.+++
T Consensus        65 --~~v~~~~~~~~-~~~f~ln~~~~~k~~l~~i~~~~~~~g~~~~~~~k~iVVefSSPNIAK~FHvGhLRsTiiG~fla  140 (567)
T KOG1195|consen   65 --RIVEEVGASGP-FVQFFLNRRRLIKSVLPIIEEQREKYGKNELGSGKKIVVEFSSPNIAKPFHVGHLRSTIIGNFLA  140 (567)
T ss_pred             --cchHHHhcCCC-eEEEEecHHHHHHHHHHHHHHHhcccCccccccCceEEEEecCCCcccccccchhhhhhhhhHhh
Confidence              78999999997 9999999997775 56667777788875  56789999999999999999999999999988776

>PF00750 tRNA-synt_1d: tRNA synthetases class I (R); InterPro: IPR015945 The aminoacyl-tRNA synthetases (6

Probab=99.14  E-value=1.3e-11  Score=112.89  Aligned_cols=46  Identities=39%  Similarity=0.610  Sum_probs=35.4

Q ss_pred             HHHHHHHcCCCCC-CCCCCeeEEEeecCcccccccccccchhhhhcc
Q psy695          120 QIKDIIVNGVQPP-TLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       120 ~l~~i~~~~~~~~-~~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +|+.|+..+..|+ ..+++++|+|||+||||+|||||||+||++||+
T Consensus         1 ~i~~il~~~~~y~~~~~~~~kv~VE~sSpNp~kplHvGHlR~~iiGd   47 (354)
T PF00750_consen    1 QINEILEKGEEYGSEKGKGKKVVVEFSSPNPTKPLHVGHLRNTIIGD   47 (354)
T ss_dssp             -HHHHHHHGGGTT--TTTSEEEEEEE---BTTSS-BHHHHHHHHHHH
T ss_pred             CHHHHHhcchhcccccCCCCEEEEEecCCCCCCCCcCCcchhhhhhH
Confidence            3677888888883 357899999999999999999999999999965

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the core region of arginyl-tRNA synthetase (6.1.1.19 from EC), which has been crystallized and preliminary X-ray crystallographic analysis of yeast arginyl-tRNA synthetase-yeast tRNAArg complexes is available []. ; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 2ZUE_A 2ZUF_A 3FNR_A 1IQ0_A 1F7V_A 1F7U_A 1BS2_A 3GDZ_B.

>cd00671 ArgRS_core catalytic core domain of arginyl-tRNA synthetases

Probab=98.50  E-value=3.7e-08  Score=83.97  Aligned_cols=28  Identities=36%  Similarity=0.616  Sum_probs=26.0

Q ss_pred             eEEEeecCcccccccccccchhhhhccc
Q psy695          139 RVLVDFSSPNIAKEMHVGHLSRSLCHGW  166 (214)
Q Consensus       139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~w  166 (214)
                      +|+|||+||||++++|+||+|+++++|-
T Consensus         1 ~v~ve~~spN~~~~~HiGH~R~~vigD~   28 (212)
T cd00671           1 KILVEFVSANPTGPLHVGHLRNAIIGDS   28 (212)
T ss_pred             CeEEEecCCCCCCCccccccHHHHHHHH
Confidence            5999999999999999999999999873

Arginyl tRNA synthetase (ArgRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. There are at least three subgroups of ArgRS. One type contains both characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The second subtype lacks the KMSKS motif; however, it has a lysine N-terminal to the HIGH motif, which serves as the functional counterpart to the second lysine of the KMSKS motif. A third group, which is found primarily in archaea and a few bacteria, lacks both the KMSKS motif and the HIGH loop lysine.

>cd00802 class_I_aaRS_core catalytic core domain of class I amino acyl-tRNA synthetase

Probab=95.23  E-value=0.0039  Score=49.45  Aligned_cols=25  Identities=24%  Similarity=0.428  Sum_probs=22.1

Q ss_pred             EeecCcccccccccccchhhhhccc
Q psy695          142 VDFSSPNIAKEMHVGHLSRSLCHGW  166 (214)
Q Consensus       142 IEf~Spn~~~~~hvgh~R~~~lg~w  166 (214)
                      |.|++|+|++++|+||+|+.++.+.
T Consensus         1 ~~~~~p~~~~~~HlGh~~~~~~~d~   25 (143)
T cd00802           1 TTFSGITPNGYLHIGHLRTIVTFDF   25 (143)
T ss_pred             CEecCCCCCCCccHhHHHHHHHHHH
Confidence            5789999999999999999887664

Class I amino acyl-tRNA synthetase (aaRS) catalytic core domain. These enzymes are mostly monomers which aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.

>cd00818 IleRS_core catalytic core domain of isoleucyl-tRNA synthetases

Probab=85.52  E-value=0.34  Score=44.16  Aligned_cols=27  Identities=15%  Similarity=0.181  Sum_probs=23.5

Q ss_pred             eEEEeecCcccccccccccchhhhhcc
Q psy695          139 RVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +.+|.-..|++++++|+||+|+.++.|
T Consensus         2 ~f~i~~~pP~vnG~lHiGHa~~~~~~D   28 (338)
T cd00818           2 EFVFHDGPPYANGLPHYGHALNKILKD   28 (338)
T ss_pred             CeEEecCCCCCCCCchHHHHHHHHHHH
Confidence            467788899999999999999988855

Isoleucine amino-acyl tRNA synthetases (IleRS) catalytic core domain . This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. IleRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.

>cd00668 Ile_Leu_Val_MetRS_core catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases

Probab=85.07  E-value=0.37  Score=43.07  Aligned_cols=27  Identities=19%  Similarity=0.366  Sum_probs=22.9

Q ss_pred             eEEEeecCcccccccccccchhhhhcc
Q psy695          139 RVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +.+|--..|++++++|+||+|+.++.|
T Consensus         1 ~~~i~~~pP~~~g~~HiGH~~~~i~~D   27 (312)
T cd00668           1 KFYVTTPPPYANGSLHLGHALTHIIAD   27 (312)
T ss_pred             CEEEecCCCCCCCCcchhHHHHHHHHH
Confidence            367888899999999999999877644

Catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases. These class I enzymes are all monomers. However, in some species, MetRS functions as a homodimer, as a result of an additional C-terminal domain. These enzymes aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. Enzymes in this subfamily share an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids. MetRS has a significantly shorter insertion, which lacks the editing function.

>PRK13208 valS valyl-tRNA synthetase; Reviewed

Probab=84.86  E-value=0.94  Score=45.96  Aligned_cols=29  Identities=21%  Similarity=0.370  Sum_probs=26.1

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++.+|-...||+++.+|+||+++.++.|
T Consensus        37 ~~~f~i~~ppPy~nG~lHiGH~~~~~~~D   65 (800)
T PRK13208         37 KPVYSIDTPPPTVSGSLHIGHVFSYTHTD   65 (800)
T ss_pred             CCcEEEecCcCCCCCCccHHHHHhHHHHH
Confidence            56799999999999999999999988755

>PTZ00419 valyl-tRNA synthetase-like protein; Provisional

Probab=84.83  E-value=0.48  Score=49.30  Aligned_cols=30  Identities=17%  Similarity=0.403  Sum_probs=26.7

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+.+.+|....||+++.+|+||+++.++.|
T Consensus        58 ~~~~f~i~~ppP~~~G~lHiGHa~~~~~~D   87 (995)
T PTZ00419         58 SGKKFVIVLPPPNVTGYLHIGHALTGAIQD   87 (995)
T ss_pred             CCCeEEEEeCCCCCCCCCcHHHHHHHHHHH
Confidence            356799999999999999999999998865

>PF00749 tRNA-synt_1c: tRNA synthetases class I (E and Q), catalytic domain; InterPro: IPR020058 The aminoacyl-tRNA synthetases (6

Probab=84.40  E-value=0.3  Score=44.35  Aligned_cols=18  Identities=28%  Similarity=0.562  Sum_probs=13.1

Q ss_pred             Ccccccccccccchhhhh
Q psy695          146 SPNIAKEMHVGHLSRSLC  163 (214)
Q Consensus       146 Spn~~~~~hvgh~R~~~l  163 (214)
                      .|+|+++||+||+|++++
T Consensus         7 APsPtG~lHiG~~r~al~   24 (314)
T PF00749_consen    7 APSPTGYLHIGHARTALL   24 (314)
T ss_dssp             ---SSSS-BHHHHHHHHH
T ss_pred             CCCCCCCcccchhHHHHH
Confidence            599999999999998876

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Glutamyl-tRNA synthetase (6.1.1.17 from EC) is a class Ic synthetase and shows several similarities with glutaminyl-tRNA synthetase concerning structure and catalytic properties. It is an alpha2 dimer. To date one crystal structure of a glutamyl-tRNA synthetase (Thermus thermophilus) has been solved. The molecule has the form of a bent cylinder and consists of four domains. The N-terminal half (domains 1 and 2) contains the 'Rossman fold' typical for class I synthetases and resembles the corresponding part of Escherichia coli GlnRS, whereas the C-terminal half exhibits a GluRS-specific structure []. ; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0016876 ligase activity, forming aminoacyl-tRNA and related compounds, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 2HZ7_A 2CFO_A 4A91_A 1NZJ_A 1N78_A 1G59_C 2CV2_A 2CV1_A 2CV0_B 1GLN_A ....

