Citrus Sinensis ID: 022580

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-----
Protein Sequence
MGLEVRVSRMSECISSIPLSNSVPVTKIRTLSGSKWRPKNGSVRNGNLQYAMCTFKPPSKNQELFDELGFKDKFSVNSAEENSREIAEVKEEKREEEKDGSDGSSEKVKLRRGRQVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTKVPLIHGEGGCHALSQI
Secondary Structure (PSIPRED)
cccEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccHHHHHHHHcccccccccccccccccccccccccEEEHHHHcccEEEEcccccEEEEEEEEEEEccccEEEEEEEEcccccccccEEEcccccccccEEEEcccccccccccccccccccccEEEcccccEEEEEEEEEEEcccccEEEEEEccccccccccccccEEEEccHHHEEEcccEEEEcccHHHHHHHHccccEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEccccccccccccccccEEcccccccccccccEEEEEcccccEEEEEEEEcccccccccccccccccccccEEEcccccccccHHcEEEEcccccccccEEEEccccEEEEHHHHHccEEEEcccccEcEEEEEEEEEccccEEEEEEEccccccccccEEEHHHEEEcccEEEEcccccccccccHHHHHHHcccEEEEccccEEEEEEEEEEccccccEEEEEEcccccccccccEEEEEEccHHHHHcccccEEEEEccHHHHHHHHccccccccccccccEccc
Coil and Loop (DISEMBL)
MGLEVRVSRMSEcissiplsnsvpvtkirtlsgskwrpkngsvrngnlqyamctfkppsknqelfdelgfkdkfsvnsaEENSREIAEVKEEkreeekdgsdgssekvkLRRGRQVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVrpnllsgepeRLLLEDICQVGDVVLIedesvmendfkMVRLDTLVgyrvvtpgrqnigkvrgytfninsgavesleldsfgisiipsslVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTkvplihgeggchalsqi
Flexible Loop (DISEMBL)
MGLEVRVSRMSEcissiplsnsvpvtkirtlsgskwrpkngsvrnGNLQYAMCTFKPPSKNQELFDELGFKDkfsvnsaeensreiaevkeekreeekdgsdgssekvklrrgrqvmrrsNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPnllsgeperLLLEDICQVGDVVLIEDESVMENDFKMVRLDTlvgyrvvtpgrqnigkvrgyTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAasrvqrltkvplihgeggchalsqi
Low Complexity Region (SEG)
MGLEVRVSRMSECISSIPLSNSVPVTKIRTLSGSKWRPKNGSVRNGNLQYAMCTFKPPSKNQELFDELGFKDKFSVNSAEENSReiaevkeekreeekdgsdgssekVKLRRGRQVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYallvedvlevvadivvvheaaaSRVQRLTKVPLIHGEGGCHALSQI
Disordered region (IsUnstruct)
*********************************************GNLQYAMCTF*****************************************************************NLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTKVPLIHGEGGC******
Disordered Region (DISOPRED)
****VRVSRMSECISSIPLSNSVPV***************************************FDEL*****************************************************LLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTKV*LIHGEGG*******
Disordered Region (DISEMBL)
**********SECISSIPLSNSVPVTKIRTLSGSKWRPKNGSVRNGNLQYAMCTFKPPSKNQELFDELGFKDKFSV**************************************QVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTKVPLIHGEGGCHALSQI
Disordered Region (DISPRO)
*GLEVRVSRMSECISSIPLSNSVPVTKIRTLSGSKWRPKNGSVRNGNLQYAMCTFKPPSKNQELFDELGFKDKFSVNSAEENSREIAEVKEEKREEEKDGSDGSSEKVKLRRGRQVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTKVPLIHGEGGCHAL***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGLEVRVSRMSECISSIPLSNSVPVTKIRTLSGSKWRPKNGSVRNGNLQYAMCTFKPPSKNQELFDELGFKDKFSxxxxxxxxxxxxxxxxxxxxxxxxGSDGSSEKVKLRRGRQVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTKVPLIHGEGGCHALSQI
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	295
225439715	377	PREDICTED: uncharacterized protein LOC10	0.898	0.702	0.538	4e-79
147840953	377	hypothetical protein VITISV_011642 [Viti	0.898	0.702	0.538	8e-79
449502678	473	PREDICTED: uncharacterized LOC101206450	0.691	0.431	0.691	5e-76
449449956	473	PREDICTED: uncharacterized protein LOC10	0.691	0.431	0.691	7e-76
356568220	382	PREDICTED: uncharacterized protein LOC10	0.623	0.481	0.751	1e-73
224091128	347	predicted protein [Populus trichocarpa]	0.661	0.561	0.72	9e-73
240254602	328	uncharacterized protein [Arabidopsis tha	0.877	0.789	0.529	1e-64
108708001	347	expressed protein [Oryza sativa Japonica	0.603	0.512	0.692	7e-64
259490378	222	uncharacterized protein LOC100304384 [Ze	0.579	0.770	0.691	2e-60
242041035	343	hypothetical protein SORBIDRAFT_01g03622	0.572	0.492	0.693	4e-60

>gi|225439715|ref|XP_002268101.1| PREDICTED: uncharacterized protein LOC100261869 isoform 1 [Vitis vinifera] gi|297735530|emb|CBI18024.3| unnamed protein product [Vitis vinifera]

 Score =  300 bits (769), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 173/321 (53%), Positives = 212/321 (66%), Gaps = 56/321 (17%)

Query: 10  MSECISSIPLSNSVPVTKIRTLSGSKWRPKNGSV------------RNGN---------- 47
           M +C  S  L NS    +    +   W P+N +             RNG           
Sbjct: 1   MCDCAPSTLLLNSTVRIRNLGFTTRDWNPRNHAKLSTFCNSHLIFHRNGGSRLISAEIDA 60

Query: 48  LQYAMCTFKPPSKNQELFDELGFKDKF---------SVNSAEENSREIAEVKE-EKREEE 97
           L    C    P++      ELGFKD+           V+S+  ++ +  E++E E R  E
Sbjct: 61  LNSTTCVRAIPNRG-----ELGFKDEGKRDFGFETKGVDSSTSSAFDFLELEEQEGRTGE 115

Query: 98  K-------------------DGSDGSSEKVKLRRGRQVMRRSNLLAKQVISIQSAMSLGF 138
           K                   +G++   E++ LR GRQVMRRSN+LAKQVISI+SA+SLGF
Sbjct: 116 KSAGNPEDEDLVRVGGGSELEGAEKVDERLGLRSGRQVMRRSNMLAKQVISIRSALSLGF 175

Query: 139 VSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLD 198
           VSQLWVDTTSW+VLV+EVRPNLLSGE ER LLED+ +VGDVVL++DESVM+N++KM+ L+
Sbjct: 176 VSQLWVDTTSWMVLVIEVRPNLLSGELERFLLEDVSRVGDVVLVQDESVMDNEYKMLGLE 235

Query: 199 TLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLE 258
           TLVGY VVTPGR+NIGKVRGYTFNINSGAVESLELDSFGIS+IPSSLVSTYAL VEDVLE
Sbjct: 236 TLVGYNVVTPGRRNIGKVRGYTFNINSGAVESLELDSFGISLIPSSLVSTYALFVEDVLE 295

Query: 259 VVADIVVVHEAAASRVQRLTK 279
           VV+D V+VHE AASR+QRLTK
Sbjct: 296 VVSDTVIVHEVAASRIQRLTK 316

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147840953|emb|CAN71020.1| hypothetical protein VITISV_011642 [Vitis vinifera]

 Score =  299 bits (766), Expect = 8e-79,   Method: Compositional matrix adjust.
 Identities = 173/321 (53%), Positives = 212/321 (66%), Gaps = 56/321 (17%)

Query: 10  MSECISSIPLSNSVPVTKIRTLSGSKWRPKNGSV------------RNGN---------- 47
           M +C  S  L NS    +    +   W P+N +             RNG           
Sbjct: 1   MCDCAPSXLLLNSTVRIRNLGFTTRDWNPRNHAKPSTFCNSHLIFHRNGGSRLISAEIDA 60

Query: 48  LQYAMCTFKPPSKNQELFDELGFKDKF---------SVNSAEENSREIAEVKE-EKREEE 97
           L    C    P++      ELGFKD+           V+S+  ++ +  E++E E R  E
Sbjct: 61  LNSTTCVRAIPNRG-----ELGFKDEGKRDFGFETKGVDSSXSSAFDFLELEEQEGRTGE 115

Query: 98  K-------------------DGSDGSSEKVKLRRGRQVMRRSNLLAKQVISIQSAMSLGF 138
           K                   +G++   E++ LR GRQVMRRSN+LAKQVISI+SA+SLGF
Sbjct: 116 KSAGNPEDEDLVRVGGGSELEGAEKVDERLGLRSGRQVMRRSNMLAKQVISIRSALSLGF 175

Query: 139 VSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLD 198
           VSQLWVDTTSW+VLV+EVRPNLLSGE ER LLED+ +VGDVVL++DESVM+N++KM+ L+
Sbjct: 176 VSQLWVDTTSWMVLVIEVRPNLLSGELERFLLEDVSRVGDVVLVQDESVMDNEYKMLGLE 235

Query: 199 TLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLE 258
           TLVGY VVTPGR+NIGKVRGYTFNINSGAVESLELDSFGIS+IPSSLVSTYAL VEDVLE
Sbjct: 236 TLVGYNVVTPGRRNIGKVRGYTFNINSGAVESLELDSFGISLIPSSLVSTYALFVEDVLE 295

Query: 259 VVADIVVVHEAAASRVQRLTK 279
           VV+D V+VHE AASR+QRLTK
Sbjct: 296 VVSDTVIVHEVAASRIQRLTK 316

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449502678|ref|XP_004161711.1| PREDICTED: uncharacterized LOC101206450 [Cucumis sativus]

 Score =  290 bits (742), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 146/211 (69%), Positives = 174/211 (82%), Gaps = 7/211 (3%)

Query: 69  GFKDKFSVNSAEENSREIAEVKEEKREEEKDGSDGSSEKVKLRRGRQVMRRSNLLAKQVI 128
           G K + +   + E  R +  +++E  E E       + KV LR+ RQVMRRSN+LAKQVI
Sbjct: 210 GKKKRLNSERSSEGERNLVPIEDEDAEIE-------NGKVALRKRRQVMRRSNMLAKQVI 262

