Psyllid ID: psy3754

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-----

MTIKNNIKASIILDNSRTKNDTGSPEVQVALLTSRINDLNIHFKLHIKDHHSRRGLIMMKGNFLFNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVVSCKDPTSTYNFFPLTVDYIEKAYAAGRIPGSFFKREGKPSERETIISRLIDRPIRPLFPEGYLNEIQIVVYVLSVNPQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILNPTTEQLKKSHLDLLVAGTEKAIITVESESKQLPEDIILNAIIFGHEKMKIAINAINELVQNVGQKKVNWDPIVKDKTLISKIINISEHKIRKAYQIKNKQIRDLTFKNISKDIYSSLIDNENLTIDINDINCILYDLESKIIRKQILDKGLRIDNRGVNDIRPISIRTGILPRTHGSSLFTRGDTQALVVATLGTSRDEQKIDALMGEFTDSFMLHYNMPPFATGDIGRIGVPKRREIGHGRLAKRALLPVLPNNNKFNYSIRLVSEITESNGSSSMASVCGGCLALLDAGVPISEHVAGIAMGLIKDGEKVVILSDILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILEKMKTEVPKCKNELSKFAPRLITIKIDPSKIRDVIGKGGSTIRTLTEETGTQIDINDEGIITIASFNSVSGQEAKRRIEKLTESVQIGKVYTGIVLRLFDFGAIIRILSGKDGLLHISQISSKRVNIITDFLKENQKVRVKVLGIDDRGRIKLSMIY

cccccccEEEEEEccccccccccccEEEEEEEccccccccEEEEEEcccccccccHHccccccccEEEEEEEEEccEEEEEEccHHccccccEEEEEEccEEEEEEEEEccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccEEEEEEEEEccccccHHHHHHHHHHHHHHHccccccccEEEEEEEEEccEEEEcccHHHHHcccccEEEEEcccEEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccEEEcccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccEEEEEEccccccccHHHHHHHHHHHHcHHccccccccccHHccccEEEcccEEEEEccccccccccccccccccccccHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEEEcccccccccccccHHHHHHHHHHccEEccccccEEEEEEccHHHHHHHHHHHHHHHcccccccEEEEEEEEEEEcEEEEEEccccccEEEEcccccccccccccccccccEEEEEEEEEcccccEEEEEEc

cccccccHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHcEEEccEEEEEEEcccEEEEEccHHEEHcccEEEEEcccEEEEEEEEEccccccccccccEEEEEEHHHHHccccccccEcccccccHHHHHHHHHccccccccccccccccEEEEEEEEEcccccccHHHHHHHHHHHHHHccccccccEEEEEEEEEccEEEEcccHHHHHHccccEEEEccHHHHHHHHHHHHHccHHHHHHHHHHcHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccEEEEEEEEEcccccccccEEEcccccEEEEEEEccccccHHHHHHccccccccEEEEEcccccccccccccccccccEccHHHHHHHHHHHHcccHHHccEEEEEEEEEEcccccccccHHHHHHHHHHHccccccccEEEEEEEEEEccccEEEEEccccccHccccccEEEEcccccEEEEEEEEEEccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHcccEEEEEEcHHHHHHHccccHHHHHHHHHHcccEEEEccccEEEEEEccHHHHHHHHHHHHHHHHcccEcEEEEcEEEEEEEccHEEEEccccccEEEHHHHHHHHHHHHHHHHccccEEEEEEEEEcccccEEEEEEc

MTIKNNIKASIildnsrtkndtgspEVQVALLTSRINDLNIHFKLHIKDHHSRRGLIMMKGNFLFNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVVsckdptstynffpLTVDYIEKAYaagripgsffkregkpseRETIISRLidrpirplfpegylnEIQIVVYVLsvnpqidpdiasIIGVSTAlsiselpflgplgvakvgyidgkyilnpttEQLKKSHLDLLVAGTEKAIITVESeskqlpedIILNAIIFGHEKMKIAINAINELVQNvgqkkvnwdpivkdkTLISKIINISEHKIRKAYQIKNKQIRDLTFKNISKDIYSslidnenltidindincilyDLESKIIRKQILDKglridnrgvndirpisirtgilprthgsslftrgDTQALVVATLGTSRDEQKIDALMGEFTDSFMlhynmppfatgdigrigvpkrreighgrlakrallpvlpnnnkfnySIRLVSEItesngsssmasVCGGCLALldagvpiseHVAGIAMGLIKDGEKVVILSDilgdedrcgdmdfkvaGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILEKMKtevpkcknelskfaprlitikidpskirdvigkggstIRTLteetgtqidindegiITIASFNSVSGQEAKRRIEKLTESVQIGKVYTGIVLRLFDFGAIIRILSGKDGLLHISQISSKRVNIITDFLKENQKVRVKVLgiddrgrikLSMIY

mtiknnikasiildnsrtkndtgSPEVQVALLTSRINDLNIHFKLHIKDHHSRRGLIMMKGNFLFNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVvsckdptstyNFFPLTVDYIEKAYAAGRipgsffkregkpseRETIISRLIDRPIRPLFPEGYLNEIQIVVYVLSVNPQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILNPTTEQLKKSHLDLLVAGTEKAIITveseskqlpedIILNAIIFGHEKMKIAINAINELVQNvgqkkvnwdpivkdktliskiinisehkirkayqiknkqirdltfkNISKDIYSslidnenltidINDINCILYDLESKIIRKQIldkglridnrgvndirpisirtgilprthgsslftrgdTQALVVATlgtsrdeqKIDALMGEFTDSFMLHYNMPPFATGDIGRIGVPKRREIGHGRlakrallpvlpnnnkFNYSIRLVSEITESNGSSSMASVCGGCLALLDAGVPISEHVAGIAMGLIKDGEKVVILSDILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILEKMKtevpkcknelskfaprlitikidpskirdvigkggstirtlteetgtqidindegIITIASFNSVSGQEAKRRIEKltesvqigkvYTGIVLRLFDFGAIIRILSGKDGLLHISQISSKRVNIITdflkenqkvrvkvlgiddrgriklsmiy

**************************VQVALLTSRINDLNIHFKLHIKDHHSRRGLIMMKGNFLFNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVVSCKDPTSTYNFFPLTVDYIEKAYAAGRIPGSFFK********ETIISRLIDRPIRPLFPEGYLNEIQIVVYVLSVNPQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILNPTTEQLKKSHLDLLVAGTEKAIITVESESKQLPEDIILNAIIFGHEKMKIAINAINELVQNVGQKKVNWDPIVKDKTLISKIINISEHKIRKAYQIKNKQIRDLTFKNISKDIYSSLIDNENLTIDINDINCILYDLESKIIRKQILDKGLRIDNRGVNDIRPISIRTGILPRTHGSSLFTRGDTQALVVATLGTSRDEQKIDALMGEFTDSFMLHYNMPPFATGDIGRIGVPKRREIGHGRLAKRALLPVLPNNNKFNYSIRLVSEIT*******MASVCGGCLALLDAGVPISEHVAGIAMGLIKDGEKVVILSDILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILEKMKTEVPKCKNELSKFAPRLITIKIDPSKIRDVIGKGGSTIRTLTEETGTQIDINDEGIITIASFNSVSGQEAKRRIEKLTESVQIGKVYTGIVLRLFDFGAIIRILSGKDGLLHISQISSKRVNIITDFLKENQKVRVKVLGIDDRGRI******

*******KASIIL************EVQVALLTSRINDLNIHFKLHI***************FLFNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVVSCKDPTSTYNFFPLTVDYIEKAYAAGRIPGSFFKREGKPSERETIISRLIDRPIRPLFPEGYLNEIQIVVYVLSVNPQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILNPTTEQLKKSHLDLLVAGTEKAIITVESESKQLPEDIILNAIIFGHEKMKIAINAINELVQNVGQKKVNWDPIVKDKTLISKIINISEHKIRKAYQIKNKQIRDLTFKNISKDIYSSLIDNENLTIDINDINCILYDLESKIIRKQILDKGLRIDNRGVNDIRPISIRTGILPRTHGSSLFTRGDTQALVVATLGTSRDEQKIDALMGEFTDSFMLHYNMPPFATGDIGRIGVPKRREIGHGRLAKRALLPVLPNNNKFNYSIRLVSEITESNGSSSMASVCGGCLALLDAGVPISEHVAGIAMGLIKDGEKVVILSDILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILEKMKTEVPKCKNELSKFAPRLITIKIDPSKIRDVIGKGGSTIRTLTEETGTQIDINDEGIITIASFNSVSGQEAKRRIEKLTESVQIGKVYTGIVLRLFDFGAIIRILSGKDGLLHISQISSKRVNIITDFLKENQKVRVKVLGIDDRGRIKLSMIY

MTIKNNIKASIILDNSRTKNDTGSPEVQVALLTSRINDLNIHFKLHIKDHHSRRGLIMMKGNFLFNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVVSCKDPTSTYNFFPLTVDYIEKAYAAGRIPGSFFKREGKPSERETIISRLIDRPIRPLFPEGYLNEIQIVVYVLSVNPQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILNPTTEQLKKSHLDLLVAGTEKAIITVESESKQLPEDIILNAIIFGHEKMKIAINAINELVQNVGQKKVNWDPIVKDKTLISKIINISEHKIRKAYQIKNKQIRDLTFKNISKDIYSSLIDNENLTIDINDINCILYDLESKIIRKQILDKGLRIDNRGVNDIRPISIRTGILPRTHGSSLFTRGDTQALVVATLGTSRDEQKIDALMGEFTDSFMLHYNMPPFATGDIGRIGVPKRREIGHGRLAKRALLPVLPNNNKFNYSIRLVSEITESNGSSSMASVCGGCLALLDAGVPISEHVAGIAMGLIKDGEKVVILSDILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILEKMKTEVPKCKNELSKFAPRLITIKIDPSKIRDVIGKGGSTIRTLTEETGTQIDINDEGIITIASFNS*********IEKLTESVQIGKVYTGIVLRLFDFGAIIRILSGKDGLLHISQISSKRVNIITDFLKENQKVRVKVLGIDDRGRIKLSMIY

*TIKNNIKASIILDNSRT**DTGSPEVQVALLTSRINDLNIHFKLHIKDHHSRRGLIMMKGNFLFNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVVSCKDPTSTYNFFPLTVDYIEKAYAAGRIPGSFFKREGKPSERETIISRLIDRPIRPLFPEGYLNEIQIVVYVLSVNPQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILNPTTEQLKKSHLDLLVAGTEKAIITVESESKQLPEDIILNAIIFGHEKMKIAINAINELVQNVGQKKVNWDPIVKDKTLISKIINISEHKIRKAYQIKNKQIRDLTFKNISKDIYSSLIDNENLTIDINDINCILYDLESKIIRKQILDKGLRIDNRGVNDIRPISIRTGILPRTHGSSLFTRGDTQALVVATLGTSRDEQKIDALMGEFTDSFMLHYNMPPFATGDIGRIGVPKRREIGHGRLAKRALLPVLPNNNKFNYSIRLVSEITESNG*SSMASVCGGCLALLDAGVPISEHVAGIAMGLIKDGEKVVILSDILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILEKMKTEVPKCKNELSKFAPRLITIKIDPSKIRDVIGKGGSTIRTLTEETGTQIDINDEGIITIASFNSVSGQEAKRRIEKLTESVQIGKVYTGIVLRLFDFGAIIRILSGKDGLLHISQISSKRVNIITDFLKENQKVRVKVLGIDDRGRIKLSMIY

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		755	2.2.26 [Sep-21-2011]
A4G647		710	Polyribonucleotide nucleo	yes	N/A	0.913	0.971	0.657	0.0
A6SY02		711	Polyribonucleotide nucleo	yes	N/A	0.913	0.970	0.654	0.0
Q2SZN9		713	Polyribonucleotide nucleo	yes	N/A	0.912	0.966	0.610	0.0
Q63VN7		713	Polyribonucleotide nucleo	yes	N/A	0.912	0.966	0.610	0.0
A3N7L3		713	Polyribonucleotide nucleo	yes	N/A	0.912	0.966	0.610	0.0
Q3JUB3		713	Polyribonucleotide nucleo	yes	N/A	0.912	0.966	0.610	0.0
A3NTA2		713	Polyribonucleotide nucleo	yes	N/A	0.912	0.966	0.610	0.0
A1V2L2		713	Polyribonucleotide nucleo	yes	N/A	0.912	0.966	0.610	0.0
Q62IN1		713	Polyribonucleotide nucleo	yes	N/A	0.912	0.966	0.610	0.0
A2S463		713	Polyribonucleotide nucleo	yes	N/A	0.912	0.966	0.610	0.0

>sp\|A4G647\|PNP_HERAR Polyribonucleotide nucleotidyltransferase OS=Herminiimonas arsenicoxydans GN=pnp PE=3 SV=1	Back alignment and function desciption

 Score =  987 bits (2552), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 457/695 (65%), Positives = 574/695 (82%), Gaps = 5/695 (0%)

Query: 64  LFNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVVSCKDPTSTYNFFPLT 123
           +FNK+ K+F+YG + +++E GEIARQA+ +VLVSIEDTV+LATVV+ KD     +FFPLT
Sbjct: 1   MFNKVTKTFQYGQHTVTLETGEIARQASGAVLVSIEDTVVLATVVARKDAKPGQDFFPLT 60

Query: 124 VDYIEKAYAAGRIPGSFFKREGKPSERETIISRLIDRPIRPLFPEGYLNEIQIVVYVLSV 183
           VDY+EK YAAGRIPG FFKREG+PSE+ET+ SRLIDRPIRPLFPEGYLNE+QI+++V+SV
Sbjct: 61  VDYVEKTYAAGRIPGGFFKREGRPSEKETLTSRLIDRPIRPLFPEGYLNEVQIIIHVMSV 120