>PRK05729 valS valyl-tRNA synthetase; Reviewed

Probab=84.33  E-value=1.1  Score=46.00  Aligned_cols=29  Identities=21%  Similarity=0.390  Sum_probs=26.1

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++.+|-...||+++.+|+||+++.++.|
T Consensus        35 ~~~f~i~~ppP~~~G~lHiGHa~~~~~~D   63 (874)
T PRK05729         35 KKPFSIVIPPPNVTGSLHMGHALNNTLQD   63 (874)
T ss_pred             CCCEEEecCCCCCCCcchHHHHHHHHHHH
Confidence            45699999999999999999999999865

>PF00133 tRNA-synt_1: tRNA synthetases class I (I, L, M and V); InterPro: IPR002300 The aminoacyl-tRNA synthetases (6

Probab=84.19  E-value=0.48  Score=46.56  Aligned_cols=30  Identities=17%  Similarity=0.367  Sum_probs=22.9

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+++.+|-...||+++.+|+||+++.++.|
T Consensus        21 ~~~~f~i~~~PPy~nG~lH~GH~~~~~~~D   50 (601)
T PF00133_consen   21 NKPKFFIHDPPPYANGDLHIGHALNKTIKD   50 (601)
T ss_dssp             TSGEEEEEE---BTSSS-BHHHHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCCcccHHHHHHHHHHH
Confidence            356788899999999999999999999976

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. The class Ia aminoacyl-tRNA synthetases consist of the isoleucyl, methionyl, valyl, leucyl, cysteinyl, and arginyl-tRNA synthetases; the class Ib include the glutamyl and glutaminyl-tRNA synthetases, and the class Ic are the tyrosyl and tryptophanyl-tRNA synthetases [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1OBC_A 2AJH_B 4ARI_A 2AJG_B 4AQ7_D 2AJI_B 4ARC_A 4AS1_A 1QU3_A 1QU2_A ....

>PLN02381 valyl-tRNA synthetase

Probab=83.51  E-value=1.4  Score=46.51  Aligned_cols=30  Identities=20%  Similarity=0.438  Sum_probs=26.7

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+++.+|....||+++.+|+||+++.++.|
T Consensus       126 ~~~~f~i~~ppPy~nG~lHiGHa~~~ti~D  155 (1066)
T PLN02381        126 SKPPFVIVLPPPNVTGALHIGHALTAAIED  155 (1066)
T ss_pred             CCCcEEEEeCCCCCCCCccHHHHHHHHHHH
Confidence            346699999999999999999999999865

>cd00418 GlxRS_core catalytic core domain of glutamyl-tRNA and glutaminyl-tRNA synthetase

Probab=82.94  E-value=0.4  Score=41.96  Aligned_cols=20  Identities=25%  Similarity=0.451  Sum_probs=17.3

Q ss_pred             Ccccccccccccchhhhhcc
Q psy695          146 SPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       146 Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .|+|+++||+||+|++++..
T Consensus         7 APsPtG~lHlG~~r~al~n~   26 (230)
T cd00418           7 APSPTGYLHIGHARTALFNF   26 (230)
T ss_pred             CCCCCCcccHHHHHHHHHHH
Confidence            59999999999999887743

Glutamyl-tRNA synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Glu or Gln, respectively, to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea, cellular organelles, and some bacteria lack GlnRS. In these cases, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme. The discriminating form of GluRS differs from GlnRS and the non-discriminating form of GluRS in their C-terminal anti-codon bind

>cd00817 ValRS_core catalytic core domain of valyl-tRNA synthetases

Probab=82.67  E-value=0.53  Score=43.67  Aligned_cols=27  Identities=22%  Similarity=0.498  Sum_probs=24.0

Q ss_pred             eEEEeecCcccccccccccchhhhhcc
Q psy695          139 RVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++|....|++++.+|+||+++.++.|
T Consensus         2 ~f~i~~~pPy~nG~lHiGH~~~~~~~D   28 (382)
T cd00817           2 VFVIDTPPPNVTGSLHMGHALNNTIQD   28 (382)
T ss_pred             cEEEecCCCCCCCcchHHHHHHHHHHH
Confidence            578888999999999999999988865

Valine amino-acyl tRNA synthetase (ValRS) catalytic core domain. This enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. ValRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.

>PLN02943 aminoacyl-tRNA ligase

Probab=82.48  E-value=0.59  Score=48.59  Aligned_cols=30  Identities=17%  Similarity=0.309  Sum_probs=26.6

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+++.+|.-..||+++.+|+||+++.++.|
T Consensus        86 ~~~~f~i~~pPP~~tG~lHiGHa~~~~~~D  115 (958)
T PLN02943         86 GGDPFVIPMPPPNVTGSLHMGHAMFVTLED  115 (958)
T ss_pred             CCCCEEEecCCCCCCCchhHHHHHHHHHHH
Confidence            345699999999999999999999999865

>cd00812 LeuRS_core catalytic core domain of leucyl-tRNA synthetases

Probab=82.28  E-value=0.66  Score=41.79  Aligned_cols=27  Identities=19%  Similarity=0.273  Sum_probs=23.5

Q ss_pred             eEEEeecCcccccccccccchhhhhcc
Q psy695          139 RVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       139 ~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      |++|-..-|++++++|+||+|+.++.|
T Consensus         1 k~~it~~~Py~ng~~HiGH~~~~v~~D   27 (314)
T cd00812           1 KFYILVMFPYPSGALHVGHVRTYTIGD   27 (314)
T ss_pred             CeEEecCCCCCCCCccccchHHHHHHH
Confidence            467888899999999999999887765

Leucyl tRNA synthetase (LeuRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. In Aquifex aeolicus, the gene encoding LeuRS is split in two, just before the KMSKS motif. Consequently, LeuRS is a heterodimer, which likely superimposes with the LeuRS monomer found in most other organisms. LeuRS has an insertion in the core domain, which is subject to both deletions and rearrangements and thus differs between prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.

>cd00807 GlnRS_core catalytic core domain of glutaminyl-tRNA synthetase

Probab=81.83  E-value=0.47  Score=41.82  Aligned_cols=21  Identities=24%  Similarity=0.282  Sum_probs=17.9

Q ss_pred             Ccccccccccccchhhhhccc
Q psy695          146 SPNIAKEMHVGHLSRSLCHGW  166 (214)
Q Consensus       146 Spn~~~~~hvgh~R~~~lg~w  166 (214)
                      .|+|+++||+||+|++++..+
T Consensus         7 APsPtG~lHlG~~~~al~~~l   27 (238)
T cd00807           7 PPEPNGYLHIGHAKAILLNFG   27 (238)
T ss_pred             CCCCCCcccHHHHHHHHHHHH
Confidence            599999999999998887443

Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Gln to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. GlnRS contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme.

>TIGR00422 valS valyl-tRNA synthetase

Probab=81.19  E-value=2  Score=44.05  Aligned_cols=29  Identities=24%  Similarity=0.446  Sum_probs=26.1

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++.+|-...||+++.+|+||+++.++.|
T Consensus        32 ~~~f~i~~ppPy~nG~lHiGH~~~~~~~D   60 (861)
T TIGR00422        32 KPPFCIDIPPPNVTGSLHIGHALNWSIQD   60 (861)
T ss_pred             CCeEEEEeCCCCCCCCCcHHHhHHHHHHH
Confidence            46799999999999999999999998865

The valyl-tRNA synthetase (ValS) is a class I amino acyl-tRNA ligase and is particularly closely related to the isoleucyl tRNA synthetase.

>TIGR03838 queuosine_YadB glutamyl-queuosine tRNA(Asp) synthetase

Probab=80.89  E-value=0.53  Score=42.13  Aligned_cols=20  Identities=25%  Similarity=0.386  Sum_probs=17.3

Q ss_pred             Ccccccccccccchhhhhcc
Q psy695          146 SPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       146 Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .|+|++.||+||+|++++..
T Consensus         6 APSPtG~lHiG~~rtAL~n~   25 (272)
T TIGR03838         6 APSPSGPLHFGSLVAALGSY   25 (272)
T ss_pred             CCCCCCcccHHHHHHHHHHH
Confidence            59999999999999887743

This protein resembles a shortened glutamyl-tRNA ligase, but its purpose is to modify tRNA(Asp) at a queuosine position in the anticodon rather than to charge a tRNA with its cognate amino acid.

>COG0008 GlnS Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]

Probab=80.54  E-value=0.57  Score=45.13  Aligned_cols=24  Identities=29%  Similarity=0.548  Sum_probs=19.6

Q ss_pred             EEEeecCcccccccccccchhhhhc
Q psy695          140 VLVDFSSPNIAKEMHVGHLSRSLCH  164 (214)
Q Consensus       140 V~IEf~Spn~~~~~hvgh~R~~~lg  164 (214)
                      |+.=| .|+|++.+||||+|++++-
T Consensus        10 v~tRF-APsPtG~LHiG~artAl~N   33 (472)
T COG0008          10 VRTRF-APSPTGYLHIGHARTALLN   33 (472)
T ss_pred             eEEEE-CcCCCCccchHHHHHHHHH
Confidence            55555 4999999999999988773

>TIGR00392 ileS isoleucyl-tRNA synthetase

Probab=80.43  E-value=0.77  Score=46.93  Aligned_cols=29  Identities=17%  Similarity=0.314  Sum_probs=25.8

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++.+|-...|++++.+|+||+++.++.|
T Consensus        35 ~~~f~i~~~pPy~nG~lH~GH~~~~~~~D   63 (861)
T TIGR00392        35 KPEFIFHDGPPYANGSIHLGHALNKILKD   63 (861)
T ss_pred             CCCeEEecCCCCCCCCccHHHHHHHHHHH
Confidence            45688889999999999999999999865

The isoleucyl tRNA synthetase (IleS) is a class I amino acyl-tRNA ligase and is particularly closely related to the valyl tRNA synthetase. This model may recognize IleS from every species, including eukaryotic cytosolic and mitochondrial forms.