Query: 129 SIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVM 188
           SIQSA+SLGFVSQLWVDT++W+V  +EV+PNLLSGE E  LLEDI QVGDVVL+ DE+VM
Sbjct: 263 SIQSALSLGFVSQLWVDTSAWMVKFLEVKPNLLSGESEWFLLEDISQVGDVVLVHDETVM 322

Query: 189 ENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVST 248
           +NDFKM  ++TLVGYRVVTPGR+NIGK+RGYTFNINSGAVESLELDSFG S +PSSLVST
Sbjct: 323 DNDFKMAGMETLVGYRVVTPGRRNIGKIRGYTFNINSGAVESLELDSFGYSFLPSSLVST 382

Query: 249 YALLVEDVLEVVADIVVVHEAAASRVQRLTK 279
           YALLVEDVLEV++D+VVVHE AASR+QRLTK
Sbjct: 383 YALLVEDVLEVISDVVVVHEDAASRIQRLTK 413

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449956|ref|XP_004142730.1| PREDICTED: uncharacterized protein LOC101206450 [Cucumis sativus]

 Score =  290 bits (741), Expect = 7e-76,   Method: Compositional matrix adjust.
 Identities = 146/211 (69%), Positives = 174/211 (82%), Gaps = 7/211 (3%)

Query: 69  GFKDKFSVNSAEENSREIAEVKEEKREEEKDGSDGSSEKVKLRRGRQVMRRSNLLAKQVI 128
           G K + +   + E  R +  +++E  E E       + KV LR+ RQVMRRSN+LAKQVI
Sbjct: 210 GKKKRLNSERSSEGERNLVPIEDEDAEIE-------NGKVALRKRRQVMRRSNMLAKQVI 262

Query: 129 SIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVM 188
           SIQSA+SLGFVSQLWVDT++W+V  +EV+PNLLSGE E  LLEDI QVGDVVL+ DE+VM
Sbjct: 263 SIQSALSLGFVSQLWVDTSAWMVKFLEVKPNLLSGESEWFLLEDISQVGDVVLVHDETVM 322

Query: 189 ENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVST 248
           +NDFKM  ++TLVGYRVVTPGR+NIGK+RGYTFNINSGAVESLELDSFG S +PSSLVST
Sbjct: 323 DNDFKMAGMETLVGYRVVTPGRRNIGKIRGYTFNINSGAVESLELDSFGYSFLPSSLVST 382

Query: 249 YALLVEDVLEVVADIVVVHEAAASRVQRLTK 279
           YALLVEDVLEV++D+VVVHE AASR+QRLTK
Sbjct: 383 YALLVEDVLEVISDVVVVHEDAASRIQRLTK 413

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356568220|ref|XP_003552311.1| PREDICTED: uncharacterized protein LOC100806448 [Glycine max]

 Score =  282 bits (722), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 142/189 (75%), Positives = 168/189 (88%), Gaps = 5/189 (2%)

Query: 91  EEKREEEKDGSDGSSEKVKLRRGRQVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWV 150
           +E+ E EK G      K+++RRG++V+RRSNLLAKQVISI SA+SLGFVSQLWVDT+SW+
Sbjct: 140 DEEGENEKFGG-----KLRVRRGKEVIRRSNLLAKQVISIHSALSLGFVSQLWVDTSSWM 194

Query: 151 VLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGR 210
           VL VEVRPNLLSG+ E+ LL+DI QVGDVVL++DESV +N+FKMV L+TLVGY+VVTP R
Sbjct: 195 VLFVEVRPNLLSGDSEKFLLDDISQVGDVVLVQDESVTDNEFKMVGLETLVGYKVVTPSR 254

Query: 211 QNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAA 270
           +NIGKVRGYTF INSGAVE LELDSFG+SIIPSSLVSTY+LLVEDVLEVV+D VVVHEAA
Sbjct: 255 RNIGKVRGYTFGINSGAVEELELDSFGLSIIPSSLVSTYSLLVEDVLEVVSDAVVVHEAA 314

Query: 271 ASRVQRLTK 279
           A R+QRL+K
Sbjct: 315 ALRIQRLSK 323

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224091128|ref|XP_002309189.1| predicted protein [Populus trichocarpa] gi|222855165|gb|EEE92712.1| predicted protein [Populus trichocarpa]

 Score =  279 bits (714), Expect = 9e-73,   Method: Compositional matrix adjust.
 Identities = 144/200 (72%), Positives = 175/200 (87%), Gaps = 5/200 (2%)

Query: 85  EIAEVKEEKRE--EEKDGSDGSSEKVKLR---RGRQVMRRSNLLAKQVISIQSAMSLGFV 139
           +I E+K+ +++  EE+D      E+ K+R   RG+QV+RRS++LAKQVISIQSA+SLGFV
Sbjct: 88  DILELKDGEKDGKEEQDLVAVEKERNKIRNGRRGKQVIRRSSILAKQVISIQSALSLGFV 147

Query: 140 SQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIEDESVMENDFKMVRLDT 199
           SQ+WVDT SWVVLVVEVRPNLLSGE ER LLED+ QVGDVVL+EDE+VM+ + KM+ L+T
Sbjct: 148 SQIWVDTKSWVVLVVEVRPNLLSGESERFLLEDVSQVGDVVLVEDENVMDTELKMIGLET 207

Query: 200 LVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEV 259
           LVGYRVVTPG+++IGKVRGY+FNINSGAVE LELDSFGISIIPSSLVSTYAL V+DVLEV
Sbjct: 208 LVGYRVVTPGQRDIGKVRGYSFNINSGAVELLELDSFGISIIPSSLVSTYALPVDDVLEV 267

Query: 260 VADIVVVHEAAASRVQRLTK 279
           ++D VVVHE+AAS +QRLTK
Sbjct: 268 LSDTVVVHESAASHIQRLTK 287

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|240254602|ref|NP_181391.4| uncharacterized protein [Arabidopsis thaliana] gi|330254457|gb|AEC09551.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  253 bits (645), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 154/291 (52%), Positives = 194/291 (66%), Gaps = 32/291 (10%)

Query: 10  MSECISSIPLSNSVPVTKIRTLSGS----KWRPKNGSVRNGNLQYAMCT-FKPPSKNQEL 64
           M  C SS   S  +PV   R +  +    +WR K        +Q+++   F   SKN   
Sbjct: 1   MCNCSSSFFCS--LPVLNARLVKPNSETCRWRLKR-------IQHSILNCFWIDSKNSPF 51

Query: 65  FDELGFKDKFSVNSAEENSREIAEVKEEKREEEKDGSD-----GSSEKVKL--------- 110
             +  F +K   N     S  ++   EE    +  GSD     G S+ V+L         
Sbjct: 52  LGQFSFIEKPRDNFICCLSSSLS--NEEDVVHQTVGSDSVELPGESDLVRLVGDNDLSIT 109

Query: 111 --RRGRQVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERL 168
             R  +Q   RSNL+AKQV+SIQSA+SLGF+SQLWVDTTSW+VLVV+V+P+LLSGE ER 
Sbjct: 110 GSRGFKQSTTRSNLVAKQVVSIQSALSLGFISQLWVDTTSWLVLVVDVKPSLLSGESERF 169

Query: 169 LLEDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAV 228
           LL DI +VGDVVL+++E+V++ +FKMV L+TLVGYRVVTPG +NIGKVRGY+FNINSG V
Sbjct: 170 LLTDIVRVGDVVLVDNETVLDTEFKMVGLETLVGYRVVTPGGRNIGKVRGYSFNINSGIV 229

Query: 229 ESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTK 279
           ESLELDSFG++IIPSSLVSTY L VED++EV+ DIVVV E AASR QRLTK
Sbjct: 230 ESLELDSFGVTIIPSSLVSTYRLDVEDIIEVLQDIVVVQEDAASRKQRLTK 280

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|108708001|gb|ABF95796.1| expressed protein [Oryza sativa Japonica Group]

 Score =  250 bits (638), Expect = 7e-64,   Method: Compositional matrix adjust.
 Identities = 126/182 (69%), Positives = 151/182 (82%), Gaps = 4/182 (2%)

Query: 111 RRGRQVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLL 170
           R+ RQ+ RRS LLAKQVIS+ SA SLGFVSQLWVD  SW+V +VEVRP+LLSGE E+ L 
Sbjct: 119 RKRRQMARRSGLLAKQVISVSSARSLGFVSQLWVDAASWIVALVEVRPSLLSGEAEKFLF 178

Query: 171 EDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVES 230
           EDI QVGDVVL+EDE+V+EN+FK+V L +LVGY VVT  R+N+GKVRG+TF+IN+GA+ES
Sbjct: 179 EDIYQVGDVVLVEDETVVENEFKLVGLHSLVGYSVVTSRRRNVGKVRGFTFDINTGAMES 238

Query: 231 LELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTK----VPLIHGE 286
           LELDSFGISI+PSSLVSTY L VEDVL++V+D +VVHE A SRVQRLT+       I G 
Sbjct: 239 LELDSFGISIVPSSLVSTYCLFVEDVLDIVSDTIVVHEDAISRVQRLTQGIWGTQNIQGP 298

Query: 287 GG 288
           GG
Sbjct: 299 GG 300

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|259490378|ref|NP_001159292.1| uncharacterized protein LOC100304384 [Zea mays] gi|223943245|gb|ACN25706.1| unknown [Zea mays]

 Score =  238 bits (608), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 121/175 (69%), Positives = 146/175 (83%), Gaps = 4/175 (2%)

Query: 118 RRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVG 177
           RRS LLAKQVIS+ SA SLGFVSQLW+DT SW V +VEV+P+LLSGE E+ L EDI QVG
Sbjct: 3   RRSALLAKQVISVTSARSLGFVSQLWIDTASWAVALVEVKPSLLSGEAEKFLFEDIYQVG 62

Query: 178 DVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFG 237
           DVVL+ +ESV++N+ K+V L +LVGY VVT  R+N+GKVRG+TF+I+SGA+ESLELDSFG
Sbjct: 63  DVVLVANESVIDNEHKLVGLHSLVGYNVVTSRRRNVGKVRGFTFDISSGAMESLELDSFG 122

Query: 238 ISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTKVPL----IHGEGG 288
           +SI+PSSLVSTY L VEDVL++V+D VVVHE A SRVQRLT+  L    IHG GG
Sbjct: 123 LSIVPSSLVSTYCLFVEDVLDIVSDTVVVHEDAVSRVQRLTQGILGTQNIHGPGG 177