Query: 184 NPQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILNPTTEQLKKSHLDLLVA 243
           NP+IDPDIA++IG S ALS+S +PF GPLG A+VGYIDG+YILNPT  QLK S +DL+VA
Sbjct: 121 NPEIDPDIAAMIGASAALSVSGIPFAGPLGAARVGYIDGQYILNPTATQLKTSQMDLVVA 180

Query: 244 GTEKAIITVESESKQLPEDIILNAIIFGHEKMKIAINAINELVQNVGQKKVNWDPIVKDK 303
           GTE A++ VESE++QL E+++L A++FGH++MK  I+AI++LV++ G+ +V W P  K++
Sbjct: 181 GTEAAVLMVESEAQQLSEEVMLGAVVFGHDQMKAVIDAIHDLVRDGGKPEVQWAPPAKNE 240

Query: 304 TLISKIINISEHKIRKAYQIKNKQIRDL----TFKNISKDIYSSLIDNENLTIDINDINC 359
            LI+++ + +E K+R AYQ K+KQ R       F  ++ ++ +          D +++  
Sbjct: 241 ALIARVAHFAEEKLRAAYQTKDKQARTAKLKDAFAEVNAEVAAEATSVGGAAPDTSEVGN 300

Query: 360 ILYDLESKIIRKQILDKGLRIDNRGVNDIRPISIRTGILPRTHGSSLFTRGDTQALVVAT 419
           IL+DLE+KI+R QILD   RID R    +RPI+IRTG+LPRTHGS+LFTRG+TQALV+AT
Sbjct: 301 ILFDLEAKIVRSQILDGEPRIDGRDTRTVRPITIRTGVLPRTHGSALFTRGETQALVIAT 360

Query: 420 LGTSRDEQKIDALMGEFTDSFMLHYNMPPFATGDIGRIGVPKRREIGHGRLAKRALLPVL 479
           LGT+RDEQKIDALMGE++D FMLHYNMPPFATG+ GR+G PKRREIGHGRLAKRAL+  L
Sbjct: 361 LGTARDEQKIDALMGEYSDRFMLHYNMPPFATGETGRVGTPKRREIGHGRLAKRALIAAL 420

Query: 480 PNNNKFNYSIRLVSEITESNGSSSMASVCGGCLALLDAGVPISEHVAGIAMGLIKDGEKV 539
           P    F+YS+RLVSEITESNGSSSMASVCGGCLAL+DAGVP+  HVAGIAMGLIKDG K 
Sbjct: 421 PAPEDFSYSVRLVSEITESNGSSSMASVCGGCLALMDAGVPMQAHVAGIAMGLIKDGGKF 480

Query: 540 VILSDILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILE 599
            +LSDILGDED  GDMDFKVAGT NGITALQMDIKI GIT +I+Q+AL +AK+G  +IL 
Sbjct: 481 AVLSDILGDEDHLGDMDFKVAGTANGITALQMDIKIQGITKEIMQVALAQAKEGRIHILG 540

Query: 600 KMKTEVPK-CKNELSKFAPRLITIKIDPSKIRDVIGKGGSTIRTLTEETGTQIDINDEGI 658
           +M+  VP     ELS FAPRLITIKI+P KIRDVIGKGG+ IR LTEETGTQIDI+DEG+
Sbjct: 541 EMEKAVPSGTTGELSDFAPRLITIKINPEKIRDVIGKGGAVIRALTEETGTQIDISDEGV 600

Query: 659 ITIASFNSVSGQEAKRRIEKLTESVQIGKVYTGIVLRLFDFGAIIRILSGKDGLLHISQI 718
           +TIAS ++ +GQEAKRRIE+LT SV++GKVY G VL+L DFGAI++++ GKDGLLHISQI
Sbjct: 601 VTIASVDAAAGQEAKRRIEELTASVEVGKVYEGTVLKLLDFGAIVQVMPGKDGLLHISQI 660

Query: 719 SSKRVNIITDFLKENQKVRVKVLGIDDRGRIKLSM 753
           +++RVN + D+LKE Q+VRVKVL  DDRGR+KLSM
Sbjct: 661 ANERVNAVADYLKEGQQVRVKVLETDDRGRLKLSM 695

Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3'- to 5'-direction.
Herminiimonas arsenicoxydans (taxid: 204773)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 8

>sp\|A6SY02\|PNP_JANMA Polyribonucleotide nucleotidyltransferase OS=Janthinobacterium sp. (strain Marseille) GN=pnp PE=3 SV=1	Back alignment and function description

>sp\|Q2SZN9\|PNP_BURTA Polyribonucleotide nucleotidyltransferase OS=Burkholderia thailandensis (strain E264 / ATCC 700388 / DSM 13276 / CIP 106301) GN=pnp PE=3 SV=1	Back alignment and function description

>sp\|Q63VN7\|PNP_BURPS Polyribonucleotide nucleotidyltransferase OS=Burkholderia pseudomallei (strain K96243) GN=pnp PE=3 SV=1	Back alignment and function description

>sp\|A3N7L3\|PNP_BURP6 Polyribonucleotide nucleotidyltransferase OS=Burkholderia pseudomallei (strain 668) GN=pnp PE=3 SV=1	Back alignment and function description

>sp\|Q3JUB3\|PNP_BURP1 Polyribonucleotide nucleotidyltransferase OS=Burkholderia pseudomallei (strain 1710b) GN=pnp PE=3 SV=1	Back alignment and function description

>sp\|A3NTA2\|PNP_BURP0 Polyribonucleotide nucleotidyltransferase OS=Burkholderia pseudomallei (strain 1106a) GN=pnp PE=3 SV=1	Back alignment and function description

>sp\|A1V2L2\|PNP_BURMS Polyribonucleotide nucleotidyltransferase OS=Burkholderia mallei (strain SAVP1) GN=pnp PE=3 SV=1	Back alignment and function description

>sp\|Q62IN1\|PNP_BURMA Polyribonucleotide nucleotidyltransferase OS=Burkholderia mallei (strain ATCC 23344) GN=pnp PE=3 SV=1	Back alignment and function description

>sp\|A2S463\|PNP_BURM9 Polyribonucleotide nucleotidyltransferase OS=Burkholderia mallei (strain NCTC 10229) GN=pnp PE=3 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		755
340788246		714	polyribonucleotide nucleotidyltransferas	0.920	0.973	0.663	0.0
134095034		710	polynucleotide phosphorylase [Herminiimo	0.913	0.971	0.657	0.0
399020444		712	polyribonucleotide nucleotidyltransferas	0.913	0.969	0.664	0.0
395763186		705	polynucleotide phosphorylase/polyadenyla	0.913	0.978	0.658	0.0
409405576		711	polyribonucleotide nucleotidyltransferas	0.913	0.970	0.651	0.0
152979779		711	polynucleotide phosphorylase [Janthinoba	0.913	0.970	0.654	0.0
300311084		712	polyribonucleotide nucleotidyltransferas	0.913	0.969	0.649	0.0
445498215		707	polyribonucleotide nucleotidyltransferas	0.913	0.975	0.655	0.0
415924064		711	polyribonucleotide nucleotidyltransferas	0.913	0.970	0.648	0.0
427401540		700	polyribonucleotide nucleotidyltransferas	0.912	0.984	0.644	0.0

>gi\|340788246\|ref\|YP_004753711.1\| polyribonucleotide nucleotidyltransferase [Collimonas fungivorans Ter331] gi\|340553513\|gb\|AEK62888.1\| Polyribonucleotide nucleotidyltransferase [Collimonas fungivorans Ter331]	Back alignment and taxonomy information

 Score =  995 bits (2573), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 464/699 (66%), Positives = 581/699 (83%), Gaps = 4/699 (0%)

Query: 59  MKGNFLFNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVVSCKDPTSTYN 118
           MKG  +FNK+ K+F+YG +++++E GEIARQA+ +VLVSIEDTV+LATVV+ KD     +
Sbjct: 1   MKGYIVFNKVTKTFQYGQHQVTLETGEIARQASGAVLVSIEDTVVLATVVARKDAKPGQD 60

Query: 119 FFPLTVDYIEKAYAAGRIPGSFFKREGKPSERETIISRLIDRPIRPLFPEGYLNEIQIVV 178
           FFPLTVDY+EK YAAGRIPG FFKREG+PSE+ET+ SRLIDRPIRPLFPEGYLNE+Q+++
Sbjct: 61  FFPLTVDYVEKTYAAGRIPGGFFKREGRPSEKETLTSRLIDRPIRPLFPEGYLNEVQVII 120

Query: 179 YVLSVNPQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILNPTTEQLKKSHL 238
           +VLSVNP+IDPDIA++IG S ALS++ +PF GP+G A+VGYIDG+Y+LNPTT QL KS +
Sbjct: 121 HVLSVNPEIDPDIAAMIGASAALSVAGIPFAGPVGAARVGYIDGQYVLNPTTSQLTKSAM 180

Query: 239 DLLVAGTEKAIITVESESKQLPEDIILNAIIFGHEKMKIAINAINELVQNVGQKKVNWDP 298
           DL+VAGTE A++ VESE+KQL E+I+L A++FGHE+ K  INAI+ELV++ G+ +V W P
Sbjct: 181 DLVVAGTETAVLMVESEAKQLSEEIMLGAVVFGHEQSKAVINAIHELVRDGGKPEVEWSP 240

Query: 299 IVKDKTLISKIINISEHKIRKAYQIKNKQIRDLTFKNISKDIYSSLIDNE----NLTIDI 354
             K++ LI+++ +  E K+R+AYQ K+KQ R    K+ + ++ ++L            D 
Sbjct: 241 APKNEALIARVAHFGEAKLREAYQTKDKQARTTKLKDATAEVNAALAAEAASIGGTAPDS 300

Query: 355 NDINCILYDLESKIIRKQILDKGLRIDNRGVNDIRPISIRTGILPRTHGSSLFTRGDTQA 414
           ++++ IL+DLE+KI+R QIL+   RID R    +RPISIRTG+LPRTHGS+LFTRG+TQA
Sbjct: 301 SEVSGILFDLEAKIVRSQILEGEPRIDGRDTRTVRPISIRTGVLPRTHGSALFTRGETQA 360

Query: 415 LVVATLGTSRDEQKIDALMGEFTDSFMLHYNMPPFATGDIGRIGVPKRREIGHGRLAKRA 474
           LVVATLGT+RDEQKIDALMGE++D FMLHYNMPPFATG+ GR+G PKRREIGHGRLAKRA
Sbjct: 361 LVVATLGTARDEQKIDALMGEYSDRFMLHYNMPPFATGETGRVGTPKRREIGHGRLAKRA 420

Query: 475 LLPVLPNNNKFNYSIRLVSEITESNGSSSMASVCGGCLALLDAGVPISEHVAGIAMGLIK 534
           L   LP    F+YS+RLVSEITESNGSSSMASVCGGCLAL+DAGVP+  HVAGIAMGLIK
Sbjct: 421 LQAALPAPEDFSYSVRLVSEITESNGSSSMASVCGGCLALMDAGVPMQAHVAGIAMGLIK 480

Query: 535 DGEKVVILSDILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGL 594
           +G K  +L+DILGDED  GDMDFKVAGT NGITALQMDIKI GIT +I+Q+AL +AK+G 
Sbjct: 481 EGSKFAVLTDILGDEDHLGDMDFKVAGTANGITALQMDIKIQGITKEIMQVALAQAKEGR 540

Query: 595 SYILEKMKTEVPKCKNELSKFAPRLITIKIDPSKIRDVIGKGGSTIRTLTEETGTQIDIN 654
            +IL KM+  VP  K ELS FAPRLIT+KI+P KIRDVIGKGG+ IR LTEETGTQIDI+
Sbjct: 541 IHILGKMQEAVPHGKTELSDFAPRLITVKINPEKIRDVIGKGGAVIRALTEETGTQIDIS 600

Query: 655 DEGIITIASFNSVSGQEAKRRIEKLTESVQIGKVYTGIVLRLFDFGAIIRILSGKDGLLH 714
           DEG++TIAS ++ +GQEAKRRIE+LT SV++GKVY G VL+L DFGAI+++L GKDGLLH
Sbjct: 601 DEGVVTIASVDAAAGQEAKRRIEELTASVEVGKVYEGTVLKLLDFGAIVQVLPGKDGLLH 660

Query: 715 ISQISSKRVNIITDFLKENQKVRVKVLGIDDRGRIKLSM 753
           ISQI+++RVN + D+LKE Q+VRVKVL  DDRGR+KLSM
Sbjct: 661 ISQIANERVNAVADYLKEGQQVRVKVLETDDRGRLKLSM 699

Source: Collimonas fungivorans Ter331

Species: Collimonas fungivorans

Genus: Collimonas

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi\|134095034\|ref\|YP_001100109.1\| polynucleotide phosphorylase [Herminiimonas arsenicoxydans] gi\|187610275\|sp\|A4G647.1\|PNP_HERAR RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName: Full=Polynucleotide phosphorylase; Short=PNPase gi\|133738937\|emb\|CAL61984.1\| Polyribonucleotide nucleotidyltransferase (Polynucleotide phosphorylase) (PNPase) [Herminiimonas arsenicoxydans]	Back alignment and taxonomy information

>gi\|399020444\|ref\|ZP_10722574.1\| polyribonucleotide nucleotidyltransferase [Herbaspirillum sp. CF444] gi\|398094859\|gb\|EJL85213.1\| polyribonucleotide nucleotidyltransferase [Herbaspirillum sp. CF444]	Back alignment and taxonomy information

>gi\|395763186\|ref\|ZP_10443855.1\| polynucleotide phosphorylase/polyadenylase [Janthinobacterium lividum PAMC 25724]	Back alignment and taxonomy information

>gi\|409405576\|ref\|ZP_11254038.1\| polyribonucleotide nucleotidyltransferase [Herbaspirillum sp. GW103] gi\|386434125\|gb\|EIJ46950.1\| polyribonucleotide nucleotidyltransferase [Herbaspirillum sp. GW103]	Back alignment and taxonomy information