>PLN02959 aminoacyl-tRNA ligase

Probab=80.24  E-value=0.87  Score=47.98  Aligned_cols=29  Identities=17%  Similarity=0.221  Sum_probs=26.3

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      ..+..|.+..|++++.+|+||+++.++.|
T Consensus        44 ~~kf~i~~ppPY~NG~lHiGHa~t~t~~D   72 (1084)
T PLN02959         44 GEKFFGNFPYPYMNGLLHLGHAFSLSKLE   72 (1084)
T ss_pred             CCcEEEeCCCCCCCCCcchhhHHHHHHHH
Confidence            35689999999999999999999999966

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	214
2zue_A	629	Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase	99.94
1f7u_A	607	Arginyl-tRNA synthetase; RNA-protein complex, amin	99.91
1iq0_A	592	Arginyl-tRNA synthetase; riken structural genomics	99.9
3gdz_A	109	Arginyl-tRNA synthetase; klebsiella pneumoniae sub	99.86
3fnr_A	464	Arginyl-tRNA synthetase; transferase, PSI-2, NYSGX	99.16
3al0_C	592	Glutamyl-tRNA(Gln) amidotransferase subunit C, GL	97.11
1wkb_A	810	Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, e	95.48
2o5r_A	481	Glutamyl-tRNA synthetase 1; TM1351, EC 6.1.1.17, g	95.35
2d5b_A	500	Methionyl-tRNA synthetase; rossmann fold, class 1A	95.1
2csx_A	497	Methionyl-tRNA synthetase; ligase, riken structura	94.91
3kfl_A	564	Methionyl-tRNA synthetase; parasite, aminoacyl-tRN	94.79
1li5_A	461	Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys	93.6
4dlp_A	536	Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA	92.97
3c8z_A	414	Cysteinyl-tRNA synthetase; cysteine ligase, rossma	92.43
2x1l_A	524	Methionyl-tRNA synthetase; nucleotide-binding, pro	91.13
1irx_A	523	Lysyl-tRNA synthetase; beta sandwitch, zinc-bindin	89.98
3tqo_A	462	Cysteinyl-tRNA synthetase; protein synthesis, liga	89.14
3h99_A	560	Methionyl-tRNA synthetase; rossmann fold, aminoacy	88.74
1ile_A	821	Ilers, isoleucyl-tRNA synthetase; aminoacyl-tRNA s	88.31
2v0c_A	878	Aminoacyl-tRNA synthetase; ligase, nucleotide-bind	84.49
1rqg_A	722	Methionyl-tRNA synthetase; translation, dimerizati	84.42
4arc_A	880	Leucine--tRNA ligase; ligase-RNA complex, nucleoti	83.76
1gax_A	862	Valrs, valyl-tRNA synthetase; protein-RNA complex,	83.67
1ffy_A	917	Isoleucyl-tRNA synthetase; protein-RNA complex, me	82.56
1nzj_A	298	Hypothetical protein YADB; Zn cluster, glutamyl T-	82.05
1wz2_A	967	Leucyl-tRNA synthetase; ligase, riken structural g	80.99

>2zue_A Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase, nucleotide-binding, protein biosynthesis, ligase/RNA complex; HET: ANP; 2.00A {Pyrococcus horikoshii} PDB: 2zuf_A

Probab=99.94  E-value=1.8e-27  Score=229.80  Aligned_cols=139  Identities=25%  Similarity=0.450  Sum_probs=118.1

Q ss_pred             ccHHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhc
Q psy695            9 MSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELA   88 (214)
Q Consensus         9 m~i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~   88 (214)
                      |++++.+...|..++....... ...+.|+.|+++   .|||||||+||.|||.++     ++|++||+.|++.    |.
T Consensus         3 ~~~~~~i~~~~~~a~~~~~~~~-~~~~~v~~~~~~---~~GD~~~n~a~~lak~~~-----~~P~~iA~~i~~~----l~   69 (629)
T 2zue_A            3 MEIRESVKERIEEIIKEIAPQW-EGEIELKETPDP---KLGDFGTPIAFKLAKLLK-----RPPIEIAEKIVEK----LK   69 (629)
T ss_dssp             CTTHHHHHHHHHHHHHHHCTTC-CCCCCCEECSSG---GGCSEEECHHHHHHHHHT-----SCHHHHHHHHHHH----HT
T ss_pred             HHHHHHHHHHHHHHHHhcCccc-cccceeeCCCCC---CCCceeHHHHHHHHHHcC-----CCHHHHHHHHHHH----hh
Confidence            5778888888888888764322 234568888888   999999999999999997     8999999999999    75


Q ss_pred             c--CCccccccceeEEecCeEEEEEeCHHHHH-HHHHHHHHcCCCCCC--CCCCeeEEEeecCcccccccccccchhhhh
Q psy695           89 T--NPSLAKVIDKIEVAKPGFVNVFLSRVYAG-EQIKDIIVNGVQPPT--LNKKLRVLVDFSSPNIAKEMHVGHLSRSLC  163 (214)
Q Consensus        89 ~--~~~~~~~i~~v~iagpGFIN~~l~~~~~~-~~l~~i~~~~~~~~~--~~~~~~V~IEf~Spn~~~~~hvgh~R~~~l  163 (214)
                      .  .    ++|++++++| |||||+|++.++. ..+..++..+..||.  .+++++|+|||+||||++++||||+|++++
T Consensus        70 ~~~~----~~i~~vevag-GfiN~~l~~~~~~~~~~~~i~~~~~~yG~~~~~~~~~V~ve~~spN~~~~~HiGH~Rs~ii  144 (629)
T 2zue_A           70 LNLP----EGIKDVKAVN-GYINVFIDYPHFARILINDILAKGDRFGSSEIGKGKKVIVEHTSVNPTKPLHMGHARNAIL  144 (629)
T ss_dssp             TSCC----TTEEEEEEET-TEEEEEECHHHHHHHHHHHHHHHGGGTTCCCTTTTCEEEEECCCCCTTSCCBHHHHHHHHH
T ss_pred             hccC----CCeEEEEEcC-CEEEEEECHHHHHHHHHHHHHhcchhcCCCccCCCCEEEEEeeCCCCCCCCccchhHHHHH
Confidence            4  4    6799999999 9999999999555 567777877888875  357889999999999999999999999998


Q ss_pred             cc
Q psy695          164 HG  165 (214)
Q Consensus       164 g~  165 (214)
                      |+
T Consensus       145 gD  146 (629)
T 2zue_A          145 GD  146 (629)
T ss_dssp             HH
T ss_pred             HH
Confidence            76

>1f7u_A Arginyl-tRNA synthetase; RNA-protein complex, aminoacylation; HET: PSU 1MG 2MG H2U M2G 5MC 5MU 1MA ARG; 2.20A {Saccharomyces cerevisiae} SCOP: a.27.1.1 c.26.1.1 d.67.2.1 PDB: 1bs2_A* 1f7v_A*

Probab=99.91  E-value=4.2e-25  Score=212.57  Aligned_cols=139  Identities=24%  Similarity=0.379  Sum_probs=115.2

Q ss_pred             cccHHHHHHHHHHHHHHHhCCcc-CCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhh
Q psy695            8 RMSVRDYLSDVFTHAVQVAFPEL-GDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSE   86 (214)
Q Consensus         8 ~m~i~~~~~~~i~~aI~~a~~~~-~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~e   86 (214)
                      .|++.+.++..|..+|..+++.. ......|+.|+++   .||||+||++|  +|.++     ++|++||+.|++.    
T Consensus        28 ~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~v~~~~~~---~~GD~a~~~~~--~k~~~-----~~P~~iA~~i~~~----   93 (607)
T 1f7u_A           28 DVNIVDLMRNYISQELSKISGVDSSLIFPALEWTNTM---ERGDLLIPIPR--LRIKG-----ANPKDLAVQWAEK----   93 (607)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHCCCHHHHGGGCEECSSG---GGCSEEEEGGG--GCCTT-----CCHHHHHHHHHHT----
T ss_pred             cccHHHHHHHHHHHHHHHHhCCCccccccceeCCCCC---CCCchhhHHHH--HHhcC-----CCHHHHHHHHHHh----
Confidence            57899999999999999986521 1123357788888   99999998655  26554     8999999999999    


Q ss_pred             hccCCccccccceeEEecCeEEEEEeCHHHHHH-HHHHHHHcCCCCCC--CCCCeeEEEeecCcccccccccccchhhhh
Q psy695           87 LATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGE-QIKDIIVNGVQPPT--LNKKLRVLVDFSSPNIAKEMHVGHLSRSLC  163 (214)
Q Consensus        87 l~~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~-~l~~i~~~~~~~~~--~~~~~~V~IEf~Spn~~~~~hvgh~R~~~l  163 (214)
                      |+..    ++|++++++|| ||||+|++.++.+ .+..++..+..||.  .+++++|+|||+||||++||||||+|++++
T Consensus        94 l~~~----~~i~~ve~ag~-fiN~~l~~~~~~~~~~~~i~~~~~~~G~~~~~~~~~V~ve~~spN~~~plHvGHlRs~ii  168 (607)
T 1f7u_A           94 FPCG----DFLEKVEANGP-FIQFFFNPQFLAKLVIPDILTRKEDYGSCKLVENKKVIIEFSSPNIAKPFHAGHLRSTII  168 (607)
T ss_dssp             CCCT----TTEEEEEEETT-EEEEEECHHHHHHHHHHHHHHHGGGTTCCCCSSCCEEEEECCCCBTTSCCBGGGHHHHHH
T ss_pred             cccc----CceeEEEEcCC-EEEEEECHHHHHHHHHHHHHhhhhhcCCCcccCCCeEEEEecCCCCCCCCccchHHHHHH
Confidence            7654    68999999995 9999999999996 56667777778875  357889999999999999999999999998


Q ss_pred             cc
Q psy695          164 HG  165 (214)
Q Consensus       164 g~  165 (214)
                      |+
T Consensus       169 GD  170 (607)
T 1f7u_A          169 GG  170 (607)
T ss_dssp             HH
T ss_pred             HH
Confidence            66

>1iq0_A Arginyl-tRNA synthetase; riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase; 2.30A {Thermus thermophilus} SCOP: a.27.1.1 c.26.1.1 d.67.2.1

Probab=99.90  E-value=1.4e-24  Score=208.05  Aligned_cols=128  Identities=26%  Similarity=0.306  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhccC
Q psy695           11 VRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATN   90 (214)
Q Consensus        11 i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~~~   90 (214)
                      +++.+...|..++......   ..+.|+.|+++   .+|||||| +|.|||.+|     ++|++||+.|++.    |...
T Consensus         2 ~~~~~~~~~~~~~~~~~~~---~~~~v~~~~~~---~~gD~~~~-~~~lak~~~-----~~P~~iA~~i~~~----l~~~   65 (592)
T 1iq0_A            2 LRRALEEAIAQALKEMGVP---VRLKVARAPKD---KPGDYGVP-LFALAKELR-----KPPQAIAQELKDR----LPLP   65 (592)
T ss_dssp             CHHHHHHHHHHHHHTTSCC---CCCCCEECSTT---SSCSEEEE-CSHHHHHTT-----SCHHHHHHHHHHT----CCCC
T ss_pred             hHHHHHHHHHHHHHhcCCC---ccceeeCCCCC---CCCcchhh-HHHHHHHcC-----CCHHHHHHHHHHh----cccc
Confidence            4566777777777754221   34557888888   99999999 599999997     8999999999999    7644