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242041035|ref|XP_002467912.1| hypothetical protein SORBIDRAFT_01g036220 [Sorghum bicolor] gi|241921766|gb|EER94910.1| hypothetical protein SORBIDRAFT_01g036220 [Sorghum bicolor]

 Score =  237 bits (605), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 120/173 (69%), Positives = 145/173 (83%), Gaps = 4/173 (2%)

Query: 120 SNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDV 179
           S LLAKQVIS+ SA SLGFVSQLW+D  SW V +VEVRP+LLSGE E+ L EDI QVGDV
Sbjct: 115 SALLAKQVISVSSARSLGFVSQLWIDAASWAVALVEVRPSLLSGEAEKFLFEDIYQVGDV 174

Query: 180 VLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGIS 239
           VL+E+ESV++N+ K+V L +LVGY VVT  R+N+GKVRG+TF+I+SGA+ESLELDSFG+S
Sbjct: 175 VLVENESVIDNEHKLVGLHSLVGYNVVTSRRRNVGKVRGFTFDISSGAMESLELDSFGLS 234

Query: 240 IIPSSLVSTYALLVEDVLEVVADIVVVHEAAASRVQRLTKVPL----IHGEGG 288
           I+PSSLVSTY LLVEDVL++V+D +VVHE A SRVQRLT+  L    IHG GG
Sbjct: 235 IVPSSLVSTYCLLVEDVLDIVSDTIVVHEDAVSRVQRLTQGILGTQNIHGPGG 287

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	295
TAIR|locus:2064184	328	AT2G38570 "AT2G38570" [Arabido	0.569	0.512	0.662	6.3e-53

TAIR|locus:2064184 AT2G38570 "AT2G38570" [Arabidopsis thaliana (taxid:3702)]

 Score = 548 (198.0 bits), Expect = 6.3e-53, P = 6.3e-53
 Identities = 112/169 (66%), Positives = 134/169 (79%)

Query:   112 RG-RQVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLL 170
             RG +Q   RSNL+AKQV+SIQSA+SLGF+SQLWVDTTSW+VLVV+V+P+LLSGE ER LL
Sbjct:   112 RGFKQSTTRSNLVAKQVVSIQSALSLGFISQLWVDTTSWLVLVVDVKPSLLSGESERFLL 171

Query:   171 EDICQVGDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVES 230
              DI +VGDVVL+++E+V++ +FKMV L+TLVGYRVVTPG +NIGKVRGY+FNINSG VES
Sbjct:   172 TDIVRVGDVVLVDNETVLDTEFKMVGLETLVGYRVVTPGGRNIGKVRGYSFNINSGIVES 231

Query:   231 LELDSFGISIIPSSLVSTYXXXXXXXXXXXXXXXXXXXXXXSRVQRLTK 279
             LELDSFG++IIPSSLVSTY                      SR QRLTK
Sbjct:   232 LELDSFGVTIIPSSLVSTYRLDVEDIIEVLQDIVVVQEDAASRKQRLTK 280


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.318   0.134   0.382    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      295       250   0.00080  114 3  11 22  0.45    33
                                                     32  0.46    36


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  611 (65 KB)
  Total size of DFA:  177 KB (2103 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  17.62u 0.12s 17.74t   Elapsed:  00:00:01
  Total cpu time:  17.62u 0.12s 17.74t   Elapsed:  00:00:01
  Start:  Fri May 10 06:45:55 2013   End:  Fri May 10 06:45:56 2013

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00037506001	SubName- Full=Chromosome chr8 scaffold_88, whole genome shotgun sequence; (393 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00035621001	SubName- Full=Chromosome undetermined scaffold_79, whole genome shotgun sequence; (96 aa)			•						0.501
	GSVIVG00033655001	SubName- Full=Chromosome chr8 scaffold_68, whole genome shotgun sequence; (159 aa)			•						0.501
	GSVIVG00018549001	SubName- Full=Chromosome chr13 scaffold_17, whole genome shotgun sequence; (235 aa)			•						0.501
	GSVIVG00026057001	SubName- Full=Chromosome chr12 scaffold_36, whole genome shotgun sequence; (168 aa)			•						0.500
	GSVIVG00037015001	SubName- Full=Chromosome chr1 scaffold_84, whole genome shotgun sequence; (198 aa)			•						0.498
	GSVIVG00013203001	SubName- Full=Chromosome undetermined scaffold_3599, whole genome shotgun sequence; (288 aa)			•						0.498
	GSVIVG00026487001	Chromosome chr12 scaffold_38, whole genome shotgun sequence (154 aa)			•						0.497
	GSVIVG00024757001	SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (109 aa)			•						0.496
	GSVIVG00022743001	SubName- Full=Chromosome chr14 scaffold_27, whole genome shotgun sequence; (276 aa)			•						0.496
	PsbP2	SubName- Full=Chromosome chr13 scaffold_17, whole genome shotgun sequence; (238 aa)			•						0.496

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	295
COG3881	176	PRC-barrel domain containing protein [General func	99.93
TIGR02888	76	spore_YlmC_YmxH sporulation protein, YlmC/YmxH fam	99.49
PF05239	79	PRC: PRC-barrel domain; InterPro: IPR007903 The PR	99.22
COG1873	87	Protein implicated in RNA metabolism, contains PRC	99.01
PF05239	79	PRC: PRC-barrel domain; InterPro: IPR007903 The PR	98.97
TIGR02888	76	spore_YlmC_YmxH sporulation protein, YlmC/YmxH fam	98.93
COG1873	87	Protein implicated in RNA metabolism, contains PRC	98.56
COG3881	176	PRC-barrel domain containing protein [General func	97.29
cd00226	246	PRCH Photosynthetic reaction center (RC) complex,	96.66
cd00226	246	PRCH Photosynthetic reaction center (RC) complex,	95.75
COG0806	174	RimM RimM protein, required for 16S rRNA processin	91.5
PRK13829	162	rimM 16S rRNA-processing protein RimM; Provisional	91.0
TIGR01150	252	puhA photosynthetic reaction center, subunit H, ba	91.0
PRK14591	169	rimM 16S rRNA-processing protein RimM; Provisional	90.67
PRK13828	161	rimM 16S rRNA-processing protein RimM; Provisional	89.74
PRK14592	165	rimM 16S rRNA-processing protein RimM; Provisional	89.7
TIGR02273	165	16S_RimM 16S rRNA processing protein RimM. This fa	89.33
PRK00122	172	rimM 16S rRNA-processing protein RimM; Provisional	89.24
PRK14594	166	rimM 16S rRNA-processing protein RimM; Provisional	88.49
PRK14590	171	rimM 16S rRNA-processing protein RimM; Provisional	85.59
PRK13829	162	rimM 16S rRNA-processing protein RimM; Provisional	82.98
PRK14591	169	rimM 16S rRNA-processing protein RimM; Provisional	81.64

>COG3881 PRC-barrel domain containing protein [General function prediction only]

Probab=99.93  E-value=7.2e-26  Score=196.12  Aligned_cols=163  Identities=15%  Similarity=0.162  Sum_probs=141.5

Q ss_pred             eeeeccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCCCceEEecccceeeC-cEEEEecCCccc-cccc
Q 022580          116 VMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVG-DVVLIEDESVME-NDFK  193 (295)
Q Consensus       116 m~r~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~~~~~Ip~e~I~~IG-DaIlV~~~~~v~-~~~~  193 (295)
                      |+|..||.|.||++.+||++||.|.|+.+|++..+|.+|.+..++|+.+...+|+.+|.+|| |+||+.-+.... ..++
T Consensus         1 Mit~~EleG~pVys~~tg~~lg~V~Dvif~~~gdrvl~flvnkggwfh~h~~lp~~~i~Sig~k~Imi~vp~~~~~~~~n   80 (176)
T COG3881           1 MITSRELEGAPVYSTKTGEKLGAVDDVIFNFSGDRVLGFLVNKGGWFHKHCCLPVKNIVSIGSKMIMIYVPYKGSFIRFN   80 (176)
T ss_pred             CccchhhcCCceEEecccccccceeeEEEecCCCeEEEEEEecCcEEeeeeeeeecceeeeccceEEEeccccceecccC
Confidence            78999999999999999999999999999999999999999999999999999999999999 999998754432 1223


Q ss_pred             ccccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccceeeehhhhhhccCcEEEEccchhh-
Q 022580          194 MVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAAS-  272 (295)
Q Consensus       194 l~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~~Lp~e~IvsiG~D~VIV~e~A~~-  272 (295)
                      .--+.-+.+.-+.|.+|+.||.|+|+|||+++|+|++||+|+ |.  +++...+|..+++...+.+|+|.+||+.+..- 
T Consensus        81 s~~ye~m~mk~~lt~dG~iLGmveDVyFdek~gkIvgyevS~-Gf--fADlt~gRkiira~~~v~vgKD~~ivs~~~~~~  157 (176)
T COG3881          81 SFTYEIMNMKVILTYDGTILGMVEDVYFDEKTGKIVGYEVSR-GF--FADLTSGRKIIRAGNYVLVGKDLFIVSNDKNLS  157 (176)
T ss_pred             chhhHhhcCceEeccCCcEeeeeeEEEEeccCCcEEEEEecC-ch--hhhccCCceEEECCCcEEecccEEEecCCcchh
Confidence            334567778888899999999999999999999999999999 86  78899999999999999999999999988443 


Q ss_pred             hhhhccccc
Q 022580          273 RVQRLTKVP  281 (295)
Q Consensus       273 ~L~q~~~GL  281 (295)
                      -..+...|.
T Consensus       158 ~~~~~~~~~  166 (176)
T COG3881         158 FVRVFHSIS  166 (176)
T ss_pred             hhhhccCcc
Confidence            334444433

>TIGR02888 spore_YlmC_YmxH sporulation protein, YlmC/YmxH family

Probab=99.49  E-value=4.9e-14  Score=109.53  Aligned_cols=66  Identities=26%  Similarity=0.413  Sum_probs=59.7

Q ss_pred             eeccccCCeeEeccCcceeeeE--eEEEEECCCCEEEEEEEcC-CCCC-----CCceEEecccceeeC-cEEEEe
Q 022580          118 RRSNLLAKQVISIQSAMSLGFV--SQLWVDTTSWVVLVVEVRP-NLLS-----GEPERLLLEDICQVG-DVVLIE  183 (295)
Q Consensus       118 r~SeLiGlpVIsi~tG~rLG~V--~DL~vDp~~~rV~gLiV~~-~~l~-----~~~~~Ip~e~I~~IG-DaIlV~  183 (295)
                      |+|||.+++||++++|++||.|  .|+.+|+++|+|.|++++. +.|+     .+...|||++|.+|| |+|+|+
T Consensus         1 r~seL~~keVIni~~G~~lG~v~~~Dl~iD~~~G~I~aiIi~~~~~~~~~~~~~~~~~Ipw~~I~kIG~DvIlV~   75 (76)
T TIGR02888         1 RLSDLRGKEIINVNDGERLGVIGNIDLEIDEEDGRILSLIIPGKGKKFGLFSKGEEIEIPWDAIKKIGSDVILVD   75 (76)
T ss_pred             CHHHccCCCEEECCCCcEeeccccceEEEECCCCEEEEEEEeCCCcEEEeecCCcEEEEEhhhccEECCCEEEEe
Confidence            5899999999999999999999  8999999999999999987 3332     456799999999999 999996

Members of this family belong to the broader family of PRC-barrel domain proteins (see Pfam model pfam05239), but are found only in endospore-forming bacteria of the Firmicutes lineage. Most such species have exactly two members of this family and all have at least one; the function is unknown. One of two members from Bacillus subtilis, YmxH, is strongly induced by the mother cell-specific sigma-E factor.