>gi\|152979779\|ref\|YP_001353149.1\| polynucleotide phosphorylase [Janthinobacterium sp. Marseille] gi\|187610276\|sp\|A6SY02.1\|PNP_JANMA RecName: Full=Polyribonucleotide nucleotidyltransferase; AltName: Full=Polynucleotide phosphorylase; Short=PNPase gi\|151279856\|gb\|ABR88266.1\| polyribonucleotide nucleotidyltransferase [Janthinobacterium sp. Marseille]	Back alignment and taxonomy information

>gi\|300311084\|ref\|YP_003775176.1\| polyribonucleotide nucleotidyltransferase [Herbaspirillum seropedicae SmR1] gi\|300073869\|gb\|ADJ63268.1\| polyribonucleotide nucleotidyltransferase protein [Herbaspirillum seropedicae SmR1]	Back alignment and taxonomy information

>gi\|445498215\|ref\|ZP_21465070.1\| polyribonucleotide nucleotidyltransferase Pnp [Janthinobacterium sp. HH01] gi\|444788210\|gb\|ELX09758.1\| polyribonucleotide nucleotidyltransferase Pnp [Janthinobacterium sp. HH01]	Back alignment and taxonomy information

>gi\|415924064\|ref\|ZP_11554830.1\| polyribonucleotide nucleotidyltransferase [Herbaspirillum frisingense GSF30] gi\|407760420\|gb\|EKF69718.1\| polyribonucleotide nucleotidyltransferase [Herbaspirillum frisingense GSF30]	Back alignment and taxonomy information

>gi\|427401540\|ref\|ZP_18892612.1\| polyribonucleotide nucleotidyltransferase [Massilia timonae CCUG 45783] gi\|425719649\|gb\|EKU82581.1\| polyribonucleotide nucleotidyltransferase [Massilia timonae CCUG 45783]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		755
TIGR_CMR\|CPS_2207		705	CPS_2207 "polyribonucleotide n	0.912	0.977	0.549	1.1e-206
UNIPROTKB\|P05055		711	pnp "polynucleotide phosphoryl	0.912	0.969	0.549	2.6e-205
TIGR_CMR\|SO_1209		699	SO_1209 "polyribonucleotide nu	0.908	0.981	0.544	2e-200
UNIPROTKB\|Q9KU76		709	pnp "Polyribonucleotide nucleo	0.912	0.971	0.539	3.6e-199
TIGR_CMR\|VC_0647		709	VC_0647 "polyribonucleotide nu	0.912	0.971	0.539	3.6e-199
TIGR_CMR\|CBU_0852		696	CBU_0852 "polyribonucleotide n	0.911	0.988	0.529	1.5e-195
UNIPROTKB\|Q3IJ73		708	pnp "Polyribonucleotide nucleo	0.904	0.964	0.547	2.7e-194
UNIPROTKB\|Q0BWM9		713	pnp "Polyribonucleotide nucleo	0.909	0.963	0.476	6.4e-170
TIGR_CMR\|GSU_1593		697	GSU_1593 "polyribonucleotide n	0.896	0.971	0.497	3.6e-169
TIGR_CMR\|SPO_3389		714	SPO_3389 "polyribonucleotide n	0.907	0.959	0.477	6.8e-166

TIGR_CMR\|CPS_2207 CPS_2207 "polyribonucleotide nucleotidyltransferase" [Colwellia psychrerythraea 34H (taxid:167879)]	Back alignment and assigned GO terms

 Score = 1999 (708.7 bits), Expect = 1.1e-206, P = 1.1e-206
 Identities = 379/690 (54%), Positives = 518/690 (75%)

Query:    64 LFNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVVSCKDPTSTYNFFPLT 123
             + N I K F+ G + +++E G IARQA+++V+ S++DT +L +VV  K+     +FFPLT
Sbjct:     1 MLNPITKKFQLGKHTVTLETGAIARQASAAVMASMDDTCVLVSVVGKKEAKPGQDFFPLT 60

Query:   124 VDYIEKAYAAGRIPGSFFKREGKPSERETIISRLIDRPIRPLFPEGYLNEIQIVVYVLSV 183
             V+Y E+AYAAG+IPGSFFKREG+PSE ET+I+RLIDRPIRPLFPEG+ NE+Q+++ V+SV
Sbjct:    61 VNYQERAYAAGKIPGSFFKREGRPSEEETLIARLIDRPIRPLFPEGFTNEVQVIITVVSV 120

Query:   184 NPQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILNPTTEQLKKSHLDLLVA 243
             NP+I PDI S+IG S AL+IS LPF GP+G A+VGY DG+YILNP   +L  S LDL+V+
Sbjct:   121 NPEIAPDIISLIGTSAALAISGLPFSGPVGAARVGYTDGQYILNPLQSELPTSQLDLVVS 180

Query:   244 GTEKAIITVESESKQLPEDIILNAIIFGHEKMKIAINAINELVQNVGQKKVNWDPIVKDK 303
             GT+ A++ VESE+  L E+++L A+++GHE+M++A++AI E    V     +W   VK+ 
Sbjct:   181 GTDSAVLMVESEADVLSEEVMLGAVVYGHEQMQVAVSAIKEFKAEVNTPSWDWVAPVKNA 240

Query:   304 TLISKIINISEHKIRKAYQIKNKQIRDLTFKNISKDIYSSLIDNENLTIDINDINCILYD 363
              L++KI  +SE ++ +AYQI  K +R    K I   +  +L+  EN  +D+ +   + +D
Sbjct:   241 ELLAKIAELSEAQVNEAYQITEKAVRYEKIKEIRSSVLEALLA-ENADVDVQEAKDLFHD 299

Query:   364 LESKIIRKQILDKGLRIDNRGVNDIRPISIRTGILPRTHGSSLFTRGDTQALVVATLGTS 423
             LE  ++R +I D   RID R    IR + + TG+LPRTHGS++FTRG+TQALV ATLGT 
Sbjct:   300 LEKTVVRGRITDGNPRIDGRDPESIRALDVMTGVLPRTHGSAVFTRGETQALVTATLGTQ 359

Query:   424 RDEQKIDALMGEFTDSFMLHYNMPPFATGDIGRIGVPKRREIGHGRLAKRALLPVLPNNN 483
             RD Q++D LMG+ TD FMLHYN PP+  G+ G +G PKRREIGHGRLAKR +L V+P+  
Sbjct:   360 RDAQRLDTLMGDKTDPFMLHYNFPPYCVGETGFVGSPKRREIGHGRLAKRGMLAVMPSLE 419

Query:   484 KFNYSIRLVSEITESNGSSSMASVCGGCLALLDAGVPISEHVAGIAMGLIKDGEKVVILS 543
             +F Y++R+VSEITESNGSSSMASVCG  LAL+DAGVPI   VAGIAMGL+K+GEK V+LS
Sbjct:   420 EFPYAVRVVSEITESNGSSSMASVCGTSLALMDAGVPIKASVAGIAMGLVKEGEKFVVLS 479

Query:   544 DILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILEKMKT 603
             DILGDED  GDMDFKVAGT  GITALQMDIKI GIT +I+QIAL +AK   ++IL  M  
Sbjct:   480 DILGDEDHLGDMDFKVAGTTGGITALQMDIKIEGITQEIMQIALNQAKAARTHILSVMDE 539

Query:   604 EVPKCKNELSKFAPRLITIKIDPSKIRDVIGKGGSTIRTLTEETGTQIDINDEGIITIAS 663
              +   ++++S+FAPR+ T+K+   KIRD+IGKGG+TIR LTEETGT I+I D+G + IA+
Sbjct:   540 AIGGHRDDISEFAPRIHTMKVSQDKIRDIIGKGGATIRQLTEETGTTIEIEDDGTVKIAA 599

Query:   664 FNSVSGQEAKRRIEKLTESVQIGKVYTGIVLRLFDFGAIIRILSGKDGLLHISQISSKRV 723
              +    ++A  RI+ LT  +++G +YTG V+R+ DFGA + +L GKDGL+HISQIS +RV
Sbjct:   600 TSGEQAEDAINRIKALTAEIEVGTLYTGKVVRIVDFGAFVNVLPGKDGLVHISQISEERV 659

Query:   724 NIITDFLKENQKVRVKVLGIDDRGRIKLSM 753
             N +++ L E Q+V+VKVL +D +GR++LS+
Sbjct:   660 NNVSEVLTEGQEVKVKVLEVDRQGRVRLSI 689

GO:0004654 "polyribonucleotide nucleotidyltransferase activity" evidence=ISS

GO:0006402 "mRNA catabolic process" evidence=ISS

UNIPROTKB\|P05055 pnp "polynucleotide phosphorylase monomer" [Escherichia coli K-12 (taxid:83333)]	Back alignment and assigned GO terms

TIGR_CMR\|SO_1209 SO_1209 "polyribonucleotide nucleotidyltransferase" [Shewanella oneidensis MR-1 (taxid:211586)]	Back alignment and assigned GO terms

UNIPROTKB\|Q9KU76 pnp "Polyribonucleotide nucleotidyltransferase" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]	Back alignment and assigned GO terms

TIGR_CMR\|VC_0647 VC_0647 "polyribonucleotide nucleotidyltransferase" [Vibrio cholerae O1 biovar El Tor (taxid:686)]	Back alignment and assigned GO terms

TIGR_CMR\|CBU_0852 CBU_0852 "polyribonucleotide nucleotidyltransferase" [Coxiella burnetii RSA 493 (taxid:227377)]	Back alignment and assigned GO terms

UNIPROTKB\|Q3IJ73 pnp "Polyribonucleotide nucleotidyltransferase" [Pseudoalteromonas haloplanktis TAC125 (taxid:326442)]	Back alignment and assigned GO terms

UNIPROTKB\|Q0BWM9 pnp "Polyribonucleotide nucleotidyltransferase" [Hyphomonas neptunium ATCC 15444 (taxid:228405)]	Back alignment and assigned GO terms

TIGR_CMR\|GSU_1593 GSU_1593 "polyribonucleotide nucleotidyltransferase" [Geobacter sulfurreducens PCA (taxid:243231)]	Back alignment and assigned GO terms

TIGR_CMR\|SPO_3389 SPO_3389 "polyribonucleotide nucleotidyltransferase" [Ruegeria pomeroyi DSS-3 (taxid:246200)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
A9IGJ9	PNP_BORPD	2, ., 7, ., 7, ., 8	0.6095	0.9139	0.9596	yes	N/A
A1W4L8	PNP_ACISJ	2, ., 7, ., 7, ., 8	0.6014	0.9125	0.9477	yes	N/A
Q1LPW7	PNP_RALME	2, ., 7, ., 7, ., 8	0.5956	0.9125	0.9503	yes	N/A
B4E5M6	PNP_BURCJ	2, ., 7, ., 7, ., 8	0.5988	0.9125	0.9663	yes	N/A
Q21YD1	PNP_RHOFD	2, ., 7, ., 7, ., 8	0.5942	0.9125	0.9759	yes	N/A
Q7VZU0	PNP_BORPE	2, ., 7, ., 7, ., 8	0.6080	0.9139	0.9596	yes	N/A
Q1GXD2	PNP_METFK	2, ., 7, ., 7, ., 8	0.6046	0.9112	0.9635	yes	N/A
C5CT24	PNP_VARPS	2, ., 7, ., 7, ., 8	0.5942	0.9125	0.8924	yes	N/A
A1K7B5	PNP_AZOSB	2, ., 7, ., 7, ., 8	0.5903	0.9086	0.9814	yes	N/A
Q5NZR7	PNP_AROAE	2, ., 7, ., 7, ., 8	0.5743	0.9086	0.9814	yes	N/A
Q2Y5X9	PNP_NITMU	2, ., 7, ., 7, ., 8	0.5895	0.9099	0.9800	yes	N/A
Q39EE1	PNP_BURS3	2, ., 7, ., 7, ., 8	0.5974	0.9125	0.9636	yes	N/A
B9MEL0	PNP_ACIET	2, ., 7, ., 7, ., 8	0.6028	0.9125	0.9477	yes	N/A
Q3JUB3	PNP_BURP1	2, ., 7, ., 7, ., 8	0.6103	0.9125	0.9663	yes	N/A
B2JDN2	PNP_BURP8	2, ., 7, ., 7, ., 8	0.6002	0.9125	0.9676	yes	N/A
B1YTR1	PNP_BURA4	2, ., 7, ., 7, ., 8	0.5988	0.9125	0.9649	yes	N/A
Q7W570	PNP_BORPA	2, ., 7, ., 7, ., 8	0.6080	0.9139	0.9596	yes	N/A
Q2KWI6	PNP_BORA1	2, ., 7, ., 7, ., 8	0.6037	0.9139	0.9610	yes	N/A
A9BNB8	PNP_DELAS	2, ., 7, ., 7, ., 8	0.5884	0.9125	0.9150	yes	N/A
Q62IN1	PNP_BURMA	2, ., 7, ., 7, ., 8	0.6103	0.9125	0.9663	yes	N/A
B3R3W3	PNP_CUPTR	2, ., 7, ., 7, ., 8	0.5985	0.9125	0.9529	yes	N/A
B1Y823	PNP_LEPCP	2, ., 7, ., 7, ., 8	0.5985	0.9125	0.8983	yes	N/A
A9AJP0	PNP_BURM1	2, ., 7, ., 7, ., 8	0.6060	0.9125	0.9636	yes	N/A
B1XUJ5	PNP_POLNS	2, ., 7, ., 7, ., 8	0.5811	0.9112	0.9529	yes	N/A
A4JGD4	PNP_BURVG	2, ., 7, ., 7, ., 8	0.6002	0.9125	0.9636	yes	N/A
A1TLL2	PNP_ACIAC	2, ., 7, ., 7, ., 8	0.6072	0.9125	0.9089	yes	N/A
Q7WCQ0	PNP_BORBR	2, ., 7, ., 7, ., 8	0.6080	0.9139	0.9596	yes	N/A
B2T2E3	PNP_BURPP	2, ., 7, ., 7, ., 8	0.5945	0.9125	0.9596	yes	N/A
Q1BV09	PNP_BURCA	2, ., 7, ., 7, ., 8	0.5959	0.9125	0.9636	yes	N/A
A1VM56	PNP_POLNA	2, ., 7, ., 7, ., 8	0.5956	0.9125	0.9800	yes	N/A
Q63VN7	PNP_BURPS	2, ., 7, ., 7, ., 8	0.6103	0.9125	0.9663	yes	N/A
A2S463	PNP_BURM9	2, ., 7, ., 7, ., 8	0.6103	0.9125	0.9663	yes	N/A
A4SXQ7	PNP_POLSQ	2, ., 7, ., 7, ., 8	0.5826	0.9112	0.9529	yes	N/A
Q473U7	PNP_CUPPJ	2, ., 7, ., 7, ., 8	0.5942	0.9125	0.9464	yes	N/A
A3N7L3	PNP_BURP6	2, ., 7, ., 7, ., 8	0.6103	0.9125	0.9663	yes	N/A
A3MI97	PNP_BURM7	2, ., 7, ., 7, ., 8	0.6103	0.9125	0.9663	yes	N/A
Q142H7	PNP_BURXL	2, ., 7, ., 7, ., 8	0.5945	0.9125	0.9622	yes	N/A
A6SY02	PNP_JANMA	2, ., 7, ., 7, ., 8	0.6546	0.9139	0.9704	yes	N/A
Q0KCT4	PNP_CUPNH	2, ., 7, ., 7, ., 8	0.5971	0.9125	0.9529	yes	N/A
Q8XXP6	PNP_RALSO	2, ., 7, ., 7, ., 8	0.5942	0.9125	0.9609	yes	N/A
A0K927	PNP_BURCH	2, ., 7, ., 7, ., 8	0.5959	0.9125	0.9636	yes	N/A
Q2SZN9	PNP_BURTA	2, ., 7, ., 7, ., 8	0.6103	0.9125	0.9663	yes	N/A
B1JVP5	PNP_BURCC	2, ., 7, ., 7, ., 8	0.5959	0.9125	0.9636	yes	N/A
B2U7R6	PNP_RALPJ	2, ., 7, ., 7, ., 8	0.5913	0.9125	0.9516	yes	N/A
Q0BDC6	PNP_BURCM	2, ., 7, ., 7, ., 8	0.5988	0.9125	0.9649	yes	N/A
A3NTA2	PNP_BURP0	2, ., 7, ., 7, ., 8	0.6103	0.9125	0.9663	yes	N/A
A2SFM2	PNP_METPP	2, ., 7, ., 7, ., 8	0.6072	0.9125	0.9174	yes	N/A
A1V2L2	PNP_BURMS	2, ., 7, ., 7, ., 8	0.6103	0.9125	0.9663	yes	N/A
Q127W8	PNP_POLSJ	2, ., 7, ., 7, ., 8	0.5942	0.9125	0.9745	yes	N/A
A4G647	PNP_HERAR	2, ., 7, ., 7, ., 8	0.6575	0.9139	0.9718	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
4th Layer	2.7.7.8	0.946
3rd Layer	2.7.7	0.963