Q ss_pred             CccccccceeEEecCeEEEEEeCHHHHHHH-HHHHHHcCCCCCCCCCCeeEEEeecCcccccccccccchhhhhcc
Q psy695           91 PSLAKVIDKIEVAKPGFVNVFLSRVYAGEQ-IKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus        91 ~~~~~~i~~v~iagpGFIN~~l~~~~~~~~-l~~i~~~~~~~~~~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                          ++|++++++| |||||+|++.++... +..++..+..||      +|+|||+||||++++||||+|++++|+
T Consensus        66 ----~~~~~~~~~g-gfiN~~l~~~~~~~~~~~~~~~~~~~~g------~v~ve~~spn~~~~~HiGH~R~~iigD  130 (592)
T 1iq0_A           66 ----EFVEEAVPVG-GYLNFRLRTEALLREALRPKAPFPRRPG------VVLVEHTSVNPNKELHVGHLRNIALGD  130 (592)
T ss_dssp             ----TTEEEEEEET-TEEEEEECHHHHHHHHHSCCCCCCCEEE------EEEEECCCCCTTSCCBHHHHHHHHHHH
T ss_pred             ----CcEEEEEEcC-CEEEEEECHHHHHHHHHHHHHhcCcccC------eEEEEeeCCCCCCCCcchHHHHHHHHH
Confidence                6899999999 999999999966654 444444555554      899999999999999999999999765

>3gdz_A Arginyl-tRNA synthetase; klebsiella pneumoniae subsp. pneumo 78578, structural genomics, PSI-2; HET: MSE; 2.20A {Klebsiella pneumoniae subsp}

Probab=99.86  E-value=2.8e-21  Score=148.64  Aligned_cols=104  Identities=28%  Similarity=0.513  Sum_probs=89.8

Q ss_pred             ccccHHHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhh
Q psy695            7 DRMSVRDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSE   86 (214)
Q Consensus         7 ~~m~i~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~e   86 (214)
                      ..|++++.+...|..++....... ...+.|+.|+++   .|||||||+||.|||.+|     ++|++||+.|+..    
T Consensus         2 ~~M~i~~~l~~~i~~al~~~~~~~-~~~~~ve~p~~~---~~GD~a~n~a~~lak~~~-----~~P~~iA~~i~~~----   68 (109)
T 3gdz_A            2 NAMNIQALLSEKVSQALIAAGAPA-DCEPQVRQSAKV---QFGDYQANGVMAVAKKLG-----MAPRQLAEQVLSH----   68 (109)
T ss_dssp             CCCCHHHHHHHHHHHHHHHTTCCT-TCCCCEEECSSG---GGCSEEECCHHHHHHHTT-----SCHHHHHHHHHHH----
T ss_pred             CccCHHHHHHHHHHHHHHHcCCCc-cCCceeecCCCC---CcceeecHHHHHHHHHhC-----CCHHHHHHHHHHh----
Confidence            369999999999999998763211 234677888888   999999999999999997     8999999999999    


Q ss_pred             hccCCccccccceeEEecCeEEEEEeCHHHHHHHHHHHHHc
Q psy695           87 LATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQIKDIIVN  127 (214)
Q Consensus        87 l~~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~~l~~i~~~  127 (214)
                      |...    ++|++++++|||||||+|++.|+.+.|..|+..
T Consensus        69 l~~~----~~i~~vevagpGFINf~l~~~~~~~~l~~il~~  105 (109)
T 3gdz_A           69 LDLN----GIANKVEIAGPGFINIFLDPAFLADNVNRALQS  105 (109)
T ss_dssp             CCCT----TTEEEEEEETTTEEEEEECHHHHHHHHHHHHTT
T ss_pred             cCcC----CcEeEEEEeCCCeEEEEECHHHHHHHHHHHHhc
Confidence            7655    689999999999999999999999999998854

>3fnr_A Arginyl-tRNA synthetase; transferase, PSI-2, NYSGXRC, struc genomics, protein structure initiative; 2.20A {Campylobacter jejuni}

Probab=99.16  E-value=1.4e-11  Score=115.35  Aligned_cols=56  Identities=20%  Similarity=0.303  Sum_probs=48.9

Q ss_pred             EEeCHHHHHHHHHHHHHcCCCCCCC-CCCeeEEEeecCcccccccccccchhhhhcc
Q psy695          110 VFLSRVYAGEQIKDIIVNGVQPPTL-NKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       110 ~~l~~~~~~~~l~~i~~~~~~~~~~-~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      |+|++.|+...|..|+..+..||.. .++++|+|||+||||++|||+||+|++++|+
T Consensus         1 ~~l~~~~~~~~l~~i~~~~~~yG~~~~~~~~v~vE~ss~n~~~~~h~gh~r~~~~gd   57 (464)
T 3fnr_A            1 MSLSKTFLNELANQALTNPNDFTKGEKKQESFLLEYVSANPTGPLHIGHARGAVFGD   57 (464)
T ss_dssp             --CCHHHHHHHHHHHHHSGGGTTCCCCCSCEEEEECCCCCSSSSCBGGGHHHHHHHH
T ss_pred             CEECHHHHHHHHHHHHHhHHhcCCCCCCCCEEEEEeCCCCCCCCCccchhHHHHHHH
Confidence            6899999999999999888888763 2688999999999999999999999999865

>3al0_C Glutamyl-tRNA(Gln) amidotransferase subunit C, GL tRNA synthetase 2; protein-RNA complex, ligase-RNA complex; HET: GSU; 3.37A {Thermotoga maritima}

Probab=97.11  E-value=0.00013  Score=70.11  Aligned_cols=54  Identities=20%  Similarity=0.162  Sum_probs=29.8

Q ss_pred             EEeCHHHHHHHHHHHHHcCCCCCCCCCCeeEEEeecCcccccccccccchhhhhcc
Q psy695          110 VFLSRVYAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       110 ~~l~~~~~~~~l~~i~~~~~~~~~~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      ..-...|+...|..++..|..|+.. ..++|++.|+ |+|+++||+||+|++++..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~v~~RFa-PsPTG~LHiG~artAl~n~  154 (592)
T 3al0_C          101 SGSGSMFITGAFFDILEVGPKKIRR-CFELVRVRFA-PSPTGHLHVGGARTALFNW  154 (592)
T ss_dssp             -------------------CCCCCC-CCCCCEEEEC-CCSSSCCBHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHcChhhccc-CCCeEEEEEC-CCCCCCccHHHHHHHHHHH
Confidence            4445668888999999999888764 3467999999 9999999999999888754

>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino acid, aminoacylation, trnaLeu, structural genomics; 2.05A {Pyrococcus horikoshii}

Probab=95.48  E-value=0.0034  Score=61.73  Aligned_cols=29  Identities=17%  Similarity=0.354  Sum_probs=26.9

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++++|.+.+||+++++|+||+|+.+++|
T Consensus        33 ~~~~~i~~~~Py~nG~lHiGH~~~~~~~D   61 (810)
T 1wkb_A           33 EKKFYITVAFPYLSGHLHVGHARTYTIPD   61 (810)
T ss_dssp             GGEEEEEECCCBTTSCCBHHHHHHHHHHH
T ss_pred             CCcEEEEeCCCCCCCCCccccchhHHHHH
Confidence            46899999999999999999999999866

>2o5r_A Glutamyl-tRNA synthetase 1; TM1351, EC 6.1.1.17, glutamate-T ligase 1, glurs 1, structural genomics, joint center for ST genomics, JCSG; 2.34A {Thermotoga maritima}

Probab=95.35  E-value=0.0019  Score=60.54  Aligned_cols=31  Identities=16%  Similarity=0.052  Sum_probs=25.3

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcccC
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHGWG  167 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~w~  167 (214)
                      .-.|++.+.+|||+++||+||+|+++++...
T Consensus        10 ~~~vv~~RfaPsPTG~LHiG~aRtAl~n~~~   40 (481)
T 2o5r_A           10 HHHMVRVRFAPSPTGFLHVGGARTALFNFLF   40 (481)
T ss_dssp             ---CCEEEECCCCCSCCBHHHHHHHHHHHHH
T ss_pred             cceEEEEEECCCCCCCcCHHHHHHHHHHHHH
Confidence            3468999999999999999999999886543

>2d5b_A Methionyl-tRNA synthetase; rossmann fold, class 1A AARS, isomerase, structural genomics, NPPSFA; 1.80A {Thermus thermophilus} SCOP: a.27.1.1 c.26.1.1 PDB: 1woy_A 1a8h_A 2d54_A

Probab=95.10  E-value=0.0049  Score=56.96  Aligned_cols=28  Identities=18%  Similarity=0.176  Sum_probs=26.1

Q ss_pred             eeEEEeecCcccccccccccchhhhhcc
Q psy695          138 LRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++.|.+.+|||++++|+||+|+.+++|
T Consensus         3 ~~~~i~~p~py~~g~lHiGH~r~~~~~D   30 (500)
T 2d5b_A            3 KVFYVTTPIYYVNAEPHLGHAYTTVVAD   30 (500)
T ss_dssp             CEEEEECCCEETTSCCCHHHHHHHHHHH
T ss_pred             CcEEEecCCCCCCCCcchhhHHHHHHHH
Confidence            5799999999999999999999999866

>2csx_A Methionyl-tRNA synthetase; ligase, riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase/RNA complex; 2.70A {Aquifex aeolicus} PDB: 2ct8_A*

Probab=94.91  E-value=0.0055  Score=56.68  Aligned_cols=29  Identities=14%  Similarity=0.172  Sum_probs=26.8

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++++|...+|||++++|+||+|+.+++|
T Consensus         4 ~~~~~i~~p~py~ng~lHiGH~~~~~~~D   32 (497)
T 2csx_A            4 MKKFYVTTPIYYVNDVPHLGHAYTTIAAD   32 (497)
T ss_dssp             SCEEEEEEEEEETTSCCCHHHHHHHHHHH
T ss_pred             CCcEEEecCCCCCCCccchhhHHHHHHHH
Confidence            46899999999999999999999998866