>PF05239 PRC: PRC-barrel domain; InterPro: IPR007903 The PRC-barrel is an all beta barrel domain found in photosynthetic reaction centre subunit H of the purple bacteria

Probab=99.22  E-value=3.2e-11  Score=91.32  Aligned_cols=71  Identities=20%  Similarity=0.348  Sum_probs=64.0

Q ss_pred             ceeeeccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCC---CCceEEecccceeeC-cEEEEecCC
Q 022580          115 QVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLS---GEPERLLLEDICQVG-DVVLIEDES  186 (295)
Q Consensus       115 ~m~r~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~---~~~~~Ip~e~I~~IG-DaIlV~~~~  186 (295)
                      +++++|+|+|+||++.+ |+++|+|.|+++|+.++++.++++..+.|+   .+...+||+++..++ |.|+|+...
T Consensus         2 ~~~~~s~l~g~~V~~~~-G~~iG~V~di~id~~~~~i~~i~v~~~~~~~~~~~~~~iP~~~~v~~~~~~i~v~~~~   76 (79)
T PF05239_consen    2 DEFRLSELIGKEVIDRD-GEKIGKVKDIVIDPKTGKIVGIVVSSGGFFGIGGKKVLIPWDQIVDIGGDRIIVDPPK   76 (79)
T ss_dssp             CHGCHHHHTTSEEEETT-SCEEEEEEEEEEETTTTEEEEEEEEETTSTCSSSEEEEEEGGEEEEECTTEEEESSST
T ss_pred             CeEEhHHccCCEEEcCC-CCEEEEEEEEEEeCCCCCEEEEEEcCCCccCcCCcEEEEcCeEeEEecCCEEEEcCCC
Confidence            56889999999999977 999999999999999999999999998874   367899999888888 999998654

PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the C terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain [].; PDB: 2QGG_A 3H9N_A 2WJN_H 2PRC_H 5PRC_H 2X5V_H 1DXR_H 1R2C_H 3G7F_H 1PRC_H ....

>COG1873 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]

Probab=99.01  E-value=9.3e-10  Score=87.63  Aligned_cols=70  Identities=30%  Similarity=0.387  Sum_probs=60.7

Q ss_pred             ceeeeccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCC--CC--CCC--ceEEecccceeeCcEEEEecC
Q 022580          115 QVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPN--LL--SGE--PERLLLEDICQVGDVVLIEDE  185 (295)
Q Consensus       115 ~m~r~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~--~l--~~~--~~~Ip~e~I~~IGDaIlV~~~  185 (295)
                      .||++|+|.|++|++. +|+++|+|.|+.+|.+++.+.++.+.+.  .|  +++  .-.+||+.|.+|||-|+|...
T Consensus         4 ~~~~~s~l~gk~V~~~-~G~~vG~V~dv~ld~~~g~i~~l~v~~~~~~l~~~~k~~~v~IP~~~V~aIGd~III~~~   79 (87)
T COG1873           4 EMMRLSELLGKEVITN-DGKYVGTVSDVVLDIKEGKITGLLVIPTNKGLFLFGKGKEVIVPYEYVKAIGDIIIIKDV   79 (87)
T ss_pred             hhheHHHhcCcEEEcC-CCeEEEEEEeEEEEccCCcEEEEEEecCCccccccCCCcEEEEehhHeEEecCEEEEech
Confidence            4789999999999997 9999999999999999999999999876  23  333  669999999999987777653

>PF05239 PRC: PRC-barrel domain; InterPro: IPR007903 The PRC-barrel is an all beta barrel domain found in photosynthetic reaction centre subunit H of the purple bacteria

Probab=98.97  E-value=1.9e-09  Score=81.57  Aligned_cols=74  Identities=20%  Similarity=0.336  Sum_probs=62.5

Q ss_pred             ccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccceeeehhhhhhccCcEEEEccchhh
Q 022580          196 RLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHEAAAS  272 (295)
Q Consensus       196 ~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~~Lp~e~IvsiG~D~VIV~e~A~~  272 (295)
                      ..++|+|++|+|.+|+.+|+|.|++||+++|+|.++.++..+...+   -...+.||++.+++++.|+|+|...+++
T Consensus         5 ~~s~l~g~~V~~~~G~~iG~V~di~id~~~~~i~~i~v~~~~~~~~---~~~~~~iP~~~~v~~~~~~i~v~~~~~~   78 (79)
T PF05239_consen    5 RLSELIGKEVIDRDGEKIGKVKDIVIDPKTGKIVGIVVSSGGFFGI---GGKKVLIPWDQIVDIGGDRIIVDPPKEQ   78 (79)
T ss_dssp             CHHHHTTSEEEETTSCEEEEEEEEEEETTTTEEEEEEEEETTSTCS---SSEEEEEEGGEEEEECTTEEEESSSTG-
T ss_pred             EhHHccCCEEEcCCCCEEEEEEEEEEeCCCCCEEEEEEcCCCccCc---CCcEEEEcCeEeEEecCCEEEEcCCCCC
Confidence            5678999999999999999999999999999999999998432111   2246799999999999999999877653

PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the C terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain [].; PDB: 2QGG_A 3H9N_A 2WJN_H 2PRC_H 5PRC_H 2X5V_H 1DXR_H 1R2C_H 3G7F_H 1PRC_H ....

>TIGR02888 spore_YlmC_YmxH sporulation protein, YlmC/YmxH family

Probab=98.93  E-value=2.2e-09  Score=83.53  Aligned_cols=71  Identities=15%  Similarity=0.235  Sum_probs=58.3

Q ss_pred             cccccCCEEEc-CCCceeEEE--EEEEEEcCCccEEEEEEcCCCccccCCCcccceeeehhhhhhccCcEEEEc
Q 022580          197 LDTLVGYRVVT-PGRQNIGKV--RGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVH  267 (295)
Q Consensus       197 ~~~LiG~~ViT-e~G~~LG~V--~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~~Lp~e~IvsiG~D~VIV~  267 (295)
                      +++|.+++|++ .+|+.||.|  .|+.||+++|+|.++.+...|..+--..-...+.+|+++|..+|.|+|+|.
T Consensus         2 ~seL~~keVIni~~G~~lG~v~~~Dl~iD~~~G~I~aiIi~~~~~~~~~~~~~~~~~Ipw~~I~kIG~DvIlV~   75 (76)
T TIGR02888         2 LSDLRGKEIINVNDGERLGVIGNIDLEIDEEDGRILSLIIPGKGKKFGLFSKGEEIEIPWDAIKKIGSDVILVD   75 (76)
T ss_pred             HHHccCCCEEECCCCcEeeccccceEEEECCCCEEEEEEEeCCCcEEEeecCCcEEEEEhhhccEECCCEEEEe
Confidence            56889999999 799999999  899999999999999998744322000112348999999999999999984

Members of this family belong to the broader family of PRC-barrel domain proteins (see Pfam model pfam05239), but are found only in endospore-forming bacteria of the Firmicutes lineage. Most such species have exactly two members of this family and all have at least one; the function is unknown. One of two members from Bacillus subtilis, YmxH, is strongly induced by the mother cell-specific sigma-E factor.

>COG1873 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]

Probab=98.56  E-value=2.1e-07  Score=74.14  Aligned_cols=72  Identities=19%  Similarity=0.237  Sum_probs=59.4

Q ss_pred             ccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccceeeehhhhhhccCcEEEEc
Q 022580          196 RLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVH  267 (295)
Q Consensus       196 ~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~~Lp~e~IvsiG~D~VIV~  267 (295)
                      ...+|.|++|+|.+|+.+|+|.|+.||.++|+|+++.+...+..+....-.....+|++.|..+|.+.||..
T Consensus         7 ~~s~l~gk~V~~~~G~~vG~V~dv~ld~~~g~i~~l~v~~~~~~l~~~~k~~~v~IP~~~V~aIGd~III~~   78 (87)
T COG1873           7 RLSELLGKEVITNDGKYVGTVSDVVLDIKEGKITGLLVIPTNKGLFLFGKGKEVIVPYEYVKAIGDIIIIKD   78 (87)
T ss_pred             eHHHhcCcEEEcCCCeEEEEEEeEEEEccCCcEEEEEEecCCccccccCCCcEEEEehhHeEEecCEEEEec
Confidence            467899999999999999999999999999999999999742222222211368999999999999988874

>COG3881 PRC-barrel domain containing protein [General function prediction only]

Probab=97.29  E-value=0.001  Score=58.86  Aligned_cols=69  Identities=16%  Similarity=0.329  Sum_probs=60.2