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Alignment Graph	Length	Definition	E-value
Query		755
PRK11824		693	PRK11824, PRK11824, polynucleotide phosphorylase/p	0.0
TIGR03591		684	TIGR03591, polynuc_phos, polyribonucleotide nucleo	0.0
COG1185		692	COG1185, Pnp, Polyribonucleotide nucleotidyltransf	0.0
PLN00207		891	PLN00207, PLN00207, polyribonucleotide nucleotidyl	0.0
TIGR02696		719	TIGR02696, pppGpp_PNP, guanosine pentaphosphate sy	0.0
cd11364		223	cd11364, RNase_PH_PNPase_2, Polyribonucleotide nuc	1e-135
cd11363		229	cd11363, RNase_PH_PNPase_1, Polyribonucleotide nuc	1e-111
pfam01138		129	pfam01138, RNase_PH, 3' exoribonuclease family, do	1e-32
cd11358		218	cd11358, RNase_PH, RNase PH-like 3'-5' exoribonucl	1e-30
pfam01138		129	pfam01138, RNase_PH, 3' exoribonuclease family, do	4e-27
PRK03983		244	PRK03983, PRK03983, exosome complex exonuclease Rr	2e-26
PRK05626		89	PRK05626, rpsO, 30S ribosomal protein S15; Reviewe	1e-25
TIGR02065		230	TIGR02065, ECX1, archaeal exosome-like complex exo	1e-24
cd04472		68	cd04472, S1_PNPase, S1_PNPase: Polynucleotide phos	1e-23
COG0689		230	COG0689, Rph, RNase PH [Translation, ribosomal str	2e-22
cd11366		214	cd11366, RNase_PH_archRRP41, RRP41 subunit of arch	4e-22
cd05692		69	cd05692, S1_RPS1_repeat_hs4, S1_RPS1_repeat_hs4: R	9e-20
cd02393		61	cd02393, PNPase_KH, Polynucleotide phosphorylase (	2e-19
COG0184		89	COG0184, RpsO, Ribosomal protein S15P/S13E [Transl	4e-19
TIGR00952		86	TIGR00952, S15_bact, ribosomal protein S15, bacter	7e-18
PRK06676		390	PRK06676, rpsA, 30S ribosomal protein S1; Reviewed	8e-18
PRK06676		390	PRK06676, rpsA, 30S ribosomal protein S1; Reviewed	9e-17
smart00316		72	smart00316, S1, Ribosomal protein S1-like RNA-bind	9e-16
cd11358		218	cd11358, RNase_PH, RNase PH-like 3'-5' exoribonucl	1e-15
cd05684		79	cd05684, S1_DHX8_helicase, S1_DHX8_helicase: The N	2e-15
PRK05807		136	PRK05807, PRK05807, hypothetical protein; Provisio	2e-15
COG1098		129	COG1098, VacB, Predicted RNA binding protein (cont	4e-15
cd00353		80	cd00353, Ribosomal_S15p_S13e, Ribosomal protein S1	5e-15
PRK00087		647	PRK00087, PRK00087, 4-hydroxy-3-methylbut-2-enyl d	5e-15
COG0539		541	COG0539, RpsA, Ribosomal protein S1 [Translation,	1e-14
PRK00087		647	PRK00087, PRK00087, 4-hydroxy-3-methylbut-2-enyl d	5e-14
cd05688		68	cd05688, S1_RPS1_repeat_ec3, S1_RPS1_repeat_ec3: R	5e-14
PRK06299		565	PRK06299, rpsA, 30S ribosomal protein S1; Reviewed	5e-14
pfam00575		74	pfam00575, S1, S1 RNA binding domain	1e-13
cd11370		226	cd11370, RNase_PH_RRP41, RRP41 subunit of eukaryot	3e-13
COG0539		541	COG0539, RpsA, Ribosomal protein S1 [Translation,	7e-13
pfam00312		83	pfam00312, Ribosomal_S15, Ribosomal protein S15	1e-12
cd00164		65	cd00164, S1_like, S1_like: Ribosomal protein S1-li	2e-12
TIGR00717		516	TIGR00717, rpsA, ribosomal protein S1	7e-12
pfam03726		80	pfam03726, PNPase, Polyribonucleotide nucleotidylt	3e-11
PRK13806		491	PRK13806, rpsA, 30S ribosomal protein S1; Provisio	3e-11
cd05685		68	cd05685, S1_Tex, S1_Tex: The C-terminal S1 domain	8e-11
PRK03987		262	PRK03987, PRK03987, translation initiation factor	4e-10
cd04452		76	cd04452, S1_IF2_alpha, S1_IF2_alpha: The alpha sub	6e-10
COG1093		269	COG1093, SUI2, Translation initiation factor 2, al	9e-10
PRK08059		123	PRK08059, PRK08059, general stress protein 13; Val	1e-09
cd11372		199	cd11372, RNase_PH_RRP46, RRP46 subunit of eukaryot	1e-09
PRK13806		491	PRK13806, rpsA, 30S ribosomal protein S1; Provisio	3e-09
PRK08582		139	PRK08582, PRK08582, hypothetical protein; Provisio	3e-09
PRK04282		271	PRK04282, PRK04282, exosome complex RNA-binding pr	4e-09
PRK07899		486	PRK07899, rpsA, 30S ribosomal protein S1; Reviewed	6e-09
PRK06299		565	PRK06299, rpsA, 30S ribosomal protein S1; Reviewed	8e-09
pfam00013		59	pfam00013, KH_1, KH domain	8e-09
PRK06299		565	PRK06299, rpsA, 30S ribosomal protein S1; Reviewed	1e-08
TIGR01966		236	TIGR01966, RNasePH, ribonuclease PH	1e-08
pfam03725		68	pfam03725, RNase_PH_C, 3' exoribonuclease family,	3e-08
COG2183		780	COG2183, Tex, Transcriptional accessory protein [T	3e-08
cd00105		64	cd00105, KH-I, K homology RNA-binding domain, type	5e-08
cd11362		227	cd11362, RNase_PH_bact, Ribonuclease PH	7e-08
cd05708		77	cd05708, S1_Rrp5_repeat_sc12, S1_Rrp5_repeat_sc12:	7e-08
PRK06299		565	PRK06299, rpsA, 30S ribosomal protein S1; Reviewed	9e-08
CHL00027		90	CHL00027, rps15, ribosomal protein S15	1e-07
TIGR00717		516	TIGR00717, rpsA, ribosomal protein S1	2e-07
cd00677		46	cd00677, S15_NS1_EPRS_RNA-bind, S15/NS1/EPRS_RNA-b	2e-07
cd11365		256	cd11365, RNase_PH_archRRP42, RRP42 subunit of arch	2e-07
cd05686		73	cd05686, S1_pNO40, S1_pNO40: pNO40 , S1-like RNA-b	2e-07
COG2123		272	COG2123, COG2123, RNase PH-related exoribonuclease	4e-07
cd04461		83	cd04461, S1_Rrp5_repeat_hs8_sc7, S1_Rrp5_repeat_hs	4e-07
PRK07899		486	PRK07899, rpsA, 30S ribosomal protein S1; Reviewed	1e-06
smart00322		68	smart00322, KH, K homology RNA-binding domain	4e-06
COG0539		541	COG0539, RpsA, Ribosomal protein S1 [Translation,	9e-06
cd05690		69	cd05690, S1_RPS1_repeat_ec5, S1_RPS1_repeat_ec5: R	1e-05
PRK07400		318	PRK07400, PRK07400, 30S ribosomal protein S1; Revi	1e-05
PRK12269		863	PRK12269, PRK12269, bifunctional cytidylate kinase	3e-05
cd11363		229	cd11363, RNase_PH_PNPase_1, Polyribonucleotide nuc	4e-05
COG0689		230	COG0689, Rph, RNase PH [Translation, ribosomal str	4e-05
TIGR00717		516	TIGR00717, rpsA, ribosomal protein S1	1e-04
cd11371		210	cd11371, RNase_PH_MTR3, MTR3 subunit of eukaryotic	2e-04
cd02394		62	cd02394, vigilin_like_KH, K homology RNA-binding d	3e-04
PRK04163		235	PRK04163, PRK04163, exosome complex RNA-binding pr	3e-04
cd04453		88	cd04453, S1_RNase_E, S1_RNase_E: RNase E and RNase	5e-04
TIGR00717		516	TIGR00717, rpsA, ribosomal protein S1	6e-04
PRK07252		120	PRK07252, PRK07252, hypothetical protein; Provisio	6e-04
cd11367		272	cd11367, RNase_PH_RRP42, RRP42 subunit of eukaryot	7e-04
pfam03725		68	pfam03725, RNase_PH_C, 3' exoribonuclease family,	0.001
PRK12269		863	PRK12269, PRK12269, bifunctional cytidylate kinase	0.001
PRK00173		238	PRK00173, rph, ribonuclease PH; Reviewed	0.001
cd05691		73	cd05691, S1_RPS1_repeat_ec6, S1_RPS1_repeat_ec6: R	0.001
cd05698		70	cd05698, S1_Rrp5_repeat_hs6_sc5, S1_Rrp5_repeat_hs	0.001
cd04473		77	cd04473, S1_RecJ_like, S1_RecJ_like: The S1 domain	0.001
PRK13763		180	PRK13763, PRK13763, putative RNA-processing protei	0.002
cd05689		72	cd05689, S1_RPS1_repeat_ec4, S1_RPS1_repeat_ec4: R	0.002
pfam13014		42	pfam13014, KH_3, KH domain	0.002
cd04460		99	cd04460, S1_RpoE, S1_RpoE: RpoE, S1-like RNA-bindi	0.004

>gnl\|CDD\|236995 PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase; Provisional	Back alignment and domain information

 Score = 1123 bits (2907), Expect = 0.0
 Identities = 395/689 (57%), Positives = 519/689 (75%), Gaps = 1/689 (0%)

Query: 65  FNKIIKSFKYGSYKISIEIGEIARQATSSVLVSIEDTVILATVVSCKDPTSTYNFFPLTV 124
           FNKI+KS ++G   +++E G++ARQA  +VLV   DTV+L TVV+ K+P    +FFPLTV
Sbjct: 2   FNKIVKSIEFGGRTLTLETGKLARQANGAVLVRYGDTVVLVTVVASKEPKEGQDFFPLTV 61

Query: 125 DYIEKAYAAGRIPGSFFKREGKPSERETIISRLIDRPIRPLFPEGYLNEIQIVVYVLSVN 184
           DY EK YAAG+IPG FFKREG+PSE+ET+ SRLIDRPIRPLFP+G+ NE+Q+V  VLSV+
Sbjct: 62  DYEEKTYAAGKIPGGFFKREGRPSEKETLTSRLIDRPIRPLFPKGFRNEVQVVATVLSVD 121