>3kfl_A Methionyl-tRNA synthetase; parasite, aminoacyl-tRNA synthetase, tRNA ligase metrs, methionine, translation, ATP-binding; HET: ME8; 2.00A {Leishmania major}

Probab=94.79  E-value=0.0058  Score=57.86  Aligned_cols=31  Identities=16%  Similarity=0.212  Sum_probs=27.7

Q ss_pred             CCCeeEEEeecCcccccccccccchhhhhcc
Q psy695          135 NKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       135 ~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+++++.|...+|+|++++||||+|+.+++|
T Consensus        23 ~~~~~~~i~~~~py~ng~lHiGH~r~~v~~D   53 (564)
T 3kfl_A           23 KKQKVFFATTPIYYVNASPHIGHVYSTLIVD   53 (564)
T ss_dssp             -CCCCEEEEEEEEECSSCCCHHHHHHHHHHH
T ss_pred             cCCCCEEEeCCCCCCCCCCCcchhHHHHHHH
Confidence            3567899999999999999999999999876

>1li5_A Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys; cysteine, E.coli, ligase; 2.30A {Escherichia coli} SCOP: a.27.1.1 c.26.1.1 PDB: 1li7_A 1u0b_B

Probab=93.60  E-value=0.02  Score=53.05  Aligned_cols=30  Identities=13%  Similarity=0.076  Sum_probs=26.8

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+.+|.+.+++|++.+++||||+|+.++.+
T Consensus        19 ~~~~v~~yv~gPt~y~~~HiGHar~~v~~D   48 (461)
T 1li5_A           19 HAGEVGMYVCGITVYDLCHIGHGRTFVAFD   48 (461)
T ss_dssp             STTEEEEEECCCBSSSCCBHHHHHHHHHHH
T ss_pred             CCCCeeEEEcCCcCCCCCcccccHHHHHHH
Confidence            356799999999999999999999998865

>4dlp_A Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA synthetase, class IA:methionyl-tRNA...; structural genomics; 2.65A {Brucella melitensis biovar abortus 230ORGANISM_TAXID}

Probab=92.97  E-value=0.028  Score=52.59  Aligned_cols=30  Identities=10%  Similarity=0.174  Sum_probs=26.6

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++++.|-...|+|++++|+||+|+.+++|
T Consensus        23 ~~~~~~i~~p~pypng~lHiGH~r~~v~~D   52 (536)
T 4dlp_A           23 SREKYYITTAIAYPNGKPHIGHAYELIATD   52 (536)
T ss_dssp             -CCEEEEEECCBCCSSCCCHHHHHHHHHHH
T ss_pred             CCCCEEEeCCCCCCCCCcCcchhHHHHHHH
Confidence            345899999999999999999999998865

>3c8z_A Cysteinyl-tRNA synthetase; cysteine ligase, rossmann fold, Cys-SA inhibitor, zinc binding, ATP-binding, aminoacyl-tRNA synthetase; HET: 5CA 1PE EPE; 1.60A {Mycobacterium smegmatis}

Probab=92.43  E-value=0.037  Score=50.35  Aligned_cols=29  Identities=14%  Similarity=0.109  Sum_probs=26.2

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +.+|.+..++|++.+++||||+|+.+++|
T Consensus        37 ~~~v~~y~~gPt~yg~~HiGHar~~v~~D   65 (414)
T 3c8z_A           37 GPTATMYVCGITPYDATHLGHAATYLTFD   65 (414)
T ss_dssp             CSEEEEEECCCCTTSCCBHHHHHHHHHHH
T ss_pred             CCCceEEeCCCcCCCCcCccccHHHHHHH
Confidence            45689999999999999999999999876

>2x1l_A Methionyl-tRNA synthetase; nucleotide-binding, protein biosynthesis, ligase, aminoacyl- synthetase; HET: ADN CXS; 2.30A {Mycobacterium smegmatis} PDB: 2x1m_A*

Probab=91.13  E-value=0.062  Score=49.90  Aligned_cols=30  Identities=10%  Similarity=0.073  Sum_probs=26.3

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      ..+++.|--.-||+++++|+||+|+.+++|
T Consensus        10 ~~~~~~i~t~~P~~ng~lHiGHa~~~i~~D   39 (524)
T 2x1l_A           10 GSEPFYITTAIAYPNGVPHIGHAYEYIATD   39 (524)
T ss_dssp             -CCEEEEEECCBCCSSCCCHHHHHHHHHHH
T ss_pred             CCCCEEEeeCCCCCCCCcccchhHHHHHHH
Confidence            456799999999999999999999999876

>1irx_A Lysyl-tRNA synthetase; beta sandwitch, zinc-binding structure, rossmann fold, alpha-helix CAGE; 2.60A {Pyrococcus horikoshii} SCOP: a.97.1.2 c.26.1.1

Probab=89.98  E-value=0.1  Score=48.73  Aligned_cols=40  Identities=18%  Similarity=0.158  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHcCCCCCCCCCCeeEEEeecC---cccccccccccchhhhhcc
Q psy695          116 YAGEQIKDIIVNGVQPPTLNKKLRVLVDFSS---PNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       116 ~~~~~l~~i~~~~~~~~~~~~~~~V~IEf~S---pn~~~~~hvgh~R~~~lg~  165 (214)
                      |....+..++..+..      ++    +|++   |+|++++||||+|++++.+
T Consensus         4 W~~~~a~~~~~~~~~------~~----~yv~~tgPsPtG~lHIGhaR~al~~D   46 (523)
T 1irx_A            4 WADYIADKIIRERGE------KE----KYVVESGITPSGYVHVGNFRELFTAY   46 (523)
T ss_dssp             HHHHHHHHHHHHSCC------CS----EEEEEEEECCSSCCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhcCC------CC----eEEECCCCCCCCCcccCCcHHHHHHH
Confidence            444556666654321      22    4666   9999999999999988764

>3tqo_A Cysteinyl-tRNA synthetase; protein synthesis, ligase; 2.30A {Coxiella burnetii}

Probab=89.14  E-value=0.12  Score=48.21  Aligned_cols=30  Identities=17%  Similarity=0.190  Sum_probs=26.7

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+.+|.+-+++|++.+++|+||+|+.++.|
T Consensus        22 ~~~~v~~YvcGPtvy~~~HIGHaR~~v~~D   51 (462)
T 3tqo_A           22 ESGKVKLYVCGMTVYDYMHIGHGRSWIIFD   51 (462)
T ss_dssp             STTEEEEEECCCBTTSCCBHHHHHHHHHHH
T ss_pred             CCCeEEEEeCCCcCCCCCchhhhHHHHHHH
Confidence            456799999999999999999999988765

>3h99_A Methionyl-tRNA synthetase; rossmann fold, aminoacyl-tRNA synthetase, ATP-binding, ligas binding, nucleotide-binding, protein biosynthesis; HET: CIT; 1.40A {Escherichia coli} PDB: 3h97_A* 3h9b_A* 1f4l_A 3h9c_A* 1pfv_A* 1pfu_A 1p7p_A* 1pfw_A* 1pfy_A* 1pg0_A* 1pg2_A* 1qqt_A 1mea_A 1med_A

Probab=88.74  E-value=0.13  Score=48.30  Aligned_cols=31  Identities=23%  Similarity=0.430  Sum_probs=26.3

Q ss_pred             CCCeeEEEeecCcccccccccccchhhhhcc
Q psy695          135 NKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       135 ~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +.++++.|=-..|+|++++|+||+|+.+++|
T Consensus        15 ~~~~~~~v~~~~py~ng~lHiGH~r~~v~~D   45 (560)
T 3h99_A           15 QVAKKILVTCASPYANGSIHLGHMLEHIQAD   45 (560)
T ss_dssp             --CCEEEEEECCCBTTSCCBHHHHHHHHHHH
T ss_pred             CCCCcEEEeCCCCCCCCCcchhhHHHHHHHH
Confidence            3467889988899999999999999999876

>1ile_A Ilers, isoleucyl-tRNA synthetase; aminoacyl-tRNA synthetase, riken structural genomics/proteom initiative, RSGI, structural genomics; 2.50A {Thermus thermophilus} SCOP: a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1jzq_A* 1jzs_A*

Probab=88.31  E-value=0.088  Score=51.92  Aligned_cols=29  Identities=24%  Similarity=0.179  Sum_probs=25.6

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++.+|-...||+++.+|+||+|+.+++|
T Consensus        37 ~~~f~i~~~pPy~nG~lHiGH~~~~~~~D   65 (821)
T 1ile_A           37 GPRYTVYEGPPTANGLPHVGHAQARSYKD   65 (821)
T ss_dssp             SCBCCBCCCCCCTTSCCCTTHHHHHHHHH
T ss_pred             CCcEEEecCCCCCCCCCchhhhHhHHHHH
Confidence            45678888999999999999999999866

>2v0c_A Aminoacyl-tRNA synthetase; ligase, nucleotide-binding, protein biosynthesis; HET: LMS ANZ; 1.85A {Thermus thermophilus} PDB: 1h3n_A* 1obc_A* 1obh_A* 2bte_A* 2byt_A 2v0g_A*

Probab=84.49  E-value=0.27  Score=49.01  Aligned_cols=29  Identities=17%  Similarity=0.285  Sum_probs=22.5

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++.++++ ..|+|++.+|+||+|+.+++|
T Consensus        32 ~~k~~v~~-~~Py~nG~lHiGHa~~~~~~D   60 (878)
T 2v0c_A           32 RGKQYVLV-MFPYPSGDLHMGHLKNYTMGD   60 (878)
T ss_dssp             --EEEEEE-CCCCCSSCCBHHHHHHHHHHH
T ss_pred             CCCEEEEC-CCCCCCCCcchhhhHHHHHHH
Confidence            34445555 589999999999999999866

>1rqg_A Methionyl-tRNA synthetase; translation, dimerization, ligase; 2.90A {Pyrococcus abyssi} SCOP: a.27.1.1 c.26.1.1 g.41.1.1

Probab=84.42  E-value=0.29  Score=47.65  Aligned_cols=28  Identities=29%  Similarity=0.417  Sum_probs=24.7