Q ss_pred             cccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCC---CCCceEEecccceeeC-cEEEEecCCccc
Q 022580          121 NLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLL---SGEPERLLLEDICQVG-DVVLIEDESVME  189 (295)
Q Consensus       121 eLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l---~~~~~~Ip~e~I~~IG-DaIlV~~~~~v~  189 (295)
                      |++...++..++|..||.|.|+.||+.+++|+|..+..+.|   .+.++.+|-.+...+| |.+.|....++.
T Consensus        85 e~m~mk~~lt~dG~iLGmveDVyFdek~gkIvgyevS~GffADlt~gRkiira~~~v~vgKD~~ivs~~~~~~  157 (176)
T COG3881          85 EIMNMKVILTYDGTILGMVEDVYFDEKTGKIVGYEVSRGFFADLTSGRKIIRAGNYVLVGKDLFIVSNDKNLS  157 (176)
T ss_pred             HhhcCceEeccCCcEeeeeeEEEEeccCCcEEEEEecCchhhhccCCceEEECCCcEEecccEEEecCCcchh
Confidence            56677777789999999999999999999999999999987   3458899999999999 999998866554

>cd00226 PRCH Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce ATP by ATP synthase

Probab=96.66  E-value=0.0069  Score=56.84  Aligned_cols=63  Identities=22%  Similarity=0.272  Sum_probs=52.8

Q ss_pred             eccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCCCceEEecccceeeC-cEEEEec
Q 022580          119 RSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVG-DVVLIED  184 (295)
Q Consensus       119 ~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~~~~~Ip~e~I~~IG-DaIlV~~  184 (295)
                      -.|+.|++|+.. +|+.+|+|+|+|+|..++.+.-|.|+.+. ++++..||+ ....|. +.|.|+.
T Consensus       145 ~~DprGl~V~g~-DGevvGtV~Dv~vD~~e~~iRYLeVdtg~-~gkkVLLPi-~~~rId~~~V~V~~  208 (246)
T cd00226         145 DVDPRGLPVVGA-DGEVAGKVTDLWVDRPEQLFRYLEVELAG-GGRTVLLPM-GFAKVKSDRVKVTA  208 (246)
T ss_pred             CCCCCCCEeEcC-CCcEeEEEEEEEEcCCcceEEEEEEEcCC-CCCEEEEEe-EEEEecCCEEEEec
Confidence            468999999975 89999999999999989999999998866 566778884 446667 7899974

Subunit H is positioned mainly in the cytoplasm with one transmembrane alpha helix. Provides proton transfer pathway (water channels) connecting the terminal quinone electron acceptor of RC, to the aqueous phase. Found in photosynthetic bacteria: alpha, beta, and gamma proteobacteria.

>cd00226 PRCH Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce ATP by ATP synthase

Probab=95.75  E-value=0.035  Score=52.21  Aligned_cols=63  Identities=22%  Similarity=0.110  Sum_probs=48.1

Q ss_pred             ccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccce-eeehhhhhhccCcEEEEc
Q 022580          196 RLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTY-ALLVEDVLEVVADIVVVH  267 (295)
Q Consensus       196 ~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~-~Lp~e~IvsiG~D~VIV~  267 (295)
                      +-.++.|++|+..+|+.+|+|.|++||..++.|-.+|++..+        .++. .|| -....+..++|.|.
T Consensus       144 ~~~DprGl~V~g~DGevvGtV~Dv~vD~~e~~iRYLeVdtg~--------~gkkVLLP-i~~~rId~~~V~V~  207 (246)
T cd00226         144 GDVDPRGLPVVGADGEVAGKVTDLWVDRPEQLFRYLEVELAG--------GGRTVLLP-MGFAKVKSDRVKVT  207 (246)
T ss_pred             CCCCCCCCEeEcCCCcEeEEEEEEEEcCCcceEEEEEEEcCC--------CCCEEEEE-eEEEEecCCEEEEe
Confidence            368999999999999999999999999999999999998721        1122 233 33344556788885

Subunit H is positioned mainly in the cytoplasm with one transmembrane alpha helix. Provides proton transfer pathway (water channels) connecting the terminal quinone electron acceptor of RC, to the aqueous phase. Found in photosynthetic bacteria: alpha, beta, and gamma proteobacteria.

>COG0806 RimM RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]

Probab=91.50  E-value=0.46  Score=42.55  Aligned_cols=53  Identities=19%  Similarity=0.299  Sum_probs=37.1

Q ss_pred             EEEecCCcccccccccccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEE
Q 022580          180 VLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLEL  233 (295)
Q Consensus       180 IlV~~~~~v~~~~~l~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yel  233 (295)
                      |.|..+.......+-.-+++|+|++|+|++|+.||+|.++ ++.-.+.|--+..
T Consensus        86 i~v~~~~~p~l~EdEfY~~DLiG~~V~~~~g~~lG~V~~i-~~~Ga~Dvl~V~~  138 (174)
T COG0806          86 IFVDRSELPELEEDEFYYHDLIGLEVVTEDGELLGKVTEI-LETGANDVLVVKA  138 (174)
T ss_pred             EEEEHHHCCCCCCCcEEeEeecCcEEEcCCCcEEEEEEEE-eeCCCccEEEEEe
Confidence            4454433322122334579999999999999999999999 7766666666555

>PRK13829 rimM 16S rRNA-processing protein RimM; Provisional

Probab=91.00  E-value=0.61  Score=40.79  Aligned_cols=36  Identities=22%  Similarity=0.266  Sum_probs=27.8

Q ss_pred             cccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEc
Q 022580          195 VRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELD  234 (295)
Q Consensus       195 ~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels  234 (295)
                      .-+.+|+|++|+ ++|+.||+|.|+ ++  ||.=.-|++.
T Consensus        89 yY~~dLiG~~V~-~~g~~lG~V~~v-~~--~ga~dvlvV~  124 (162)
T PRK13829         89 YYYHELRGLPVY-VDGEPLGEVVDV-ED--AGAQDLLVIR  124 (162)
T ss_pred             EEehhccCeEEE-ECCEeeEEEEEE-ec--CCCceEEEEE
Confidence            357899999999 999999999999 44  4544444554

>TIGR01150 puhA photosynthetic reaction center, subunit H, bacterial

Probab=91.00  E-value=0.69  Score=43.65  Aligned_cols=61  Identities=23%  Similarity=0.304  Sum_probs=46.9

Q ss_pred             ccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCC-CceEEecccceeeC-cEEEEec
Q 022580          120 SNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSG-EPERLLLEDICQVG-DVVLIED  184 (295)
Q Consensus       120 SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~-~~~~Ip~e~I~~IG-DaIlV~~  184 (295)
                      -|-.|+||+. .+|+..|+|.|+|||..+..|..+.|+-+  .+ +...+|..-. .|. +.|.|+.
T Consensus       149 ~DPrG~pV~g-~Dg~v~GtV~D~WVDr~E~~iRYlEVel~--~~~~~vLlP~~f~-~i~~~~V~v~a  211 (252)
T TIGR01150       149 VDPRGLPVVA-ADGEVAGKVTDLWVDRPEQYFRYLEVELA--GGARTALLPMGMC-KVKSDRVVVNS  211 (252)
T ss_pred             CCCCCCeeEc-CCCceeeEEEEEEEcCccceeeEEEEEec--CCCceEEecccce-eccCCcEEEEE
Confidence            3578999996 67999999999999999998988887642  23 3456676644 446 7888875

This model describes the photosynthetic reaction center H subunit in non-oxygenic photosynthetic bacteria. The reaction center is an integral membrane pigment-protein that carries out light-driven electron transfer reactions. At the core of reaction center is a collection light-harvesting cofactors and closely associated polypeptides. The core protein complex is made of L, M and H subunits. The common cofactors include bacterichlorophyll, bacteriopheophytins, ubiquinone and no-heme ferrous iron. The net result of electron tranfer reactions is the establishment of proton electrochemical gradient and production of reducing equivalents in the form of NADH. Ultimately, the process results in the reduction of C02 to carbohydrates(C6H12O6) In non-oxygenic organisms, the electron donor is an organic acid rather than water. Much of our current functional understanding of photosynthesis comes from the structural determination

>PRK14591 rimM 16S rRNA-processing protein RimM; Provisional

Probab=90.67  E-value=0.64  Score=40.88  Aligned_cols=36  Identities=19%  Similarity=0.254  Sum_probs=28.0

Q ss_pred             cccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEE
Q 022580          195 VRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESL  231 (295)
Q Consensus       195 ~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~y  231 (295)
                      .-+.+|+|++|++++|+.||+|.|+ ++.-.+.+.-+
T Consensus       100 ~Y~~dLiG~~V~d~~g~~lG~V~~v-~~~ga~dll~I  135 (169)
T PRK14591        100 VYFKDLIGCSVKNINNDSFGVVVDI-IETGANEVLVC  135 (169)
T ss_pred             EEeeeecCcEEEeCCCCEEEEEEEE-eecCCceEEEE
Confidence            3578999999999999999999999 55434444433

>PRK13828 rimM 16S rRNA-processing protein RimM; Provisional

Probab=89.74  E-value=0.75  Score=40.15  Aligned_cols=37  Identities=30%  Similarity=0.453  Sum_probs=28.1

Q ss_pred             cccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEc
Q 022580          195 VRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELD  234 (295)
Q Consensus       195 ~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels  234 (295)
                      .-+.+|+|++|++++|+.||+|.|+.   +||.=.=|++.
T Consensus        80 ~y~~dLiG~~V~d~~g~~lG~V~~V~---~~ga~dvlvV~  116 (161)
T PRK13828         80 FYHADLIGLAAVDTGGALLGRVKAVH---NFGAGDILEIA  116 (161)
T ss_pred             EEhhhccCCEEEeCCCCEEEEEEEEc---cCCCccEEEEE
Confidence            35789999999999999999999993   34533334443

>PRK14592 rimM 16S rRNA-processing protein RimM; Provisional

Probab=89.70  E-value=0.6  Score=40.85  Aligned_cols=53  Identities=13%  Similarity=0.197  Sum_probs=34.1

Q ss_pred             EEEEecCCcccccccccccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEE
Q 022580          179 VVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLE  232 (295)
Q Consensus       179 aIlV~~~~~v~~~~~l~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~ye  232 (295)
                      .|+|+.+....-+.+-.-+.+|+|++|++++|+.+|+|.|+ ++.-.+.+--++
T Consensus        76 ~l~v~~~~lp~l~e~e~y~~dLiG~~V~~~~g~~lG~V~~v-~~~ga~dvlvI~  128 (165)
T PRK14592         76 KLYVERSKLPNLNEDEFYQSDLIGMEVKLEDNTIYGYIKKI-YNFGSCDIIEIS  128 (165)
T ss_pred             EEEEEHHHCCCCCCCCEEHHHcCCcEEEcCCCCEEEEEEEE-ccCCCccEEEEE
Confidence            55665433211112233578999999999999999999999 443334444444

>TIGR02273 16S_RimM 16S rRNA processing protein RimM

Probab=89.33  E-value=0.86  Score=39.66  Aligned_cols=37  Identities=24%  Similarity=0.337  Sum_probs=28.9

Q ss_pred             ccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEE
Q 022580          196 RLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLEL  233 (295)
Q Consensus       196 ~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yel  233 (295)
                      -+.+|+|++|++++|+.+|+|.|+ ++...+.+--+..
T Consensus        96 y~~dLiG~~V~d~~~~~lG~V~~v-~~~~a~dll~V~~  132 (165)
T TIGR02273        96 YWTDLIGLEVVTEEGEELGKVVEI-LETGANDVLVVRS  132 (165)
T ss_pred             EhhHhCCcEEEcCCCcEEEEEEEE-ecCCCccEEEEEE
Confidence            568999999999999999999999 4444445555544

This family consists of the bacterial protein RimM (YfjA, 21K), a 30S ribosomal subunit-binding protein implicated in 16S ribsomal RNA processing. It has been partially characterized in Escherichia coli, is found with other translation-associated genes such as trmD. It is broadly distributed among bacteria, including some minimal genomes such the aphid endosymbiont Buchnera aphidicola. The protein contains a PRC-barrel domain that it shares with other protein families (pfam05239) and a unique domain (pfam01782). This model describes the full-length protein. A member from Arabidopsis (plant) has additional N-terminal sequence likely to represent a chloroplast transit peptide.