Query: 185 PQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILNPTTEQLKKSHLDLLVAG 244
           P+ DPDI ++IG S ALSIS +PF GP+   +VGYIDG+++LNPT E+L++S LDL+VAG
Sbjct: 122 PENDPDILAMIGASAALSISGIPFNGPIAAVRVGYIDGEFVLNPTVEELEESDLDLVVAG 181

Query: 245 TEKAIITVESESKQLPEDIILNAIIFGHEKMKIAINAINELVQNVGQKKVNWDPIVKDKT 304
           T+ A++ VESE+K+L E+++L AI FGHE ++  I+A  EL    G  K  W P   D+ 
Sbjct: 182 TKDAVLMVESEAKELSEEVMLEAIEFGHEAIQELIDAQEELAAEAG-PKWEWQPPEVDEE 240

Query: 305 LISKIINISEHKIRKAYQIKNKQIRDLTFKNISKDIYSSLIDNENLTIDINDINCILYDL 364
           L + +  ++E K+++AYQI +KQ R+     I +++  +L   E    D  +I      L
Sbjct: 241 LKAAVKELAEAKLKEAYQITDKQEREAALDAIKEEVLEALAAEEEEEEDEKEIKEAFKKL 300

Query: 365 ESKIIRKQILDKGLRIDNRGVNDIRPISIRTGILPRTHGSSLFTRGDTQALVVATLGTSR 424
           E KI+R++IL++G+RID R +++IRPISI  G+LPRTHGS+LFTRG+TQALVVATLGT R
Sbjct: 301 EKKIVRRRILEEGIRIDGRKLDEIRPISIEVGVLPRTHGSALFTRGETQALVVATLGTLR 360

Query: 425 DEQKIDALMGEFTDSFMLHYNMPPFATGDIGRIGVPKRREIGHGRLAKRALLPVLPNNNK 484
           DEQ ID L GE+   FMLHYN PP++ G+ GR+G P RREIGHG LA+RAL PVLP+  +
Sbjct: 361 DEQIIDGLEGEYKKRFMLHYNFPPYSVGETGRVGSPGRREIGHGALAERALEPVLPSEEE 420

Query: 485 FNYSIRLVSEITESNGSSSMASVCGGCLALLDAGVPISEHVAGIAMGLIKDGEKVVILSD 544
           F Y+IR+VSEI ESNGSSSMASVCG  LAL+DAGVPI   VAGIAMGLIK+G+K  +L+D
Sbjct: 421 FPYTIRVVSEILESNGSSSMASVCGSSLALMDAGVPIKAPVAGIAMGLIKEGDKYAVLTD 480

Query: 545 ILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILEKMKTE 604
           ILGDED  GDMDFKVAGT +GITALQMDIKI GIT +I++ AL +AK+G  +IL KM   
Sbjct: 481 ILGDEDHLGDMDFKVAGTRDGITALQMDIKIDGITREILEEALEQAKEGRLHILGKMNEA 540

Query: 605 VPKCKNELSKFAPRLITIKIDPSKIRDVIGKGGSTIRTLTEETGTQIDINDEGIITIASF 664
           + + + ELS +APR+ TIKI P KIRDVIG GG TIR +TEETG +IDI D+G + IA+ 
Sbjct: 541 ISEPRAELSPYAPRIETIKIPPDKIRDVIGPGGKTIREITEETGAKIDIEDDGTVKIAAT 600

Query: 665 NSVSGQEAKRRIEKLTESVQIGKVYTGIVLRLFDFGAIIRILSGKDGLLHISQISSKRVN 724
           +  + + AK RIE +T   ++G++Y G V+R+ DFGA + IL GKDGL+HIS+I+ +RV 
Sbjct: 601 DGEAAEAAKERIEGITAEPEVGEIYEGKVVRIVDFGAFVEILPGKDGLVHISEIADERVE 660

Query: 725 IITDFLKENQKVRVKVLGIDDRGRIKLSM 753
            + D LKE  +V+VKVL ID RGRI+LS 
Sbjct: 661 KVEDVLKEGDEVKVKVLEIDKRGRIRLSR 689

Length = 693

>gnl\|CDD\|234271 TIGR03591, polynuc_phos, polyribonucleotide nucleotidyltransferase	Back alignment and domain information

>gnl\|CDD\|224106 COG1185, Pnp, Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|215104 PLN00207, PLN00207, polyribonucleotide nucleotidyltransferase; Provisional	Back alignment and domain information

>gnl\|CDD\|131743 TIGR02696, pppGpp_PNP, guanosine pentaphosphate synthetase I/polynucleotide phosphorylase	Back alignment and domain information

>gnl\|CDD\|206769 cd11364, RNase_PH_PNPase_2, Polyribonucleotide nucleotidyltransferase, repeat 2	Back alignment and domain information

>gnl\|CDD\|206768 cd11363, RNase_PH_PNPase_1, Polyribonucleotide nucleotidyltransferase, repeat 1	Back alignment and domain information

>gnl\|CDD\|216323 pfam01138, RNase_PH, 3' exoribonuclease family, domain 1	Back alignment and domain information

>gnl\|CDD\|206766 cd11358, RNase_PH, RNase PH-like 3'-5' exoribonucleases	Back alignment and domain information

>gnl\|CDD\|216323 pfam01138, RNase_PH, 3' exoribonuclease family, domain 1	Back alignment and domain information

>gnl\|CDD\|235187 PRK03983, PRK03983, exosome complex exonuclease Rrp41; Provisional	Back alignment and domain information

>gnl\|CDD\|180170 PRK05626, rpsO, 30S ribosomal protein S15; Reviewed	Back alignment and domain information

>gnl\|CDD\|131120 TIGR02065, ECX1, archaeal exosome-like complex exonuclease 1	Back alignment and domain information

>gnl\|CDD\|239918 cd04472, S1_PNPase, S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain	Back alignment and domain information

>gnl\|CDD\|223761 COG0689, Rph, RNase PH [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|206771 cd11366, RNase_PH_archRRP41, RRP41 subunit of archaeal exosome	Back alignment and domain information

>gnl\|CDD\|240197 cd05692, S1_RPS1_repeat_hs4, S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>gnl\|CDD\|239086 cd02393, PNPase_KH, Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH)	Back alignment and domain information

>gnl\|CDD\|223262 COG0184, RpsO, Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|130027 TIGR00952, S15_bact, ribosomal protein S15, bacterial/organelle	Back alignment and domain information

>gnl\|CDD\|235851 PRK06676, rpsA, 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>gnl\|CDD\|235851 PRK06676, rpsA, 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>gnl\|CDD\|197648 smart00316, S1, Ribosomal protein S1-like RNA-binding domain	Back alignment and domain information

>gnl\|CDD\|206766 cd11358, RNase_PH, RNase PH-like 3'-5' exoribonucleases	Back alignment and domain information

>gnl\|CDD\|240189 cd05684, S1_DHX8_helicase, S1_DHX8_helicase: The N-terminal S1 domain of human ATP-dependent RNA helicase DHX8, a DEAH (Asp-Glu-Ala-His) box polypeptide	Back alignment and domain information

>gnl\|CDD\|235614 PRK05807, PRK05807, hypothetical protein; Provisional	Back alignment and domain information

>gnl\|CDD\|224023 COG1098, VacB, Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|238213 cd00353, Ribosomal_S15p_S13e, Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome	Back alignment and domain information

>gnl\|CDD\|234623 PRK00087, PRK00087, 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed	Back alignment and domain information

>gnl\|CDD\|223613 COG0539, RpsA, Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|234623 PRK00087, PRK00087, 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed	Back alignment and domain information

>gnl\|CDD\|240193 cd05688, S1_RPS1_repeat_ec3, S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>gnl\|CDD\|235775 PRK06299, rpsA, 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>gnl\|CDD\|216000 pfam00575, S1, S1 RNA binding domain	Back alignment and domain information

>gnl\|CDD\|206775 cd11370, RNase_PH_RRP41, RRP41 subunit of eukaryotic exosome	Back alignment and domain information

>gnl\|CDD\|223613 COG0539, RpsA, Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|109373 pfam00312, Ribosomal_S15, Ribosomal protein S15	Back alignment and domain information

>gnl\|CDD\|238094 cd00164, S1_like, S1_like: Ribosomal protein S1-like RNA-binding domain	Back alignment and domain information

>gnl\|CDD\|233102 TIGR00717, rpsA, ribosomal protein S1	Back alignment and domain information

>gnl\|CDD\|217697 pfam03726, PNPase, Polyribonucleotide nucleotidyltransferase, RNA binding domain	Back alignment and domain information

>gnl\|CDD\|237516 PRK13806, rpsA, 30S ribosomal protein S1; Provisional	Back alignment and domain information

>gnl\|CDD\|240190 cd05685, S1_Tex, S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa	Back alignment and domain information

>gnl\|CDD\|235188 PRK03987, PRK03987, translation initiation factor IF-2 subunit alpha; Validated	Back alignment and domain information

>gnl\|CDD\|239899 cd04452, S1_IF2_alpha, S1_IF2_alpha: The alpha subunit of translation Initiation Factor 2, S1-like RNA-binding domain	Back alignment and domain information

>gnl\|CDD\|224018 COG1093, SUI2, Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|181215 PRK08059, PRK08059, general stress protein 13; Validated	Back alignment and domain information

>gnl\|CDD\|206777 cd11372, RNase_PH_RRP46, RRP46 subunit of eukaryotic exosome	Back alignment and domain information

>gnl\|CDD\|237516 PRK13806, rpsA, 30S ribosomal protein S1; Provisional	Back alignment and domain information

>gnl\|CDD\|236305 PRK08582, PRK08582, hypothetical protein; Provisional	Back alignment and domain information

>gnl\|CDD\|235268 PRK04282, PRK04282, exosome complex RNA-binding protein Rrp42; Provisional	Back alignment and domain information

>gnl\|CDD\|236126 PRK07899, rpsA, 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>gnl\|CDD\|235775 PRK06299, rpsA, 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>gnl\|CDD\|215657 pfam00013, KH_1, KH domain	Back alignment and domain information

>gnl\|CDD\|235775 PRK06299, rpsA, 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>gnl\|CDD\|131021 TIGR01966, RNasePH, ribonuclease PH	Back alignment and domain information

>gnl\|CDD\|217696 pfam03725, RNase_PH_C, 3' exoribonuclease family, domain 2	Back alignment and domain information

>gnl\|CDD\|225094 COG2183, Tex, Transcriptional accessory protein [Transcription]	Back alignment and domain information

>gnl\|CDD\|238053 cd00105, KH-I, K homology RNA-binding domain, type I	Back alignment and domain information

>gnl\|CDD\|206767 cd11362, RNase_PH_bact, Ribonuclease PH	Back alignment and domain information

>gnl\|CDD\|240213 cd05708, S1_Rrp5_repeat_sc12, S1_Rrp5_repeat_sc12: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>gnl\|CDD\|235775 PRK06299, rpsA, 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>gnl\|CDD\|214339 CHL00027, rps15, ribosomal protein S15	Back alignment and domain information

>gnl\|CDD\|233102 TIGR00717, rpsA, ribosomal protein S1	Back alignment and domain information

>gnl\|CDD\|238361 cd00677, S15_NS1_EPRS_RNA-bind, S15/NS1/EPRS_RNA-binding domain	Back alignment and domain information

>gnl\|CDD\|206770 cd11365, RNase_PH_archRRP42, RRP42 subunit of archaeal exosome	Back alignment and domain information

>gnl\|CDD\|240191 cd05686, S1_pNO40, S1_pNO40: pNO40 , S1-like RNA-binding domain	Back alignment and domain information

>gnl\|CDD\|225034 COG2123, COG2123, RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|239908 cd04461, S1_Rrp5_repeat_hs8_sc7, S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains	Back alignment and domain information

>gnl\|CDD\|236126 PRK07899, rpsA, 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>gnl\|CDD\|197652 smart00322, KH, K homology RNA-binding domain	Back alignment and domain information

>gnl\|CDD\|223613 COG0539, RpsA, Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|240195 cd05690, S1_RPS1_repeat_ec5, S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>gnl\|CDD\|180960 PRK07400, PRK07400, 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>gnl\|CDD\|105491 PRK12269, PRK12269, bifunctional cytidylate kinase/ribosomal protein S1; Provisional	Back alignment and domain information

>gnl\|CDD\|206768 cd11363, RNase_PH_PNPase_1, Polyribonucleotide nucleotidyltransferase, repeat 1	Back alignment and domain information

>gnl\|CDD\|223761 COG0689, Rph, RNase PH [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|233102 TIGR00717, rpsA, ribosomal protein S1	Back alignment and domain information

>gnl\|CDD\|206776 cd11371, RNase_PH_MTR3, MTR3 subunit of eukaryotic exosome	Back alignment and domain information

>gnl\|CDD\|239087 cd02394, vigilin_like_KH, K homology RNA-binding domain_vigilin_like	Back alignment and domain information

>gnl\|CDD\|235233 PRK04163, PRK04163, exosome complex RNA-binding protein Rrp4; Provisional	Back alignment and domain information

>gnl\|CDD\|239900 cd04453, S1_RNase_E, S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain	Back alignment and domain information

>gnl\|CDD\|233102 TIGR00717, rpsA, ribosomal protein S1	Back alignment and domain information

>gnl\|CDD\|180908 PRK07252, PRK07252, hypothetical protein; Provisional	Back alignment and domain information

>gnl\|CDD\|206772 cd11367, RNase_PH_RRP42, RRP42 subunit of eukaryotic exosome	Back alignment and domain information

>gnl\|CDD\|217696 pfam03725, RNase_PH_C, 3' exoribonuclease family, domain 2	Back alignment and domain information

>gnl\|CDD\|105491 PRK12269, PRK12269, bifunctional cytidylate kinase/ribosomal protein S1; Provisional	Back alignment and domain information