Q ss_pred             eeEEEeecCcccccccccccchh-hhhcc
Q psy695          138 LRVLVDFSSPNIAKEMHVGHLSR-SLCHG  165 (214)
Q Consensus       138 ~~V~IEf~Spn~~~~~hvgh~R~-~~lg~  165 (214)
                      ++++|-...|++++.+|+||+|+ .++.|
T Consensus         2 ~~~~itt~~Py~nG~lHiGHa~~~~i~~D   30 (722)
T 1rqg_A            2 VRYMVTSALPYANGPIHAGHLAGAYLPAD   30 (722)
T ss_dssp             CEEEEEECCCBTTSCCBHHHHHHHTHHHH
T ss_pred             CCEEEecCCCCCCCchhhchhhccHHHHH
Confidence            47899999999999999999998 67644

>4arc_A Leucine--tRNA ligase; ligase-RNA complex, nucleotide-binding, protein biosynthesis I aminoacyl-tRNA synthetase, ATP-binding; 2.00A {Escherichia coli} PDB: 4aq7_A 4ari_A* 4as1_A*

Probab=83.76  E-value=0.95  Score=45.26  Aligned_cols=53  Identities=9%  Similarity=-0.030  Sum_probs=32.8

Q ss_pred             CHHHHHHHHHHHHHcCCCCCC-C-CCCeeEEEeecCcccccccccccchhhhhcc
Q psy695          113 SRVYAGEQIKDIIVNGVQPPT-L-NKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       113 ~~~~~~~~l~~i~~~~~~~~~-~-~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      ++..+.......-.....|.. . ..+++..|=-..|+|++++|+||+|+.+++|
T Consensus        26 ~~~~iE~kw~~~W~~~~~f~~~~~~~~~~~~v~~~~PypnG~lHiGHa~~~~~~D   80 (880)
T 4arc_A           26 RPEEIESKVQLHWDEKRTFEVTEDESKEKYYCLSMLPYPSGRLHMGHVRNYTIGD   80 (880)
T ss_dssp             CHHHHHHHHHHHHHHTTTTCCCCCTTSCEEEEEECCCCCCSSCCHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHhcCCcccCCcCCCCCEEEEcCCCCCCCCcchhhhHHHHHHH
Confidence            444555444443333334422 1 1234555555789999999999999999866

>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold, coiled coil, riken structural genomics/proteomics initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus} SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A* 1iyw_A

Probab=83.67  E-value=0.35  Score=48.19  Aligned_cols=30  Identities=20%  Similarity=0.379  Sum_probs=26.7

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+++.+|-...||+++.+|+||+++.++.|
T Consensus        32 ~~~~f~i~~ppPy~nG~lHiGHa~~~~l~D   61 (862)
T 1gax_A           32 GKPPFVIFMPPPNVTGSLHMGHALDNSLQD   61 (862)
T ss_dssp             CSCEEEEECCCCBSSSCCCHHHHHHHHHHH
T ss_pred             CCCcEEEEcCCCCCCCCcchhhhHHHHHHH
Confidence            356799999999999999999999999865

>1ffy_A Isoleucyl-tRNA synthetase; protein-RNA complex, metal IONS, editing tRNA synthetase, double-sieve, ligase/RNA, mupiroci; HET: MRC; 2.20A {Staphylococcus aureus} SCOP: a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1qu2_A* 1qu3_A*

Probab=82.56  E-value=0.27  Score=49.31  Aligned_cols=29  Identities=14%  Similarity=0.303  Sum_probs=26.0

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++.+|-...|++++.+|+||+++.+++|
T Consensus        47 ~~~f~i~~~pPY~nG~lHiGHa~n~~~~D   75 (917)
T 1ffy_A           47 NETFILHDGPPYANGNLHMGHALNKILKD   75 (917)
T ss_dssp             SCBCCEECCCCBSSSCCCHHHHHHHHHHH
T ss_pred             CCceeeCCCCCCCCCcchHHHHHHHHHHH
Confidence            45688999999999999999999999866

>1nzj_A Hypothetical protein YADB; Zn cluster, glutamyl T-RNA synthetase, structural genomics, unknown function; 1.50A {Escherichia coli} SCOP: c.26.1.1 PDB: 2zlz_A* 4a91_A*

Probab=82.05  E-value=0.3  Score=42.81  Aligned_cols=18  Identities=33%  Similarity=0.567  Sum_probs=16.2

Q ss_pred             Ccccccccccccchhhhh
Q psy695          146 SPNIAKEMHVGHLSRSLC  163 (214)
Q Consensus       146 Spn~~~~~hvgh~R~~~l  163 (214)
                      .|+|++++|+||+|++++
T Consensus        11 APsPtG~LHiG~~rtal~   28 (298)
T 1nzj_A           11 APSPSGELHFGSLIAALG   28 (298)
T ss_dssp             CCCTTSCCCHHHHHHHHH
T ss_pred             CcCCCCCccHHHHHHHHH
Confidence            599999999999997775

>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural genomics/proteomics initiativ structural genomics, ligase-RNA complex; 3.21A {Pyrococcus horikoshii}

Probab=80.99  E-value=0.28  Score=49.31  Aligned_cols=28  Identities=18%  Similarity=0.353  Sum_probs=25.7

Q ss_pred             eeEEEeecCcccccccccccchhhhhcc
Q psy695          138 LRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      ++.+|-...|++++.+|+||+++.+++|
T Consensus        34 ~kf~i~~~pPy~nG~lHiGH~~~~~~~D   61 (967)
T 1wz2_A           34 KKFYITVAFPYLSGHLHVGHARTYTIPD   61 (967)
T ss_dssp             GCCBEEECCCBCSSCCBHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCCCCCcchhhhHHHHHHH
Confidence            5788999999999999999999999865

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	214
d1iq0a2	370	c.26.1.1 (A:97-466) Arginyl-tRNA synthetase (ArgRS	2e-07
d1f7ua2	348	c.26.1.1 (A:136-483) Arginyl-tRNA synthetase (ArgR	5e-07
d1iq0a3	96	d.67.2.1 (A:1-96) Arginyl-tRNA synthetase (ArgRS),	3e-06
d1f7ua3	134	d.67.2.1 (A:2-135) Arginyl-tRNA synthetase (ArgRS)	7e-04

>d1iq0a2 c.26.1.1 (A:97-466) Arginyl-tRNA synthetase (ArgRS) {Thermus thermophilus [TaxId: 274]} Length = 370

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Arginyl-tRNA synthetase (ArgRS)
species: Thermus thermophilus [TaxId: 274]

 Score = 48.0 bits (113), Expect = 2e-07
 Identities = 13/27 (48%), Positives = 17/27 (62%)

Query: 132 PTLNKKLRVLVDFSSPNIAKEMHVGHL 158
           P   +   VLV+ +S N  KE+HVGHL
Sbjct: 1   PFPRRPGVVLVEHTSVNPNKELHVGHL 27

>d1f7ua2 c.26.1.1 (A:136-483) Arginyl-tRNA synthetase (ArgRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 348

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Arginyl-tRNA synthetase (ArgRS)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 47.2 bits (111), Expect = 5e-07
 Identities = 14/25 (56%), Positives = 19/25 (76%)

Query: 134 LNKKLRVLVDFSSPNIAKEMHVGHL 158
           L +  +V+++FSSPNIAK  H GHL
Sbjct: 4   LVENKKVIIEFSSPNIAKPFHAGHL 28

>d1iq0a3 d.67.2.1 (A:1-96) Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain {Thermus thermophilus [TaxId: 274]} Length = 96

class: Alpha and beta proteins (a+b)
fold: RRF/tRNA synthetase additional domain-like
superfamily: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
family: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
domain: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
species: Thermus thermophilus [TaxId: 274]

 Score = 42.1 bits (99), Expect = 3e-06
 Identities = 22/108 (20%), Positives = 34/108 (31%), Gaps = 19/108 (17%)

Query: 15  LSDVFTHAVQVAFPELG-DKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPF 73
           L      A+  A  E+G      VA   +    K GD+      AL K  +     K P 
Sbjct: 2   LRRALEEAIAQALKEMGVPVRLKVARAPKD---KPGDYGVP-LFALAKELR-----KPPQ 52

Query: 74  DIAQSIASVVTSELATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGEQI 121
            IAQ +       L     + + +        G++N  L       + 
Sbjct: 53  AIAQELKD----RLPLPEFVEEAV-----PVGGYLNFRLRTEALLREA 91

>d1f7ua3 d.67.2.1 (A:2-135) Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 134

class: Alpha and beta proteins (a+b)
fold: RRF/tRNA synthetase additional domain-like
superfamily: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
family: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
domain: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.4 bits (84), Expect = 7e-04
 Identities = 16/82 (19%), Positives = 26/82 (31%), Gaps = 17/82 (20%)

Query: 48  FGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNPSLAKVIDKIEVAKPGF 107
            GD          K         NP D+A         + A        ++K+E   P F
Sbjct: 65  RGDLLIPIPRLRIK-------GANPKDLAV--------QWAEKFPCGDFLEKVEANGP-F 108

Query: 108 VNVFLSRVYAGEQ-IKDIIVNG 128
           +  F +  +  +  I DI+   
Sbjct: 109 IQFFFNPQFLAKLVIPDILTRK 130

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	214
d1iq0a3	96	Arginyl-tRNA synthetase (ArgRS), N-terminal 'addit	99.7
d1f7ua3	134	Arginyl-tRNA synthetase (ArgRS), N-terminal 'addit	99.49
d1f7ua2	348	Arginyl-tRNA synthetase (ArgRS) {Baker's yeast (Sa	99.05
d1iq0a2	370	Arginyl-tRNA synthetase (ArgRS) {Thermus thermophi	98.96
d1irxa2	317	Class I lysyl-tRNA synthetase {Archaeon Pyrococcus	97.71
d1ivsa4	425	Valyl-tRNA synthetase (ValRS) {Thermus thermophilu	95.53
d2d5ba2	348	Methionyl-tRNA synthetase (MetRS) {Thermus thermop	95.28
d1li5a2	315	Cysteinyl-tRNA synthetase (CysRS) {Escherichia col	94.74
d1pfva2	350	Methionyl-tRNA synthetase (MetRS) {Escherichia col	93.87
d1rqga2	361	Methionyl-tRNA synthetase (MetRS) {Pyrococcus abys	91.73
d1ilea3	452	Isoleucyl-tRNA synthetase (IleRS) {Thermus thermop	88.5
d1nzja_	286	Glutamyl-Q tRNA-Asp synthetase YadB {Escherichia c	87.89
d1gtra2	331	Glutaminyl-tRNA synthetase (GlnRS) {Escherichia co	87.08
d1ffya3	450	Isoleucyl-tRNA synthetase (IleRS) {Staphylococcus	86.74
d1j09a2	305	Glutamyl-tRNA synthetase (GluRS) {Thermus thermoph	86.17
d1h3na3	494	Leucyl-tRNA synthetase (LeuRS) {Thermus thermophil	83.2