>PRK00122 rimM 16S rRNA-processing protein RimM; Provisional

Probab=89.24  E-value=0.66  Score=40.68  Aligned_cols=36  Identities=22%  Similarity=0.408  Sum_probs=28.0

Q ss_pred             cccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEE
Q 022580          195 VRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLEL  233 (295)
Q Consensus       195 ~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yel  233 (295)
                      .-+.+|+|++|++++|..+|+|.|+ ++.-.+  .-|++
T Consensus       100 ~y~~dLiG~~V~d~~g~~lG~V~~v-~~~~a~--dll~I  135 (172)
T PRK00122        100 YYWHDLIGLEVVDEDGEELGKVTDI-LETGAN--DVLVV  135 (172)
T ss_pred             EEHHHhCCcEEEeCCCcEEEEEEEE-ccCCCc--eEEEE
Confidence            4568999999999999999999999 443344  44455

>PRK14594 rimM 16S rRNA-processing protein RimM; Provisional

Probab=88.49  E-value=1.5  Score=38.40  Aligned_cols=52  Identities=17%  Similarity=0.364  Sum_probs=32.6

Q ss_pred             EEEEecCCcccccccccccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEE
Q 022580          179 VVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLE  232 (295)
Q Consensus       179 aIlV~~~~~v~~~~~l~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~ye  232 (295)
                      .++|+.+....-..+-.-+++|+|++|+++ |..+|+|.|+ ++.-.+.+--+.
T Consensus        81 ~l~v~~~~lp~l~edE~Y~~dLiG~~V~~~-g~~lG~V~~v-~~~ga~dll~V~  132 (166)
T PRK14594         81 ELWVDDELASKLEEGEYYFGKLIGYAIVND-GKELGEVVSF-FECLNSVLLEVK  132 (166)
T ss_pred             EEEEEHHHCCCCCCCcEeHhHccCeEEEEC-CEEEEEEEEE-eeCCCcEEEEEE
Confidence            455554332111112235689999999995 9999999999 554344444433

>PRK14590 rimM 16S rRNA-processing protein RimM; Provisional

Probab=85.59  E-value=1.6  Score=38.60  Aligned_cols=35  Identities=14%  Similarity=0.224  Sum_probs=27.0

Q ss_pred             ccccccCCEEEcCCCceeE-EEEEEEEEcCCccEEEEEE
Q 022580          196 RLDTLVGYRVVTPGRQNIG-KVRGYTFNINSGAVESLEL  233 (295)
Q Consensus       196 ~~~~LiG~~ViTe~G~~LG-~V~Dv~FD~~TG~I~~yel  233 (295)
                      -+++|+|++|++++|+.+| +|.|+ ++  +|.=.=|++
T Consensus        98 y~~dLiG~~V~d~~g~~lGG~V~~v-~~--~~a~dllvV  133 (171)
T PRK14590         98 YSEDLIGLQAIDETGKPLNWKLTDV-QD--NPAHPILVF  133 (171)
T ss_pred             EhHHccCcEEEeCCCCEeeeEEEEE-ec--CCCceEEEE
Confidence            4689999999999999997 99999 33  443333444

>PRK13829 rimM 16S rRNA-processing protein RimM; Provisional

Probab=82.98  E-value=6.6  Score=34.30  Aligned_cols=52  Identities=19%  Similarity=0.105  Sum_probs=35.2

Q ss_pred             eeeccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCC-CCCceEEecc
Q 022580          117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLL-SGEPERLLLE  171 (295)
Q Consensus       117 ~r~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l-~~~~~~Ip~e  171 (295)
                      .=..||+|++|+  .+|..+|+|.++ ++...+-|.-+....+.. ..+...||+-
T Consensus        89 yY~~dLiG~~V~--~~g~~lG~V~~v-~~~ga~dvlvV~~~~~~~~~~k~~LIP~v  141 (162)
T PRK13829         89 YYYHELRGLPVY--VDGEPLGEVVDV-EDAGAQDLLVIRHVGGSLRARATYFVPLQ  141 (162)
T ss_pred             EEehhccCeEEE--ECCEeeEEEEEE-ecCCCceEEEEEeCCCCCccCceEEEccc
Confidence            568899999999  789999999998 444455565443222221 1245688873

>PRK14591 rimM 16S rRNA-processing protein RimM; Provisional

Probab=81.64  E-value=3.7  Score=36.07  Aligned_cols=48  Identities=17%  Similarity=0.176  Sum_probs=35.0

Q ss_pred             eeeccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCCCceEEecc
Q 022580          117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLE  171 (295)
Q Consensus       117 ~r~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~~~~~Ip~e  171 (295)
                      .-..||+|++|++ .+|..+|+|.++ ++...+-|.  .++.+   ++...||+-
T Consensus       100 ~Y~~dLiG~~V~d-~~g~~lG~V~~v-~~~ga~dll--~I~~~---~ke~LIP~~  147 (169)
T PRK14591        100 VYFKDLIGCSVKN-INNDSFGVVVDI-IETGANEVL--VCKED---NSEYLIPYV  147 (169)
T ss_pred             EEeeeecCcEEEe-CCCCEEEEEEEE-eecCCceEE--EEEcC---CeEEEEeCh
Confidence            5689999999998 578899999998 455556564  34432   346678874

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	295
1pm3_A	97	MTH1895; unknown function, structural genomics, PS	5e-04

>1pm3_A MTH1895; unknown function, structural genomics, PSI, protein structure initiative; 3.15A {Methanothermobacterthermautotrophicus} SCOP: b.41.1.2 Length = 97

 Score = 37.7 bits (87), Expect = 5e-04
 Identities = 21/77 (27%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 194 MVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLV 253
           M  ++ +VG  V+    + IGKV+    +I S A+ESL L   GIS           +  
Sbjct: 21  MRIVEEMVGKEVLDSSAKVIGKVKDVEVDIESQAIESLVLGKGGISEGLGLSKGETIVPY 80

Query: 254 EDVLEVVADIVVVHEAA 270
           E V + + D +++    
Sbjct: 81  EMV-KKIGDKILLKGPE 96

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	295
1pm3_A	97	MTH1895; unknown function, structural genomics, PS	99.48
1pm3_A	97	MTH1895; unknown function, structural genomics, PS	99.05
3htr_A	120	Uncharacterized PRC-barrel domain protein; beta-ba	98.53
3htr_A	120	Uncharacterized PRC-barrel domain protein; beta-ba	97.94
1eys_H	259	Photosynthetic reaction center; membrane protein c	96.67
1rzh_H	260	Reaction center protein H chain; bacterial photosy	96.66
2wjn_H	258	Reaction center protein H chain; bacteriochlorophy	96.46
2wjn_H	258	Reaction center protein H chain; bacteriochlorophy	96.4
1rzh_H	260	Reaction center protein H chain; bacterial photosy	96.38
1eys_H	259	Photosynthetic reaction center; membrane protein c	96.32
3h9n_A	177	Ribosome maturation factor RIMM; structural genomi	94.1
2f1l_A	187	16S rRNA processing protein; structural genomics,	91.77
2dyi_A	162	Probable 16S rRNA-processing protein RIMM; ribosom	89.77
2qgg_A	182	16S rRNA-processing protein RIMM; X-RAY, NESG, ASR	88.92
2qgg_A	182	16S rRNA-processing protein RIMM; X-RAY, NESG, ASR	84.94
3h9n_A	177	Ribosome maturation factor RIMM; structural genomi	83.14

>1pm3_A MTH1895; unknown function, structural genomics, PSI, protein structure initiative; 3.15A {Methanothermobacterthermautotrophicus} SCOP: b.41.1.2

Probab=99.48  E-value=7e-14  Score=111.43  Aligned_cols=76  Identities=21%  Similarity=0.248  Sum_probs=58.7

Q ss_pred             ccccccccceeee-ccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCC---CC--C-ceEEecccceeeC-c
Q 022580          107 KVKLRRGRQVMRR-SNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLL---SG--E-PERLLLEDICQVG-D  178 (295)
Q Consensus       107 ~~~~~~~~~m~r~-SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l---~~--~-~~~Ip~e~I~~IG-D  178 (295)
                      -+|+-++..||++ ++|.|++||+ .+|++||.|.|+.||+++++|.++++..+.|   ++  . ...|||++|++|| |
T Consensus        11 ~~~~~~~~~~Mr~~seL~Gk~Vin-~dG~~LG~V~Dv~iD~~~G~I~~lvl~~~~~~~~~g~~~~~~~IPw~~V~~IG~d   89 (97)
T 1pm3_A           11 SSGLVPRGSHMRIVEEMVGKEVLD-SSAKVIGKVKDVEVDIESQAIESLVLGKGGISEGLGLSKGETIVPYEMVKKIGDK   89 (97)
T ss_dssp             ---------CEETTTTSSSCEEEC-TTSCEEEEEEEEEEETTTTEEEEEEEECCC---------CEEEEEGGGEEEESSS
T ss_pred             cCCCCCCCeEEEeehhCCCCEeEC-CCCCEEeEEEEEEEECCCCEEEEEEEcCCCeeccccCCCeeEEEEhhHheEECCE
Confidence            3577788899999 9999999999 9999999999999999999999999988765   32  2 6799999999999 7