>gnl\|CDD\|178914 PRK00173, rph, ribonuclease PH; Reviewed	Back alignment and domain information

>gnl\|CDD\|240196 cd05691, S1_RPS1_repeat_ec6, S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>gnl\|CDD\|240203 cd05698, S1_Rrp5_repeat_hs6_sc5, S1_Rrp5_repeat_hs6_sc5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>gnl\|CDD\|239919 cd04473, S1_RecJ_like, S1_RecJ_like: The S1 domain of the archaea-specific RecJ-like exonuclease	Back alignment and domain information

>gnl\|CDD\|237494 PRK13763, PRK13763, putative RNA-processing protein; Provisional	Back alignment and domain information

>gnl\|CDD\|240194 cd05689, S1_RPS1_repeat_ec4, S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>gnl\|CDD\|221895 pfam13014, KH_3, KH domain	Back alignment and domain information

>gnl\|CDD\|239907 cd04460, S1_RpoE, S1_RpoE: RpoE, S1-like RNA-binding domain	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		755
TIGR02696		719	pppGpp_PNP guanosine pentaphosphate synthetase I/p	100.0
COG1185		692	Pnp Polyribonucleotide nucleotidyltransferase (pol	100.0
PLN00207		891	polyribonucleotide nucleotidyltransferase; Provisi	100.0
PRK11824		693	polynucleotide phosphorylase/polyadenylase; Provis	100.0
TIGR03591		684	polynuc_phos polyribonucleotide nucleotidyltransfe	100.0
KOG1067\|consensus		760		100.0
TIGR02065		230	ECX1 archaeal exosome-like complex exonuclease 1.	100.0
PRK03983		244	exosome complex exonuclease Rrp41; Provisional	100.0
PRK00173		238	rph ribonuclease PH; Reviewed	100.0
TIGR01966		236	RNasePH ribonuclease PH. This bacterial enzyme, ri	100.0
PRK04282		271	exosome complex RNA-binding protein Rrp42; Provisi	100.0
PLN00207		891	polyribonucleotide nucleotidyltransferase; Provisi	100.0
COG0689		230	Rph RNase PH [Translation, ribosomal structure and	100.0
TIGR02065		230	ECX1 archaeal exosome-like complex exonuclease 1.	100.0
PRK00173		238	rph ribonuclease PH; Reviewed	100.0
KOG1068\|consensus		245		100.0
PRK03983		244	exosome complex exonuclease Rrp41; Provisional	100.0
COG2123		272	RNase PH-related exoribonuclease [Translation, rib	100.0
TIGR01966		236	RNasePH ribonuclease PH. This bacterial enzyme, ri	100.0
TIGR03591		684	polynuc_phos polyribonucleotide nucleotidyltransfe	100.0
PRK11824		693	polynucleotide phosphorylase/polyadenylase; Provis	100.0
COG0689		230	Rph RNase PH [Translation, ribosomal structure and	99.97
KOG1614\|consensus		291		99.97
KOG1069\|consensus		217		99.96
TIGR02696		719	pppGpp_PNP guanosine pentaphosphate synthetase I/p	99.96
PRK04282		271	exosome complex RNA-binding protein Rrp42; Provisi	99.95
KOG1069\|consensus		217		99.94
KOG1068\|consensus		245		99.93
COG2123		272	RNase PH-related exoribonuclease [Translation, rib	99.93
KOG1613\|consensus		298		99.92
KOG1612\|consensus		288		99.91
PF01138		132	RNase_PH: 3' exoribonuclease family, domain 1 This	99.9
PRK05626		89	rpsO 30S ribosomal protein S15; Reviewed	99.86
TIGR00952		86	S15_bact ribosomal protein S15, bacterial/organell	99.83
KOG1614\|consensus		291		99.82
COG1185		692	Pnp Polyribonucleotide nucleotidyltransferase (pol	99.82
COG0184		89	RpsO Ribosomal protein S15P/S13E [Translation, rib	99.8
KOG1067\|consensus		760		99.78
PF01138		132	RNase_PH: 3' exoribonuclease family, domain 1 This	99.77
COG1098		129	VacB Predicted RNA binding protein (contains ribos	99.75
COG0539		541	RpsA Ribosomal protein S1 [Translation, ribosomal	99.73
PTZ00119		302	40S ribosomal protein S15; Provisional	99.72
cd00353		80	Ribosomal_S15p_S13e Ribosomal protein S15 (prokary	99.72
COG0539		541	RpsA Ribosomal protein S1 [Translation, ribosomal	99.7
CHL00027		90	rps15 ribosomal protein S15	99.7
PF00312		83	Ribosomal_S15: Ribosomal protein S15; InterPro: IP	99.66
cd05704		72	S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: Rrp5 is a	99.58
cd05686		73	S1_pNO40 S1_pNO40: pNO40 , S1-like RNA-binding dom	99.56
cd05705		74	S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a	99.55
PRK08582		139	hypothetical protein; Provisional	99.52
cd04461		83	S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp	99.49
cd05696		71	S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: Rrp5 is a t	99.49
cd05698		70	S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: Rrp	99.49
cd04452		76	S1_IF2_alpha S1_IF2_alpha: The alpha subunit of tr	99.48
PTZ00248		319	eukaryotic translation initiation factor 2 subunit	99.47
PRK07899		486	rpsA 30S ribosomal protein S1; Reviewed	99.46
cd05706		73	S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a	99.46
PF00575		74	S1: S1 RNA binding domain; InterPro: IPR003029 Rib	99.45
cd05697		69	S1_Rrp5_repeat_hs5 S1_Rrp5_repeat_hs5: Rrp5 is a t	99.45
cd05703		73	S1_Rrp5_repeat_hs12_sc9 S1_Rrp5_repeat_hs12_sc9: R	99.44
cd05707		68	S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: Rrp5 is a	99.44
cd05690		69	S1_RPS1_repeat_ec5 S1_RPS1_repeat_ec5: Ribosomal p	99.44
PRK05807		136	hypothetical protein; Provisional	99.43
PRK07252		120	hypothetical protein; Provisional	99.42
PRK07400		318	30S ribosomal protein S1; Reviewed	99.41
cd05684		79	S1_DHX8_helicase S1_DHX8_helicase: The N-terminal	99.41
cd05692		69	S1_RPS1_repeat_hs4 S1_RPS1_repeat_hs4: Ribosomal p	99.41
PRK12269		863	bifunctional cytidylate kinase/ribosomal protein S	99.41
cd05689		72	S1_RPS1_repeat_ec4 S1_RPS1_repeat_ec4: Ribosomal p	99.4
PHA02945		88	interferon resistance protein; Provisional	99.4
cd05708		77	S1_Rrp5_repeat_sc12 S1_Rrp5_repeat_sc12: Rrp5 is a	99.4
PRK07899		486	rpsA 30S ribosomal protein S1; Reviewed	99.4
PRK13806		491	rpsA 30S ribosomal protein S1; Provisional	99.39
cd05691		73	S1_RPS1_repeat_ec6 S1_RPS1_repeat_ec6: Ribosomal p	99.37
PRK13806		491	rpsA 30S ribosomal protein S1; Provisional	99.36
PRK06299		565	rpsA 30S ribosomal protein S1; Reviewed	99.36
PF03726		83	PNPase: Polyribonucleotide nucleotidyltransferase,	99.35
cd05687		70	S1_RPS1_repeat_ec1_hs1 S1_RPS1_repeat_ec1_hs1: Rib	99.35
cd04472		68	S1_PNPase S1_PNPase: Polynucleotide phosphorylase	99.34
PRK08059		123	general stress protein 13; Validated	99.33
COG1093		269	SUI2 Translation initiation factor 2, alpha subuni	99.33
KOG1612\|consensus		288		99.33
cd05685		68	S1_Tex S1_Tex: The C-terminal S1 domain of a trans	99.32
cd05694		74	S1_Rrp5_repeat_hs2_sc2 S1_Rrp5_repeat_hs2_sc2: Rrp	99.32
cd05789		86	S1_Rrp4 S1_Rrp4: Rrp4 S1-like RNA-binding domain.	99.29
PRK12269		863	bifunctional cytidylate kinase/ribosomal protein S	99.28
cd04453		88	S1_RNase_E S1_RNase_E: RNase E and RNase G, S1-lik	99.28
TIGR00717		516	rpsA ribosomal protein S1. This model provides tru	99.26
cd05695		66	S1_Rrp5_repeat_hs3 S1_Rrp5_repeat_hs3: Rrp5 is a t	99.24
cd04471		83	S1_RNase_R S1_RNase_R: RNase R C-terminal S1 domai	99.24
cd05688		68	S1_RPS1_repeat_ec3 S1_RPS1_repeat_ec3: Ribosomal p	99.24
KOG1613\|consensus		298		99.23
PRK06676		390	rpsA 30S ribosomal protein S1; Reviewed	99.21
PRK00087		647	4-hydroxy-3-methylbut-2-enyl diphosphate reductase	99.2
PRK06676		390	rpsA 30S ribosomal protein S1; Reviewed	99.2
cd04465		67	S1_RPS1_repeat_ec2_hs2 S1_RPS1_repeat_ec2_hs2: Rib	99.2
cd05693		100	S1_Rrp5_repeat_hs1_sc1 S1_Rrp5_repeat_hs1_sc1: Rrp	99.2
PRK03987		262	translation initiation factor IF-2 subunit alpha;	99.18
smart00316		72	S1 Ribosomal protein S1-like RNA-binding domain.	99.15
cd04473		77	S1_RecJ_like S1_RecJ_like: The S1 domain of the ar	99.14
PRK00087		647	4-hydroxy-3-methylbut-2-enyl diphosphate reductase	99.11
cd04454		82	S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-	99.1
TIGR00717		516	rpsA ribosomal protein S1. This model provides tru	99.08
cd05702		70	S1_Rrp5_repeat_hs11_sc8 S1_Rrp5_repeat_hs11_sc8: R	99.08
PRK06299		565	rpsA 30S ribosomal protein S1; Reviewed	99.07
COG2183		780	Tex Transcriptional accessory protein [Transcripti	99.03
cd00164		65	S1_like S1_like: Ribosomal protein S1-like RNA-bin	99.0
cd00677		46	S15_NS1_EPRS_RNA-bind S15/NS1/EPRS_RNA-binding dom	98.96
PRK09521		189	exosome complex RNA-binding protein Csl4; Provisio	98.91
PRK07400		318	30S ribosomal protein S1; Reviewed	98.9
PF03725		68	RNase_PH_C: 3' exoribonuclease family, domain 2 Th	98.9
cd02393		61	PNPase_KH Polynucleotide phosphorylase (PNPase) K	98.88
cd04460		99	S1_RpoE S1_RpoE: RpoE, S1-like RNA-binding domain.	98.87
PRK04163		235	exosome complex RNA-binding protein Rrp4; Provisio	98.85
TIGR02063		709	RNase_R ribonuclease R. This family consists of an	98.83
PRK13763		180	putative RNA-processing protein; Provisional	98.82
TIGR03665		172	arCOG04150 arCOG04150 universal archaeal KH domain	98.75
PRK11642		813	exoribonuclease R; Provisional	98.73
TIGR00448		179	rpoE DNA-directed RNA polymerase (rpoE), archaeal	98.65
cd04455		67	S1_NusA S1_NusA: N-utilizing substance A protein (	98.64
TIGR00358		654	3_prime_RNase VacB and RNase II family 3'-5' exori	98.63
cd05791		92	S1_CSL4 S1_CSL4: CSL4, S1-like RNA-binding domain.	98.62
COG1095		183	RPB7 DNA-directed RNA polymerase, subunit E' [Tran	98.46
PRK08563		187	DNA-directed RNA polymerase subunit E'; Provisiona	98.41
PRK09202		470	nusA transcription elongation factor NusA; Validat	98.37
PF03725		68	RNase_PH_C: 3' exoribonuclease family, domain 2 Th	98.33
KOG2815\|consensus		256		98.26
PHA02858		86	EIF2a-like PKR inhibitor; Provisional	98.23
PRK05054		644	exoribonuclease II; Provisional	98.14
PRK08561		151	rps15p 30S ribosomal protein S15P; Reviewed	98.11
cd02395		120	SF1_like-KH Splicing factor 1 (SF1) K homology RNA	98.04
KOG1070\|consensus		1710		98.04
COG1097		239	RRP4 RNA-binding protein Rrp4 and related proteins	97.93
TIGR01953		341	NusA transcription termination factor NusA. This m	97.93
cd05790		86	S1_Rrp40 S1_Rrp40: Rrp40 S1-like RNA-binding domai	97.92
COG0557		706	VacB Exoribonuclease R [Transcription]	97.9
PRK12327		362	nusA transcription elongation factor NusA; Provisi	97.81
TIGR00757		414	RNaseEG ribonuclease, Rne/Rng family. The C-termin	97.79
TIGR02062		639	RNase_B exoribonuclease II. This family consists o	97.79
KOG2916\|consensus		304		97.75
COG1096		188	Predicted RNA-binding protein (consists of S1 doma	97.74
COG2996		287	Predicted RNA-bindining protein (contains S1 and H	97.72
cd02394		62	vigilin_like_KH K homology RNA-binding domain_vigi	97.67
PRK04163		235	exosome complex RNA-binding protein Rrp4; Provisio	97.53
cd04462		88	S1_RNAPII_Rpb7 S1_RNAPII_Rpb7: Eukaryotic RNA poly	97.45
PTZ00162		176	DNA-directed RNA polymerase II subunit 7; Provisio	97.42
PF10447		82	EXOSC1: Exosome component EXOSC1/CSL4; InterPro: I	97.41
COG1107		715	Archaea-specific RecJ-like exonuclease, contains D	97.38
KOG1070\|consensus		1710		97.31
PF13509		61	S1_2: S1 domain; PDB: 3GO5_A.	97.24
PF00013		60	KH_1: KH domain syndrome, contains KH motifs.; Int	97.13
cd00105		64	KH-I K homology RNA-binding domain, type I. KH bin	96.92
cd05699		72	S1_Rrp5_repeat_hs7 S1_Rrp5_repeat_hs7: Rrp5 is a t	96.88
smart00322		69	KH K homology RNA-binding domain.	96.39
PRK12328		374	nusA transcription elongation factor NusA; Provisi	96.36
PRK10811		1068	rne ribonuclease E; Reviewed	96.35
PTZ00248		319	eukaryotic translation initiation factor 2 subunit	96.33
PRK11712		489	ribonuclease G; Provisional	96.19
cd02396		65	PCBP_like_KH K homology RNA-binding domain, PCBP_l	95.94
KOG1676\|consensus		600		95.38
PRK12329		449	nusA transcription elongation factor NusA; Provisi	95.27
KOG1856\|consensus		1299		95.25
TIGR03665		172	arCOG04150 arCOG04150 universal archaeal KH domain	95.22
PRK13763		180	putative RNA-processing protein; Provisional	94.99
COG1098		129	VacB Predicted RNA binding protein (contains ribos	94.53
KOG2191\|consensus		402		94.33
PRK12442		87	translation initiation factor IF-1; Reviewed	94.14
TIGR00008		68	infA translation initiation factor IF-1. This fami	93.51
PF13014		43	KH_3: KH domain	93.48
COG1094		194	Predicted RNA-binding protein (contains KH domains	93.02
KOG3409\|consensus		193		92.7
COG1530		487	CafA Ribonucleases G and E [Translation, ribosomal	92.32
KOG1676\|consensus		600		90.67
KOG3298\|consensus		170		89.83
COG2183		780	Tex Transcriptional accessory protein [Transcripti	89.53
COG2996		287	Predicted RNA-bindining protein (contains S1 and H	86.42
cd05686		73	S1_pNO40 S1_pNO40: pNO40 , S1-like RNA-binding dom	85.99
cd05705		74	S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a	85.69
PF00313		66	CSD: 'Cold-shock' DNA-binding domain; InterPro: IP	85.68
COG0361		75	InfA Translation initiation factor 1 (IF-1) [Trans	84.69
cd05704		72	S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: Rrp5 is a	83.38
cd02134		61	NusA_KH NusA_K homology RNA-binding domain (KH). N	83.12
KOG0119\|consensus		554		82.82
cd05696		71	S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: Rrp5 is a t	82.08
PTZ00072		148	40S ribosomal protein S13; Provisional	81.79