>d1iq0a3 d.67.2.1 (A:1-96) Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: RRF/tRNA synthetase additional domain-like
superfamily: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
family: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
domain: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.70  E-value=1e-17  Score=123.99  Aligned_cols=89  Identities=21%  Similarity=0.225  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHHHHHhCCccCCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhhhccCC
Q psy695           12 RDYLSDVFTHAVQVAFPELGDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSELATNP   91 (214)
Q Consensus        12 ~~~~~~~i~~aI~~a~~~~~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~el~~~~   91 (214)
                      ++.+.+.|..++....   .+..+.++.|+++   +||||+|| ||.|||.++     ++|++||+.|++.    |... 
T Consensus         3 ~~~i~~~i~~~l~~~~---~~~~~~i~~~~~~---~~GD~a~n-a~~laK~~~-----k~P~~iA~~I~~~----l~~~-   65 (96)
T d1iq0a3           3 RRALEEAIAQALKEMG---VPVRLKVARAPKD---KPGDYGVP-LFALAKELR-----KPPQAIAQELKDR----LPLP-   65 (96)
T ss_dssp             HHHHHHHHHHHHHTTS---CCCCCCCEECSTT---SSCSEEEE-CSHHHHHTT-----SCHHHHHHHHHHT----CCCC-
T ss_pred             HHHHHHHHHHHHHhcC---CCCceeeecCCCC---CCcchHHH-HHHHHHHHC-----CCHHHHHHHHHHH----hccC-
Confidence            3444444444444321   1335678888888   99999999 999999997     8999999999999    8665 


Q ss_pred             ccccccceeEEecCeEEEEEeCHHHHHHHH
Q psy695           92 SLAKVIDKIEVAKPGFVNVFLSRVYAGEQI  121 (214)
Q Consensus        92 ~~~~~i~~v~iagpGFIN~~l~~~~~~~~l  121 (214)
                         ++|++++++|| ||||+|++.|+.+.+
T Consensus        66 ---~~i~~v~~~gp-FiNf~l~~~~l~~~i   91 (96)
T d1iq0a3          66 ---EFVEEAVPVGG-YLNFRLRTEALLREA   91 (96)
T ss_dssp             ---TTEEEEEEETT-EEEEEECHHHHHHHH
T ss_pred             ---cccceeEeeCC-eEEEEECHHHHHHHH
Confidence               78999999996 999999999987544

>d1f7ua3 d.67.2.1 (A:2-135) Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: RRF/tRNA synthetase additional domain-like
superfamily: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
family: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
domain: Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.49  E-value=1.4e-14  Score=113.30  Aligned_cols=106  Identities=18%  Similarity=0.240  Sum_probs=84.7

Q ss_pred             cccHHHHHHHHHHHHHHHhCCcc-CCCccccccCccccccccccchhhHHHHHHHHhcccCCCCChHHHHHHHHHhhhhh
Q psy695            8 RMSVRDYLSDVFTHAVQVAFPEL-GDKTASVASTNEKYVHKFGDFQCNDAMALCKIFKDKGEKKNPFDIAQSIASVVTSE   86 (214)
Q Consensus         8 ~m~i~~~~~~~i~~aI~~a~~~~-~~~~i~v~~~~~~~~~~~GDy~~n~A~~lak~lk~~~~~~~P~eiA~~i~~~~~~e   86 (214)
                      .+|+.+.++..|...|....+-. ......|+.|++.   .+|||++++++.  |..     +++|++||+.|+..    
T Consensus        27 ~~n~~D~~R~~Ia~~L~~i~gvd~~~i~~~le~p~~~---d~GDla~~~p~l--k~k-----gknP~eiA~ela~~----   92 (134)
T d1f7ua3          27 DVNIVDLMRNYISQELSKISGVDSSLIFPALEWTNTM---ERGDLLIPIPRL--RIK-----GANPKDLAVQWAEK----   92 (134)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHCCCHHHHGGGCEECSSG---GGCSEEEEGGGG--CCT-----TCCHHHHHHHHHHT----
T ss_pred             ccChHHHHHHHHHHHHHHHhCCCHHHHHHHhhCCCCC---cccchHHHHHHH--HHc-----CCCHHHHHHHHHHH----
Confidence            46788888888888888876521 1123368889888   999999996542  333     38999999999999    


Q ss_pred             hccCCccccccceeEEecCeEEEEEeCHHHHHH-HHHHHHHcCCCCC
Q psy695           87 LATNPSLAKVIDKIEVAKPGFVNVFLSRVYAGE-QIKDIIVNGVQPP  132 (214)
Q Consensus        87 l~~~~~~~~~i~~v~iagpGFIN~~l~~~~~~~-~l~~i~~~~~~~~  132 (214)
                      |...    ++|++++++|| |||||+++.++.+ .|..|+..+..||
T Consensus        93 l~~~----~~i~~v~~~Gp-FINf~l~~~~l~~~vl~~Il~~~~~YG  134 (134)
T d1f7ua3          93 FPCG----DFLEKVEANGP-FIQFFFNPQFLAKLVIPDILTRKEDYG  134 (134)
T ss_dssp             CCCT----TTEEEEEEETT-EEEEEECHHHHHHHHHHHHHHHGGGTT
T ss_pred             cCCC----CceeeEEeeCC-eEEEEECHHHHHHHHHHHHHHhhhccC
Confidence            8776    78999999997 9999999998876 5789998888886

>d1f7ua2 c.26.1.1 (A:136-483) Arginyl-tRNA synthetase (ArgRS) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Arginyl-tRNA synthetase (ArgRS)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.05  E-value=1.9e-11  Score=107.37  Aligned_cols=33  Identities=45%  Similarity=0.850  Sum_probs=30.4

Q ss_pred             CCCCeeEEEeecCcccccccccccchhhhhccc
Q psy695          134 LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHGW  166 (214)
Q Consensus       134 ~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~w  166 (214)
                      ++++++|+|||+||||++||||||+|++++|+=
T Consensus         4 ~~~~kki~vE~~SaNpt~plHvGH~R~aiiGd~   36 (348)
T d1f7ua2           4 LVENKKVIIEFSSPNIAKPFHAGHLRSTIIGGF   36 (348)
T ss_dssp             CSSCCEEEEECCCCBTTSCCBGGGHHHHHHHHH
T ss_pred             CCCCCEEEEEecCCCCCCCcchhhhhhHHHHHH
Confidence            468899999999999999999999999999763

>d1iq0a2 c.26.1.1 (A:97-466) Arginyl-tRNA synthetase (ArgRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Arginyl-tRNA synthetase (ArgRS)
species: Thermus thermophilus [TaxId: 274]

Probab=98.96  E-value=4.5e-11  Score=105.84  Aligned_cols=31  Identities=39%  Similarity=0.454  Sum_probs=28.7

Q ss_pred             CCCeeEEEeecCcccccccccccchhhhhcc
Q psy695          135 NKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       135 ~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .++++|+|||+||||+|||||||+|++++|+
T Consensus         4 ~~~~~i~vEf~SpN~~kplHvGHlRs~iiGd   34 (370)
T d1iq0a2           4 RRPGVVLVEHTSVNPNKELHVGHLRNIALGD   34 (370)
T ss_dssp             CEEEEEEEECCCCCTTSCCBHHHHHHHHHHH
T ss_pred             CCCCeEEEEecCCCCCCCcchhhhhhHHHHH
Confidence            3689999999999999999999999999965

>d1irxa2 c.26.1.1 (A:3-319) Class I lysyl-tRNA synthetase {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Class I lysyl-tRNA synthetase
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=97.71  E-value=3e-06  Score=68.63  Aligned_cols=29  Identities=21%  Similarity=0.253  Sum_probs=25.2

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      ++.+|+|+ ++|||++++||||+|++++++
T Consensus        16 ~k~~~v~~-~~~~PnG~lHIGHlr~~i~gD   44 (317)
T d1irxa2          16 EKEKYVVE-SGITPSGYVHVGNFRELFTAY   44 (317)
T ss_dssp             CCSEEEEE-EEECCSSCCCHHHHHHHHHHH
T ss_pred             CCCeEEEE-CCCCCCCCccccccHHHHHHH
Confidence            45678888 899999999999999998753

>d1ivsa4 c.26.1.1 (A:1-189,A:343-578) Valyl-tRNA synthetase (ValRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Valyl-tRNA synthetase (ValRS)
species: Thermus thermophilus [TaxId: 274]

Probab=95.53  E-value=0.0037  Score=53.53  Aligned_cols=32  Identities=19%  Similarity=0.343  Sum_probs=28.7

Q ss_pred             CCCCeeEEEeecCcccccccccccchhhhhcc
Q psy695          134 LNKKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       134 ~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+++++.+|-...|+|++++|+||+|+.++.|
T Consensus        30 ~~~~~~f~i~~~pPy~NG~lHlGH~~~yv~~D   61 (425)
T d1ivsa4          30 KSGKPPFVIFMPPPNVTGSLHMGHALDNSLQD   61 (425)
T ss_dssp             TCCSCEEEEECCCCBSSSCCCHHHHHHHHHHH
T ss_pred             CCCCCcEEEEcCCCCCCCCchhhHHHHHHHHH
Confidence            35678899999999999999999999988866

>d2d5ba2 c.26.1.1 (A:1-348) Methionyl-tRNA synthetase (MetRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Methionyl-tRNA synthetase (MetRS)
species: Thermus thermophilus [TaxId: 274]

Probab=95.28  E-value=0.0019  Score=53.42  Aligned_cols=29  Identities=17%  Similarity=0.183  Sum_probs=26.8