Q ss_pred             EEEEe
Q 022580          179 VVLIE  183 (295)
Q Consensus       179 aIlV~  183 (295)
                      +|+++
T Consensus        90 vIi~~   94 (97)
T 1pm3_A           90 ILLKG   94 (97)
T ss_dssp             EEECC
T ss_pred             EEEEe
Confidence            77664

>1pm3_A MTH1895; unknown function, structural genomics, PSI, protein structure initiative; 3.15A {Methanothermobacterthermautotrophicus} SCOP: b.41.1.2

Probab=99.05  E-value=4.1e-10  Score=89.56  Aligned_cols=74  Identities=28%  Similarity=0.308  Sum_probs=58.6

Q ss_pred             ccc-ccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccceeeehhhhhhccCcEEEEcc
Q 022580          195 VRL-DTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHE  268 (295)
Q Consensus       195 ~~~-~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~~Lp~e~IvsiG~D~VIV~e  268 (295)
                      -.+ .+|.|++|+|.+|+.||.|.|+.||+++|+|.+++++..++..+-..-...+.||++.|..+|+|+||+..
T Consensus        21 Mr~~seL~Gk~Vin~dG~~LG~V~Dv~iD~~~G~I~~lvl~~~~~~~~~g~~~~~~~IPw~~V~~IG~dvIi~~~   95 (97)
T 1pm3_A           21 MRIVEEMVGKEVLDSSAKVIGKVKDVEVDIESQAIESLVLGKGGISEGLGLSKGETIVPYEMVKKIGDKILLKGP   95 (97)
T ss_dssp             EETTTTSSSCEEECTTSCEEEEEEEEEEETTTTEEEEEEEECCC---------CEEEEEGGGEEEESSSEEECCT
T ss_pred             EEeehhCCCCEeECCCCCEEeEEEEEEEECCCCEEEEEEEcCCCeeccccCCCeeEEEEhhHheEECCEEEEEec
Confidence            345 79999999999999999999999999999999999988432100011112689999999999999998754

>3htr_A Uncharacterized PRC-barrel domain protein; beta-barrel, photo-reaction-center domain, structural genomics, PSI-2; HET: MSE; 2.06A {Rhodopseudomonas palustris}

Probab=98.53  E-value=9.8e-08  Score=78.35  Aligned_cols=70  Identities=9%  Similarity=0.056  Sum_probs=59.3

Q ss_pred             ccccceeeeccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCC---CceEEecccceeeC---cEEEE
Q 022580          111 RRGRQVMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSG---EPERLLLEDICQVG---DVVLI  182 (295)
Q Consensus       111 ~~~~~m~r~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~---~~~~Ip~e~I~~IG---DaIlV  182 (295)
                      +....||+.++|+|++|++. +|+++|.|.|+++|..+|+|.+++|..++|++   +.-.|||++++ +.   +.+.|
T Consensus         9 ~~~~~l~~~~~l~G~~V~~~-dG~~iG~V~dv~iD~~~G~i~~~vv~~GgflG~g~~~v~ip~~~l~-~~~~~~~~~v   84 (120)
T 3htr_A            9 NETLKLIGSDKVQGTAVYGP-DGEKIGSIERVMIEKVSGRVSYAVLSFGGFLGIGDDHYPLPWPALK-YNVELGGYQV   84 (120)
T ss_dssp             CBCSSEEEHHHHTTCEEECT-TSCEEEEEEEEEEETTTCBEEEEEEEESSBTTBSCEEEEECGGGCE-EETTTTEEEC
T ss_pred             cCCcceEehhhccCCEEEcC-CCCEEEEEEEEEEECCCCcEEEEEEECCCccCcCCEEEEeCHHHeE-EecCCCEEEe
Confidence            45667999999999999997 99999999999999999999999998887643   34689999996 43   46665

>3htr_A Uncharacterized PRC-barrel domain protein; beta-barrel, photo-reaction-center domain, structural genomics, PSI-2; HET: MSE; 2.06A {Rhodopseudomonas palustris}

Probab=97.94  E-value=2.5e-05  Score=63.98  Aligned_cols=72  Identities=24%  Similarity=0.192  Sum_probs=54.7

Q ss_pred             cccccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccceeeehhhhh-hccCcEEEEc
Q 022580          193 KMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVL-EVVADIVVVH  267 (295)
Q Consensus       193 ~l~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~~Lp~e~Iv-siG~D~VIV~  267 (295)
                      .+-...+|.|++|++.+|+.||.|.|+.+|..+|+|.++.++-.|+..+-   .....||+..+. .-..+.+.|.
T Consensus        13 ~l~~~~~l~G~~V~~~dG~~iG~V~dv~iD~~~G~i~~~vv~~GgflG~g---~~~v~ip~~~l~~~~~~~~~~v~   85 (120)
T 3htr_A           13 KLIGSDKVQGTAVYGPDGEKIGSIERVMIEKVSGRVSYAVLSFGGFLGIG---DDHYPLPWPALKYNVELGGYQVM   85 (120)
T ss_dssp             SEEEHHHHTTCEEECTTSCEEEEEEEEEEETTTCBEEEEEEEESSBTTBS---CEEEEECGGGCEEETTTTEEECC
T ss_pred             ceEehhhccCCEEEcCCCCEEEEEEEEEEECCCCcEEEEEEECCCccCcC---CEEEEeCHHHeEEecCCCEEEeC
Confidence            45567899999999999999999999999999999999999874442111   123689999883 2244566663

>1eys_H Photosynthetic reaction center; membrane protein complex, electron transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A {Thermochromatium tepidum} SCOP: b.41.1.1 f.23.10.1

Probab=96.67  E-value=0.0046  Score=57.12  Aligned_cols=40  Identities=18%  Similarity=0.137  Sum_probs=37.6

Q ss_pred             cccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCC
Q 022580          197 LDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFG  237 (295)
Q Consensus       197 ~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G  237 (295)
                      -.++.|.+|.+.+|+.+|+|.|+++|..+|+|..++++- |
T Consensus       148 ~~dl~G~~Vya~DGekIG~V~Dv~vD~~sG~VrYlVVdt-G  187 (259)
T 1eys_H          148 DPDPRGMTVVGLDGEVAGTVSDVWVDRSEPQIRYLEVEV-A  187 (259)
T ss_dssp             SCCCTTCEEECSSSCEEEEEEEEEEETTTTEEEEEEEEE-T
T ss_pred             CCCCcCCEEEeCCCCeeEEEEEEEEECCCCeEEEEEEEc-C
Confidence            367999999999999999999999999999999999988 5

>1rzh_H Reaction center protein H chain; bacterial photosynthesis, proton TR pathway, revertant, integral membrane protein, photosynthes; HET: BCL BPH U10 HTO SPO LDA CDL; 1.80A {Rhodobacter sphaeroides} SCOP: b.41.1.1 f.23.10.1 PDB: 1e14_H* 1f6n_H* 1fnp_H* 1fnq_H* 1jgw_H* 1jgx_H* 1jgy_H* 1jgz_H* 1jh0_H* 1k6l_H* 1k6n_H* 1kby_H* 1l9b_H* 1l9j_H* 1m3x_H* 1mps_H* 1pcr_H* 1e6d_H* 1rg5_H* 1rgn_H* ...

Probab=96.66  E-value=0.0057  Score=56.53  Aligned_cols=61  Identities=20%  Similarity=0.135  Sum_probs=48.2

Q ss_pred             cccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccc-eeeehhhhhhccCcEEEEc
Q 022580          197 LDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVST-YALLVEDVLEVVADIVVVH  267 (295)
Q Consensus       197 ~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr-~~Lp~e~IvsiG~D~VIV~  267 (295)
                      -.++.|.+|...+|+.+|+|.|++||..+|.|-.++++- |        .++ ..| +-....+..+.+-|.
T Consensus       145 ~~d~~G~~Vyg~DGe~iGsV~Dl~VD~~eg~VRYLVVdt-G--------ggrkVLL-P~~~~riD~~~VyV~  206 (260)
T 1rzh_H          145 GKNPIGLPVRGCDLEIAGKVVDIWVDIPEQMARFLEVEL-K--------DGSTRLL-PMQMVKVQSNRVHVN  206 (260)
T ss_dssp             SCCCTTCEEEETTSCEEEEEEEEEEETTTTEEEEEEEEC-T--------TSCEEEE-EGGGCEECSSCEEES
T ss_pred             CCCCCCCEeEcCCCCeeEEEEEEEEECCCCEEEEEEEEe-C--------CCCEEEe-eeEEEEEcCCeEEEe
Confidence            578999999999999999999999999999999999987 4        133 344 444545555777773

>2wjn_H Reaction center protein H chain; bacteriochlorophyll, lipidic-sponge phase, photosynthesis, R center, electron transport, cell membrane; HET: HEM FME BCB BPB MPG MQ7 NS5; 1.86A {Rhodopseudomonas viridis} PDB: 1prc_H* 1r2c_H* 1vrn_H* 1dxr_H* 2jbl_H* 2prc_H* 2i5n_H* 2wjm_H* 2x5u_H* 2x5v_H* 3d38_H* 3prc_H* 3t6e_H* 4ac5_H* 5prc_H* 6prc_H* 7prc_H* 3t6d_H* 3g7f_H*

Probab=96.46  E-value=0.008  Score=55.49  Aligned_cols=63  Identities=22%  Similarity=0.141  Sum_probs=49.0

Q ss_pred             ccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccceeeehhhhhhccCcEEEE
Q 022580          196 RLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVV  266 (295)
Q Consensus       196 ~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~~Lp~e~IvsiG~D~VIV  266 (295)
                      +-.++.|.+|...+|+.+|+|.|++||..+|.|-.++++- |.       .+++.|=+-....+..+.+-|
T Consensus       148 ~~~D~~G~~Vyg~DGe~iGsV~Dl~VD~~eg~VRYLVVdt-Gg-------ggrkVLLP~~~~riD~~~VyV  210 (258)
T 2wjn_H          148 GDVDPRGLPVVAADGVEAGTVTDLWVDRSEHYFRYLELSV-AG-------SARTALIPLGFCDVKKDKIVV  210 (258)
T ss_dssp             TSCCCTTCEEECTTSCEEEEEEEEEEETTTTEEEEEEEEE-TT-------TTEEEEEEGGGCEECSSCEEC
T ss_pred             CCCCCCCCEeEcCCCCeeEEEEEEEEECCCCEEEEEEEEc-CC-------CCCEEEeeeEEEEEcCCeEEE
Confidence            3578999999999999999999999999999999999987 32       234333345555555577777