>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase	Back alignment and domain information

Probab=100.00  E-value=2.6e-167  Score=1426.80  Aligned_cols=681  Identities=42%  Similarity=0.705  Sum_probs=657.0

Q ss_pred             eEeeeeCCeeEEEEeCccCcCCCcEEEEEE-CCeEEEEEEEecCCCCCCCCcceeeEEeEeeccccCCCCCCcccccCCC
Q psy3754          69 IKSFKYGSYKISIEIGEIARQATSSVLVSI-EDTVILATVVSCKDPTSTYNFFPLTVDYIEKAYAAGRIPGSFFKREGKP  147 (755)
Q Consensus        69 ~~~~~~~~r~i~~e~G~la~~A~GSa~v~~-G~T~Vl~tv~~~~~~~~~~~f~pl~v~y~e~~~a~g~ip~~~~kReg~p  147 (755)
                      .+++++|++++.+|||++|+||||||++++ |+|+|||||+..++++++.|||||+|+|+||+||+|||||||+||||+|
T Consensus         9 ~~~~~~~~~~~~~etG~~A~qA~Gav~v~~~G~t~vl~t~~~~~~~~~~~dF~PLtV~y~Ek~yA~GkiPggf~kREgrp   88 (719)
T TIGR02696         9 IDNGRFGTRTIRFETGRLARQAAGSVVAYLDDETMLLSATTASKQPKDQFDFFPLTVDVEERMYAAGRIPGSFFRREGRP   88 (719)
T ss_pred             EEEEEECCEEEEEEcchhHhhCCceEEEEecCCeEEEEEEEecCCCCCCCCCcceeEeeeehhhhcCccCCceeccCCCC
Confidence            345667666999999999999999999999 9999999999988899999999999999999999999999999999999


Q ss_pred             CchhhHHHHHhcCcccccccCCCcCeEEEEEEEEecCCCCChhhHHHHHHHHHhhcCCCCCCCCeEEEEEEEECCEEEEc
Q psy3754         148 SERETIISRLIDRPIRPLFPEGYLNEIQIVVYVLSVNPQIDPDIASIIGVSTALSISELPFLGPLGVAKVGYIDGKYILN  227 (755)
Q Consensus       148 ~~~e~l~sRlIdr~lrpl~p~~~~~~~qi~~~Vls~Dg~~~~~~~ai~aAs~AL~~s~IP~~~~vaav~vg~~~g~~vld  227 (755)
                      +++|+|+|||||||||||||++|+++|||+++|||+|++++|+++|+||||+||++|+|||+|||||||||++||+||+|
T Consensus        89 s~~eiL~sRliDR~iRPLFp~~~~~e~qi~~~vls~D~~~~pdvla~~~ASaAl~iSdiPf~gPv~~vrVg~i~g~~viN  168 (719)
T TIGR02696        89 STDAILTCRLIDRPLRPSFVKGLRNEVQVVVTVLSLNPDHLYDVVAINAASASTQLAGLPFSGPIGGVRVALIDGQWVAF  168 (719)
T ss_pred             ChhhhHHHHhhCCCCccCCCCCCCcceEEEEEEEEcCCCCChHHHHHHHHHHHHHhcCCCCCCceEEEEEEEECCEEEEC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHhcCcccEEEEeec----C-ceEEEEc------------CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q psy3754         228 PTTEQLKKSHLDLLVAGTE----K-AIITVES------------ESKQLPEDIILNAIIFGHEKMKIAINAINELVQNVG  290 (755)
Q Consensus       228 Pt~~E~~~s~~~l~va~~~----~-~i~mie~------------~~~~~se~~~~~al~~a~~~~~~i~~~~~~~~~~~~  290 (755)
                      ||.+|++.|++||+||||+    + +++|||+            +++++||++|++||++||++++++|++|+++.+++|
T Consensus       169 Pt~~~~~~s~ldLvvagt~~~~~~~~i~MiE~~a~~~~~~~~~~~a~e~~e~~~~~Ai~~a~~~i~~~~~~~~~l~~~~g  248 (719)
T TIGR02696       169 PTHEQLEGAVFDMVVAGRVLENGDVAIMMVEAEATEKTWDLVKGGAEAPTEEVVAEGLEAAKPFIKVLCRAQADLAEKAA  248 (719)
T ss_pred             cCHHHHhhCeeeEEEEeeecCCCCccEEEEecCCccccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999998    6 8999998            899999999999999999999999999999999999


Q ss_pred             CCcccCC-CCCCChhHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHhhcccCCcCChhhHHHHHHHHHHHHH
Q psy3754         291 QKKVNWD-PIVKDKTLISKIINISEHKIRKAYQIKNKQIRDLTFKNISKDIYSSLIDNENLTIDINDINCILYDLESKII  369 (755)
Q Consensus       291 ~~k~~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~k~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  369 (755)
                      |+|+++. ....+++|.+.+++.+.++|++++.+.+|.+|+++++++++++.++|.+..  +....++..+|++++++.+
T Consensus       249 k~k~~~~~~~~~~~~l~~~v~~~~~~~~~~~~~~~~K~~R~~~~~~~~~~~~~~~~~~~--~~~~~~i~~~~~~~~k~~~  326 (719)
T TIGR02696       249 KPTGEFPLFPDYQDDVYEAVEGAVKDELSAALTIAGKQEREEALDEVKALVAAKLAEQF--EGREKEISAAYRAVTKKLV  326 (719)
T ss_pred             CCccccCCCCCCCHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhhccc--cccHHHHHHHHHHHHHHHH
Confidence            9999998 677889999999999999999999999999999999999999999996531  2244689999999999999


Q ss_pred             HHHHHccCCcCCCCCCCCccceEEEeCCCCCCCceeEEEeCCeEEEEEEEecCCccccccccccCCcccEEEEEeecCCC
Q psy3754         370 RKQILDKGLRIDNRGVNDIRPISIRTGILPRTHGSSLFTRGDTQALVVATLGTSRDEQKIDALMGEFTDSFMLHYNMPPF  449 (755)
Q Consensus       370 r~~~l~~~~R~DGR~~~e~R~i~ie~g~l~~a~GSal~~~G~T~Vl~~Vt~Gp~~~~~~~d~~~~~~~~~~~~~~~f~p~  449 (755)
                      |++++++|+|+|||.++++|||+|++|++|++||||+|++|+|||+|++++||..+++..+.+.+++.++|+|||+||||
T Consensus       327 r~~il~~g~R~DGR~~~eiR~i~~~~g~l~~a~GSa~~~~G~Tqvl~~~tlG~~~~~q~~~~l~~~~~~~~~~~YnfpPF  406 (719)
T TIGR02696       327 RERVLTEGVRIDGRGVTDIRPLDAEVQVIPRVHGSALFERGETQILGVTTLNMLKMEQQIDSLSPETSKRYMHHYNFPPY  406 (719)
T ss_pred             HHHHhcCCCCCCCCCccccccceeecCCCCCCCceEEEEecCcEEEEEEeCCCchhhhhcccccccccceEEEEEeCCCC
Confidence            99999999999999999999999999999999999999999999999999999999998888877889999999999999


Q ss_pred             CcccccCCCCCChhHHHHHHHHHHhccccCCCCCCCceEEEEEEEEEccCCChhhHHHHHHHHHHHhCCCCcccceEEEE
Q psy3754         450 ATGDIGRIGVPKRREIGHGRLAKRALLPVLPNNNKFNYSIRLVSEITESNGSSSMASVCGGCLALLDAGVPISEHVAGIA  529 (755)
Q Consensus       450 s~~e~~~~g~~~~rei~~~~lieral~~vi~~~~~~p~tI~V~v~VLe~dGs~~~Aav~a~slAL~daGvPi~~~va~vs  529 (755)
                      |++|+++.++++||+++|++|++|+|++++|..++|||+|+++++||++|||++|||+||+|||||||||||+++|+|||
T Consensus       407 St~er~~~~~~~RReighg~La~rALe~vI~~~e~fP~TIrvvseVLeSdGSss~AsIcaasLALmDAGVPmkd~VAgis  486 (719)
T TIGR02696       407 STGETGRVGSPKRREIGHGALAERALVPVLPSREEFPYAIRQVSEALGSNGSTSMGSVCASTLSLLNAGVPLKAPVAGIA  486 (719)
T ss_pred             cccCCCCCCCCCccHHHHHHHHHHHHHHhhCcHhhCCCEEEEEEEeeccCCcHHHHHHHHHHHHHHHcCcchhheeeEEE
Confidence            99999999999999999999999999999996689999999999999999999999999999999999999999999999


Q ss_pred             EEEEec---Cc-eEEEEecCCccccccCCccEEEEeecCcEEEEEeeecccccCHHHHHHHHHHHHhhhHHHHHHHHhhc
Q psy3754         530 MGLIKD---GE-KVVILSDILGDEDRCGDMDFKVAGTVNGITALQMDIKIFGITYDIIQIALYKAKKGLSYILEKMKTEV  605 (755)
Q Consensus       530 ~gli~~---~~-~~~vL~Dp~~~Ee~~gd~~~~Va~t~~gi~alq~~~k~~~is~~~l~~al~~A~~~~~~I~~~~~~~l  605 (755)
                      ||++.+   ++ +|.+|+||++.||+.|+|||+|+++.+|||++|||++..|++.++|.+||++|+++|.+|++.|++++
T Consensus       487 ~Gli~e~~~~~~~~~iL~Di~g~ED~~Gdmdfkvagt~~gIt~lQmd~ki~gi~~e~l~~aL~~A~~g~~~Il~~m~~al  566 (719)
T TIGR02696       487 MGLISDEVDGETRYVALTDILGAEDAFGDMDFKVAGTSEFVTALQLDTKLDGIPASVLASALKQARDARLAILDVMAEAI  566 (719)
T ss_pred             EEEeccccCCCcceeEEeCCCchhhhcCCceEEEEecCCCEEEEEEEeeECCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999976   54 79999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccCCCceeEEeeCCcccceeeccccceeeeeccccceEEeecCceeEEEEecChhhhHHHHHHHHHhhh--cc
Q psy3754         606 PKCKNELSKFAPRLITIKIDPSKIRDVIGKGGSTIRTLTEETGTQIDINDEGIITIASFNSVSGQEAKRRIEKLTE--SV  683 (755)
Q Consensus       606 ~~~r~~~~~~~P~~~~~~i~~~ki~~~IG~gGk~ik~i~~~~g~~I~i~~~G~v~i~~~~~~~~~~a~~~i~~~~~--~~  683 (755)
                      ..| .++++++|++++++|||+||+++||||||+||+|+++||++|||+++|.|.|++.+...+++|+++|+.+..  .+
T Consensus       567 ~~p-~~~s~~aP~~~~~~I~~~ki~~vIG~gGk~I~~i~~~tg~~Idi~d~G~V~I~a~d~~~~~~A~~~I~~i~~~~~~  645 (719)
T TIGR02696       567 DTP-DEMSPYAPRIITVKIPVDKIGEVIGPKGKMINQIQDETGAEISIEDDGTVYIGAADGPSAEAARAMINAIANPTMP  645 (719)
T ss_pred             hCc-cccccCCCeeEEEEeChHHhhheeCCCcHhHHHHHHHHCCEEEEecCcEEEEEeCCHHHHHHHHHHHHHhhCcCcC
Confidence            999 899999999999999999999999999999999999999999999999999999999999999999999998  69


Q ss_pred             cCCcEEEEEEEEEEeeeEEEEEcCCeeEEEeccccC----cccccCcccccCCCCEEEEEEEEEcCCCcEEEE
Q psy3754         684 QIGKVYTGIVLRLFDFGAIIRILSGKDGLLHISQIS----SKRVNIITDFLKENQKVRVKVLGIDDRGRIKLS  752 (755)
Q Consensus       684 ~~G~~~~G~V~~I~~fG~FVel~~g~~Gllhisel~----~~~~~~~~~~~kvGd~V~VkV~~id~~gki~LS  752 (755)
                      ++|++|+|+|++|++||+||+|.+|.+||||+|||+    |.++.++.++|++||+|+|||+++|.+|||+|+
T Consensus       646 ~vG~i~~GkV~~I~dfGaFVel~~G~eGLvHISeisdls~~~rv~~~~dv~kvGd~V~VKVl~ID~~gKI~L~  718 (719)
T TIGR02696       646 EVGERFLGTVVKTTAFGAFVSLLPGKDGLLHISQIRKLAGGKRVENVEDVLSVGQKIQVEIADIDDRGKLSLV  718 (719)
T ss_pred             CCCCEEEEEEEEEECceEEEEecCCceEEEEhhhccccccccCcCCHHHcCCCCCEEEEEEEEECCCCCeeec
Confidence            999999999999999999999999999999999996    478999999999999999999999988999986

Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.