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +|++.|...-|.|++++||||+|+.+++|
T Consensus         2 ~~~~~~~~~~PypnG~lHiGH~r~~v~~D   30 (348)
T d2d5ba2           2 EKVFYVTTPIYYVNAEPHLGHAYTTVVAD   30 (348)
T ss_dssp             CCEEEEECCCEETTSCCCHHHHHHHHHHH
T ss_pred             CCCEEEecCCCCCCCCcccccCHHHHHHH
Confidence            46799999999999999999999999977

>d1li5a2 c.26.1.1 (A:1-315) Cysteinyl-tRNA synthetase (CysRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Cysteinyl-tRNA synthetase (CysRS)
species: Escherichia coli [TaxId: 562]

Probab=94.74  E-value=0.0031  Score=52.41  Aligned_cols=29  Identities=14%  Similarity=0.118  Sum_probs=20.1

Q ss_pred             CeeEEEeec-Ccccccccccccchhhhhccc
Q psy695          137 KLRVLVDFS-SPNIAKEMHVGHLSRSLCHGW  166 (214)
Q Consensus       137 ~~~V~IEf~-Spn~~~~~hvgh~R~~~lg~w  166 (214)
                      +.+|-| |+ .|.|.+++||||+|.++++|-
T Consensus        20 ~~~~~~-yv~Gptv~g~~HIGH~R~av~gD~   49 (315)
T d1li5a2          20 AGEVGM-YVCGITVYDLCHIGHGRTFVAFDV   49 (315)
T ss_dssp             TTEEEE-EECCCBSSSCCBHHHHHHHHHHHH
T ss_pred             CCeEEE-EecCCcCCCCcccchhHHHHHHHH
Confidence            334555 44 455556699999999999873

>d1pfva2 c.26.1.1 (A:4-140,A:176-388) Methionyl-tRNA synthetase (MetRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Methionyl-tRNA synthetase (MetRS)
species: Escherichia coli [TaxId: 562]

Probab=93.87  E-value=0.0081  Score=49.94  Aligned_cols=29  Identities=21%  Similarity=0.397  Sum_probs=26.3

Q ss_pred             eeEEEeecCcccccccccccchhhhhccc
Q psy695          138 LRVLVDFSSPNIAKEMHVGHLSRSLCHGW  166 (214)
Q Consensus       138 ~~V~IEf~Spn~~~~~hvgh~R~~~lg~w  166 (214)
                      |+++|--.-|+|++++||||+|+.++.|-
T Consensus         2 ~~~~i~~~~P~~nG~lHiGHar~~v~~D~   30 (350)
T d1pfva2           2 KKILVTCALPYANGSIHLGHMLEHIQADV   30 (350)
T ss_dssp             CEEEEEECCCBTTSCCBHHHHHHHHHHHH
T ss_pred             CeEEEeCCCCCCCCCccccccHHHHHHHH
Confidence            68999999999999999999999888663

>d1rqga2 c.26.1.1 (A:1-138,A:174-396) Methionyl-tRNA synthetase (MetRS) {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Methionyl-tRNA synthetase (MetRS)
species: Pyrococcus abyssi [TaxId: 29292]

Probab=91.73  E-value=0.027  Score=46.31  Aligned_cols=26  Identities=27%  Similarity=0.465  Sum_probs=22.3

Q ss_pred             eeEEEeecCcccccccccccchhhhh
Q psy695          138 LRVLVDFSSPNIAKEMHVGHLSRSLC  163 (214)
Q Consensus       138 ~~V~IEf~Spn~~~~~hvgh~R~~~l  163 (214)
                      +|.+|--.-|+|++++||||+|+.++
T Consensus         2 ~~~~v~~~~P~p~G~lHiGH~~~~~i   27 (361)
T d1rqga2           2 VRYMVTSALPYANGPIHAGHLAGAYL   27 (361)
T ss_dssp             CEEEEEECCCBTTSCCBHHHHHHHTH
T ss_pred             ceEEEecCCCCCCCCcccccccccHH
Confidence            36888899999999999999987644

>d1ilea3 c.26.1.1 (A:1-197,A:387-641) Isoleucyl-tRNA synthetase (IleRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Isoleucyl-tRNA synthetase (IleRS)
species: Thermus thermophilus [TaxId: 274]

Probab=88.50  E-value=0.038  Score=47.25  Aligned_cols=29  Identities=24%  Similarity=0.179  Sum_probs=25.0

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +.+.+|--..|++++++|+||+|+.++.|
T Consensus        37 ~~~f~i~~~pPy~nG~lHiGH~~~~v~~D   65 (452)
T d1ilea3          37 GPRYTVYEGPPTANGLPHVGHAQARSYKD   65 (452)
T ss_dssp             SCBCCBCCCCCCTTSCCCTTHHHHHHHHH
T ss_pred             CCCEEEecCCCCCCCcchhhhHHHHHHHH
Confidence            45678888899999999999999988855

>d1nzja_ c.26.1.1 (A:) Glutamyl-Q tRNA-Asp synthetase YadB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Glutamyl-Q tRNA-Asp synthetase YadB
species: Escherichia coli [TaxId: 562]

Probab=87.89  E-value=0.049  Score=44.98  Aligned_cols=19  Identities=32%  Similarity=0.534  Sum_probs=16.8

Q ss_pred             Ccccccccccccchhhhhc
Q psy695          146 SPNIAKEMHVGHLSRSLCH  164 (214)
Q Consensus       146 Spn~~~~~hvgh~R~~~lg  164 (214)
                      .|+|+++||+||+|++++-
T Consensus         8 APsPtG~lHiG~~rtal~n   26 (286)
T d1nzja_           8 APSPSGELHFGSLIAALGS   26 (286)
T ss_dssp             CCCTTSCCCHHHHHHHHHH
T ss_pred             CcCCCCcccHHHHHHHHHH
Confidence            4999999999999987773

>d1gtra2 c.26.1.1 (A:8-338) Glutaminyl-tRNA synthetase (GlnRS) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Glutaminyl-tRNA synthetase (GlnRS)
species: Escherichia coli [TaxId: 562]

Probab=87.08  E-value=0.06  Score=45.50  Aligned_cols=41  Identities=22%  Similarity=0.401  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHcCCCCCCCCCCeeEEEeecCcccccccccccchhhhhc
Q psy695          116 YAGEQIKDIIVNGVQPPTLNKKLRVLVDFSSPNIAKEMHVGHLSRSLCH  164 (214)
Q Consensus       116 ~~~~~l~~i~~~~~~~~~~~~~~~V~IEf~Spn~~~~~hvgh~R~~~lg  164 (214)
                      |+...+...+.++       +.++|.+=|+ |.|+++||+||+|++++.
T Consensus         3 ~~~~~~~~~l~~~-------~~~~v~tRFA-PSPTG~LHiG~~rtal~n   43 (331)
T d1gtra2           3 FIRQIIDEDLASG-------KHTTVHTRFP-PEPNGYLHIGHAKSICLN   43 (331)
T ss_dssp             HHHHHHHHHHHHT-------SCSSCEEEEC-CCSSSCCBHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-------CCCeEEEEeC-CCCCCcccHHHHHHHHHH
Confidence            3444555444443       3445777774 899999999999988873

>d1ffya3 c.26.1.1 (A:1-200,A:395-644) Isoleucyl-tRNA synthetase (IleRS) {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Isoleucyl-tRNA synthetase (IleRS)
species: Staphylococcus aureus [TaxId: 1280]

Probab=86.74  E-value=0.06  Score=46.84  Aligned_cols=29  Identities=14%  Similarity=0.303  Sum_probs=25.2

Q ss_pred             CeeEEEeecCcccccccccccchhhhhcc
Q psy695          137 KLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       137 ~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      +++.+|-...|++++.+|+||+++.++.|
T Consensus        47 ~~~f~~~~~pPy~nG~lHiGH~~~~~~~D   75 (450)
T d1ffya3          47 NETFILHDGPPYANGNLHMGHALNKILKD   75 (450)
T ss_dssp             SCBCCEECCCCBSSSCCCHHHHHHHHHHH
T ss_pred             CCcEEEecCCCCCCCchhhhHHHHHHHHH
Confidence            35678888899999999999999999855

>d1j09a2 c.26.1.1 (A:1-305) Glutamyl-tRNA synthetase (GluRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Glutamyl-tRNA synthetase (GluRS)
species: Thermus thermophilus [TaxId: 274]

Probab=86.17  E-value=0.072  Score=44.28  Aligned_cols=19  Identities=26%  Similarity=0.396  Sum_probs=17.1

Q ss_pred             Ccccccccccccchhhhhc
Q psy695          146 SPNIAKEMHVGHLSRSLCH  164 (214)
Q Consensus       146 Spn~~~~~hvgh~R~~~lg  164 (214)
                      .|+|++.||+||+|++++.
T Consensus         7 aPsPtG~lHiG~~rtal~n   25 (305)
T d1j09a2           7 APSPTGDPHVGTAYIALFN   25 (305)
T ss_dssp             CCCCSSSCBHHHHHHHHHH
T ss_pred             CCCCCCcccHHHHHHHHHH
Confidence            5999999999999988874

>d1h3na3 c.26.1.1 (A:1-225,A:418-686) Leucyl-tRNA synthetase (LeuRS) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Nucleotidylyl transferase
family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
domain: Leucyl-tRNA synthetase (LeuRS)
species: Thermus thermophilus [TaxId: 274]

Probab=83.20  E-value=0.19  Score=43.00  Aligned_cols=30  Identities=20%  Similarity=0.246  Sum_probs=25.7

Q ss_pred             CCeeEEEeecCcccccccccccchhhhhcc
Q psy695          136 KKLRVLVDFSSPNIAKEMHVGHLSRSLCHG  165 (214)
Q Consensus       136 ~~~~V~IEf~Spn~~~~~hvgh~R~~~lg~  165 (214)
                      .+++.+|.-..||+++.+||||+.+.++.|
T Consensus        31 ~~~~~~i~~~pP~~nG~lHiGH~~~~~~~D   60 (494)
T d1h3na3          31 GRGKQYVLVMFPYPSGDLHMGHLKNYTMGD   60 (494)
T ss_dssp             TTCEEEEEECCCCSSSCCBHHHHHHHHHHH
T ss_pred             CCCCeEEEeCCCCCCCchhhhHHHHHHHHH
Confidence            345678889999999999999999988854