>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional	Back alignment and domain information

>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional	Back alignment and domain information

>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase	Back alignment and domain information

>KOG1067\|consensus	Back alignment and domain information

>TIGR02065 ECX1 archaeal exosome-like complex exonuclease 1	Back alignment and domain information

>PRK03983 exosome complex exonuclease Rrp41; Provisional	Back alignment and domain information

>PRK00173 rph ribonuclease PH; Reviewed	Back alignment and domain information

>TIGR01966 RNasePH ribonuclease PH	Back alignment and domain information

>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional	Back alignment and domain information

>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional	Back alignment and domain information

>COG0689 Rph RNase PH [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR02065 ECX1 archaeal exosome-like complex exonuclease 1	Back alignment and domain information

>PRK00173 rph ribonuclease PH; Reviewed	Back alignment and domain information

>KOG1068\|consensus	Back alignment and domain information

>PRK03983 exosome complex exonuclease Rrp41; Provisional	Back alignment and domain information

>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR01966 RNasePH ribonuclease PH	Back alignment and domain information

>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase	Back alignment and domain information

>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional	Back alignment and domain information

>COG0689 Rph RNase PH [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG1614\|consensus	Back alignment and domain information

>KOG1069\|consensus	Back alignment and domain information

>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase	Back alignment and domain information

>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional	Back alignment and domain information

>KOG1069\|consensus	Back alignment and domain information

>KOG1068\|consensus	Back alignment and domain information

>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG1613\|consensus	Back alignment and domain information

>KOG1612\|consensus	Back alignment and domain information

>PF01138 RNase_PH: 3' exoribonuclease family, domain 1 This Prosite family only includes Ribonuclease PH; InterPro: IPR001247 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function	Back alignment and domain information

>PRK05626 rpsO 30S ribosomal protein S15; Reviewed	Back alignment and domain information

>TIGR00952 S15_bact ribosomal protein S15, bacterial/organelle	Back alignment and domain information

>KOG1614\|consensus	Back alignment and domain information

>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>COG0184 RpsO Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG1067\|consensus	Back alignment and domain information

>PF01138 RNase_PH: 3' exoribonuclease family, domain 1 This Prosite family only includes Ribonuclease PH; InterPro: IPR001247 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function	Back alignment and domain information

>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>COG0539 RpsA Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PTZ00119 40S ribosomal protein S15; Provisional	Back alignment and domain information

>cd00353 Ribosomal_S15p_S13e Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome	Back alignment and domain information

>COG0539 RpsA Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>CHL00027 rps15 ribosomal protein S15	Back alignment and domain information

>PF00312 Ribosomal_S15: Ribosomal protein S15; InterPro: IPR000589 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms	Back alignment and domain information

>cd05704 S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>cd05686 S1_pNO40 S1_pNO40: pNO40 , S1-like RNA-binding domain	Back alignment and domain information

>cd05705 S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>PRK08582 hypothetical protein; Provisional	Back alignment and domain information

>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains	Back alignment and domain information

>cd05696 S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>cd05698 S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>cd04452 S1_IF2_alpha S1_IF2_alpha: The alpha subunit of translation Initiation Factor 2, S1-like RNA-binding domain	Back alignment and domain information

>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional	Back alignment and domain information

>PRK07899 rpsA 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>cd05706 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms	Back alignment and domain information

>cd05697 S1_Rrp5_repeat_hs5 S1_Rrp5_repeat_hs5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>cd05703 S1_Rrp5_repeat_hs12_sc9 S1_Rrp5_repeat_hs12_sc9: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>cd05707 S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>cd05690 S1_RPS1_repeat_ec5 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>PRK05807 hypothetical protein; Provisional	Back alignment and domain information

>PRK07252 hypothetical protein; Provisional	Back alignment and domain information

>PRK07400 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>cd05684 S1_DHX8_helicase S1_DHX8_helicase: The N-terminal S1 domain of human ATP-dependent RNA helicase DHX8, a DEAH (Asp-Glu-Ala-His) box polypeptide	Back alignment and domain information

>cd05692 S1_RPS1_repeat_hs4 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional	Back alignment and domain information

>cd05689 S1_RPS1_repeat_ec4 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>PHA02945 interferon resistance protein; Provisional	Back alignment and domain information

>cd05708 S1_Rrp5_repeat_sc12 S1_Rrp5_repeat_sc12: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>PRK07899 rpsA 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>PRK13806 rpsA 30S ribosomal protein S1; Provisional	Back alignment and domain information

>cd05691 S1_RPS1_repeat_ec6 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>PRK13806 rpsA 30S ribosomal protein S1; Provisional	Back alignment and domain information

>PRK06299 rpsA 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>PF03726 PNPase: Polyribonucleotide nucleotidyltransferase, RNA binding domain; InterPro: IPR015848 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function	Back alignment and domain information

>cd05687 S1_RPS1_repeat_ec1_hs1 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>cd04472 S1_PNPase S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain	Back alignment and domain information

>PRK08059 general stress protein 13; Validated	Back alignment and domain information

>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG1612\|consensus	Back alignment and domain information

>cd05685 S1_Tex S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa	Back alignment and domain information

>cd05694 S1_Rrp5_repeat_hs2_sc2 S1_Rrp5_repeat_hs2_sc2: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>cd05789 S1_Rrp4 S1_Rrp4: Rrp4 S1-like RNA-binding domain	Back alignment and domain information

>PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional	Back alignment and domain information

>cd04453 S1_RNase_E S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain	Back alignment and domain information

>TIGR00717 rpsA ribosomal protein S1	Back alignment and domain information

>cd05695 S1_Rrp5_repeat_hs3 S1_Rrp5_repeat_hs3: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>cd04471 S1_RNase_R S1_RNase_R: RNase R C-terminal S1 domain	Back alignment and domain information

>cd05688 S1_RPS1_repeat_ec3 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>KOG1613\|consensus	Back alignment and domain information

>PRK06676 rpsA 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed	Back alignment and domain information

>PRK06676 rpsA 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>cd04465 S1_RPS1_repeat_ec2_hs2 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain	Back alignment and domain information

>cd05693 S1_Rrp5_repeat_hs1_sc1 S1_Rrp5_repeat_hs1_sc1: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>PRK03987 translation initiation factor IF-2 subunit alpha; Validated	Back alignment and domain information

>smart00316 S1 Ribosomal protein S1-like RNA-binding domain	Back alignment and domain information

>cd04473 S1_RecJ_like S1_RecJ_like: The S1 domain of the archaea-specific RecJ-like exonuclease	Back alignment and domain information

>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed	Back alignment and domain information

>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain	Back alignment and domain information

>TIGR00717 rpsA ribosomal protein S1	Back alignment and domain information

>cd05702 S1_Rrp5_repeat_hs11_sc8 S1_Rrp5_repeat_hs11_sc8: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>PRK06299 rpsA 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>COG2183 Tex Transcriptional accessory protein [Transcription]	Back alignment and domain information

>cd00164 S1_like S1_like: Ribosomal protein S1-like RNA-binding domain	Back alignment and domain information

>cd00677 S15_NS1_EPRS_RNA-bind S15/NS1/EPRS_RNA-binding domain	Back alignment and domain information

>PRK09521 exosome complex RNA-binding protein Csl4; Provisional	Back alignment and domain information

>PRK07400 30S ribosomal protein S1; Reviewed	Back alignment and domain information

>PF03725 RNase_PH_C: 3' exoribonuclease family, domain 2 This Prosite family only includes Ribonuclease PH; InterPro: IPR015847 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function	Back alignment and domain information

>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH)	Back alignment and domain information

>cd04460 S1_RpoE S1_RpoE: RpoE, S1-like RNA-binding domain	Back alignment and domain information

>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional	Back alignment and domain information

>TIGR02063 RNase_R ribonuclease R	Back alignment and domain information

>PRK13763 putative RNA-processing protein; Provisional	Back alignment and domain information

>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein	Back alignment and domain information

>PRK11642 exoribonuclease R; Provisional	Back alignment and domain information

>TIGR00448 rpoE DNA-directed RNA polymerase (rpoE), archaeal and eukaryotic form	Back alignment and domain information

>cd04455 S1_NusA S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain	Back alignment and domain information

>TIGR00358 3_prime_RNase VacB and RNase II family 3'-5' exoribonucleases	Back alignment and domain information

>cd05791 S1_CSL4 S1_CSL4: CSL4, S1-like RNA-binding domain	Back alignment and domain information

>COG1095 RPB7 DNA-directed RNA polymerase, subunit E' [Transcription]	Back alignment and domain information

>PRK08563 DNA-directed RNA polymerase subunit E'; Provisional	Back alignment and domain information

>PRK09202 nusA transcription elongation factor NusA; Validated	Back alignment and domain information

>PF03725 RNase_PH_C: 3' exoribonuclease family, domain 2 This Prosite family only includes Ribonuclease PH; InterPro: IPR015847 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function	Back alignment and domain information

>KOG2815\|consensus	Back alignment and domain information

>PHA02858 EIF2a-like PKR inhibitor; Provisional	Back alignment and domain information

>PRK05054 exoribonuclease II; Provisional	Back alignment and domain information

>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed	Back alignment and domain information

>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH)	Back alignment and domain information

>KOG1070\|consensus	Back alignment and domain information

>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR01953 NusA transcription termination factor NusA	Back alignment and domain information

>cd05790 S1_Rrp40 S1_Rrp40: Rrp40 S1-like RNA-binding domain	Back alignment and domain information

>COG0557 VacB Exoribonuclease R [Transcription]	Back alignment and domain information

>PRK12327 nusA transcription elongation factor NusA; Provisional	Back alignment and domain information

>TIGR00757 RNaseEG ribonuclease, Rne/Rng family	Back alignment and domain information

>TIGR02062 RNase_B exoribonuclease II	Back alignment and domain information

>KOG2916\|consensus	Back alignment and domain information

>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]	Back alignment and domain information

>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like	Back alignment and domain information

>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional	Back alignment and domain information

>cd04462 S1_RNAPII_Rpb7 S1_RNAPII_Rpb7: Eukaryotic RNA polymerase II (RNAPII) Rpb7 subunit C-terminal S1 domain	Back alignment and domain information

>PTZ00162 DNA-directed RNA polymerase II subunit 7; Provisional	Back alignment and domain information

>PF10447 EXOSC1: Exosome component EXOSC1/CSL4; InterPro: IPR019495 The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions []	Back alignment and domain information

>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]	Back alignment and domain information

>KOG1070\|consensus	Back alignment and domain information

>PF13509 S1_2: S1 domain; PDB: 3GO5_A	Back alignment and domain information

>PF00013 KH_1: KH domain syndrome, contains KH motifs	Back alignment and domain information

>cd00105 KH-I K homology RNA-binding domain, type I	Back alignment and domain information

>cd05699 S1_Rrp5_repeat_hs7 S1_Rrp5_repeat_hs7: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>smart00322 KH K homology RNA-binding domain	Back alignment and domain information

>PRK12328 nusA transcription elongation factor NusA; Provisional	Back alignment and domain information

>PRK10811 rne ribonuclease E; Reviewed	Back alignment and domain information

>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional	Back alignment and domain information

>PRK11712 ribonuclease G; Provisional	Back alignment and domain information

>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like	Back alignment and domain information

>KOG1676\|consensus	Back alignment and domain information

>PRK12329 nusA transcription elongation factor NusA; Provisional	Back alignment and domain information

>KOG1856\|consensus	Back alignment and domain information

>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein	Back alignment and domain information

>PRK13763 putative RNA-processing protein; Provisional	Back alignment and domain information

>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG2191\|consensus	Back alignment and domain information

>PRK12442 translation initiation factor IF-1; Reviewed	Back alignment and domain information

>TIGR00008 infA translation initiation factor IF-1	Back alignment and domain information

>PF13014 KH_3: KH domain	Back alignment and domain information

>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]	Back alignment and domain information

>KOG3409\|consensus	Back alignment and domain information

>COG1530 CafA Ribonucleases G and E [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG1676\|consensus	Back alignment and domain information

>KOG3298\|consensus	Back alignment and domain information

>COG2183 Tex Transcriptional accessory protein [Transcription]	Back alignment and domain information

>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]	Back alignment and domain information

>cd05686 S1_pNO40 S1_pNO40: pNO40 , S1-like RNA-binding domain	Back alignment and domain information

>cd05705 S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []	Back alignment and domain information

>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>cd05704 S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>cd02134 NusA_KH NusA_K homology RNA-binding domain (KH)	Back alignment and domain information

>KOG0119\|consensus	Back alignment and domain information

>cd05696 S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits	Back alignment and domain information

>PTZ00072 40S ribosomal protein S13; Provisional	Back alignment and domain information

Homologous Structure Templates