>2wjn_H Reaction center protein H chain; bacteriochlorophyll, lipidic-sponge phase, photosynthesis, R center, electron transport, cell membrane; HET: HEM FME BCB BPB MPG MQ7 NS5; 1.86A {Rhodopseudomonas viridis} PDB: 1prc_H* 1r2c_H* 1vrn_H* 1dxr_H* 2jbl_H* 2prc_H* 2i5n_H* 2wjm_H* 2x5u_H* 2x5v_H* 3d38_H* 3prc_H* 3t6e_H* 4ac5_H* 5prc_H* 6prc_H* 7prc_H* 3t6d_H* 3g7f_H*

Probab=96.40  E-value=0.0048  Score=56.99  Aligned_cols=62  Identities=19%  Similarity=0.251  Sum_probs=50.8

Q ss_pred             ccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCCCceEEecccceeeC-cEEEEec
Q 022580          120 SNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVG-DVVLIED  184 (295)
Q Consensus       120 SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~~~~~Ip~e~I~~IG-DaIlV~~  184 (295)
                      .++.|.+|... +|+++|.|+|+|||..+++|..++++-++ ++++.-|||.-.+ |. +.|.|.+
T Consensus       150 ~D~~G~~Vyg~-DGe~iGsV~Dl~VD~~eg~VRYLVVdtGg-ggrkVLLP~~~~r-iD~~~VyV~~  212 (258)
T 2wjn_H          150 VDPRGLPVVAA-DGVEAGTVTDLWVDRSEHYFRYLELSVAG-SARTALIPLGFCD-VKKDKIVVTS  212 (258)
T ss_dssp             CCCTTCEEECT-TSCEEEEEEEEEEETTTTEEEEEEEEETT-TTEEEEEEGGGCE-ECSSCEECCS
T ss_pred             CCCCCCEeEcC-CCCeeEEEEEEEEECCCCEEEEEEEEcCC-CCCEEEeeeEEEE-EcCCeEEEec
Confidence            47889999975 89999999999999999999999998877 5666678887554 44 6777743

>1rzh_H Reaction center protein H chain; bacterial photosynthesis, proton TR pathway, revertant, integral membrane protein, photosynthes; HET: BCL BPH U10 HTO SPO LDA CDL; 1.80A {Rhodobacter sphaeroides} SCOP: b.41.1.1 f.23.10.1 PDB: 1e14_H* 1f6n_H* 1fnp_H* 1fnq_H* 1jgw_H* 1jgx_H* 1jgy_H* 1jgz_H* 1jh0_H* 1k6l_H* 1k6n_H* 1kby_H* 1l9b_H* 1l9j_H* 1m3x_H* 1mps_H* 1pcr_H* 1e6d_H* 1rg5_H* 1rgn_H* ...

Probab=96.38  E-value=0.0073  Score=55.80  Aligned_cols=63  Identities=19%  Similarity=0.235  Sum_probs=50.9

Q ss_pred             eccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCCCceEEecccceeeCcEEEEec
Q 022580          119 RSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVGDVVLIED  184 (295)
Q Consensus       119 ~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~~~~~Ip~e~I~~IGDaIlV~~  184 (295)
                      -.++.|.+|... +|+++|.|+|+|||..+++|..++++-+  ++++.-|||.-.+-=.+.|.|.+
T Consensus       145 ~~d~~G~~Vyg~-DGe~iGsV~Dl~VD~~eg~VRYLVVdtG--ggrkVLLP~~~~riD~~~VyV~~  207 (260)
T 1rzh_H          145 GKNPIGLPVRGC-DLEIAGKVVDIWVDIPEQMARFLEVELK--DGSTRLLPMQMVKVQSNRVHVNA  207 (260)
T ss_dssp             SCCCTTCEEEET-TSCEEEEEEEEEEETTTTEEEEEEEECT--TSCEEEEEGGGCEECSSCEEESS
T ss_pred             CCCCCCCEeEcC-CCCeeEEEEEEEEECCCCEEEEEEEEeC--CCCEEEeeeEEEEEcCCeEEEec
Confidence            346789999975 8999999999999999999999999887  56667888875543227777743

>1eys_H Photosynthetic reaction center; membrane protein complex, electron transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A {Thermochromatium tepidum} SCOP: b.41.1.1 f.23.10.1

Probab=96.32  E-value=0.007  Score=55.90  Aligned_cols=62  Identities=18%  Similarity=0.240  Sum_probs=50.9

Q ss_pred             eccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCCCceEEecccceeeC-c--EEEEe
Q 022580          119 RSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVG-D--VVLIE  183 (295)
Q Consensus       119 ~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~~~~~Ip~e~I~~IG-D--aIlV~  183 (295)
                      -+++.|..|.+ .+|+++|.|+|++||..+|+|..++|+.+ ++++...+|+ .+.+|- |  .|.|.
T Consensus       148 ~~dl~G~~Vya-~DGekIG~V~Dv~vD~~sG~VrYlVVdtG-~ggkkVLiPi-~~~~Id~d~~~V~V~  212 (259)
T 1eys_H          148 DPDPRGMTVVG-LDGEVAGTVSDVWVDRSEPQIRYLEVEVA-ANKKKVLLPI-GFSRFDKKARKVKVD  212 (259)
T ss_dssp             SCCCTTCEEEC-SSSCEEEEEEEEEEETTTTEEEEEEEEET-TTCCEEEEEG-GGCEEEGGGTEEECS
T ss_pred             CCCCcCCEEEe-CCCCeeEEEEEEEEECCCCeEEEEEEEcC-CCCCcEEEec-ChhhccccCCEEEEc
Confidence            36789999997 58999999999999999999999999988 6565557886 466666 3  67773

>3h9n_A Ribosome maturation factor RIMM; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.70A {Haemophilus influenzae}

Probab=94.10  E-value=0.2  Score=43.15  Aligned_cols=67  Identities=15%  Similarity=0.136  Sum_probs=43.2

Q ss_pred             eEEecccceee-------CcEEEEecCCcccccccccccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcC
Q 022580          166 ERLLLEDICQV-------GDVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDS  235 (295)
Q Consensus       166 ~~Ip~e~I~~I-------GDaIlV~~~~~v~~~~~l~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~  235 (295)
                      -.+-++.|..+       |-.++|+.+....-..+-.-+.+|+|++|++++|+.||+|.|+ ++  ||.=.=|++..
T Consensus        59 ~lvkf~gi~dr~~Ae~L~G~~l~v~~~~lp~l~edE~Y~~dLiGl~V~~~~g~~lG~V~~v-~~--~gandvl~V~~  132 (177)
T 3h9n_A           59 IIVKLKGVDDREAAQILANVEIGVDLSVFPELEEGDYYWHDLIGCTVVNLEGYTMGTVTEM-ME--TGSNDVLVVKA  132 (177)
T ss_dssp             EEEEESSCCSHHHHHTTTTCEEEEECCCCCCCSSSCGGGGGTTTCEEEETTCCEEEEEEEE-EE--SSSCEEEEEEC
T ss_pred             EEEEEcCCCCHHHHHHhcCCEEEEEHHHCCCCCCCCCCHHHhcCCEEEeCCCCEEEEEEEE-ee--CCCcEEEEEEe
Confidence            35555555433       2357777655432122334578999999999999999999999 44  45434455543

>2f1l_A 16S rRNA processing protein; structural genomics, joint CENT structural genomics, JCSG, protein structure initiative, PS unknown function; HET: UNL; 2.46A {Pseudomonas aeruginosa} SCOP: b.41.1.4 b.43.3.4

Probab=91.77  E-value=0.22  Score=43.44  Aligned_cols=54  Identities=19%  Similarity=0.250  Sum_probs=34.4

Q ss_pred             cEEEEecCCcccccccccccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEc
Q 022580          178 DVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELD  234 (295)
Q Consensus       178 DaIlV~~~~~v~~~~~l~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels  234 (295)
                      -.++|..+....-..+-.-+.+|+|++|++++|+.||+|.|+.   +||.=.=|++.
T Consensus        96 ~~l~v~r~~lp~l~edEfY~~DLIGl~V~~~~g~~lG~V~~v~---~~ganDvlvV~  149 (187)
T 2f1l_A           96 YEICIPRSELPSLEEGEYYWHQLEGLKVIDQGRQLLGVIDHLL---ETGANDVMVVK  149 (187)
T ss_dssp             CEEEEEGGGSCC-----CCHHHHTTCEEEETTSCEEEEEEEEE---CCSSSCEEEEE
T ss_pred             CEEEEEHHHCCCCCCCCEeHHHcCCeEEEeCCCCEEEEEEEEc---cCCCcEEEEEE
Confidence            3567765544221112235689999999999999999999995   45533334443

>2dyi_A Probable 16S rRNA-processing protein RIMM; ribosomal protein S19, PRC-barrel, STRU genomics, NPPSFA; 2.00A {Thermus thermophilus} PDB: 3a1p_A 2dog_A

Probab=89.77  E-value=0.47  Score=40.26  Aligned_cols=53  Identities=19%  Similarity=0.149  Sum_probs=34.6

Q ss_pred             cEEEEecCCcccccccccccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEc
Q 022580          178 DVVLIEDESVMENDFKMVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELD  234 (295)
Q Consensus       178 DaIlV~~~~~v~~~~~l~~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels  234 (295)
                      -.++|+.+....-..+-.-+++|+|++|+ ++|+.||+|.|+. +  ||.=.=|++.
T Consensus        72 ~~l~v~~~~lp~l~e~e~y~~dLiGl~V~-~~g~~lG~V~~v~-~--~ga~dvl~V~  124 (162)
T 2dyi_A           72 LRVYAEVADLPPLEEGRYYYFALIGLPVY-VEGRQVGEVVDIL-D--AGAQDVLIIR  124 (162)
T ss_dssp             CEEEEEGGGSCCCCTTCCCHHHHTTCEEE-ETTEEEEEEEEEE-E--ETTEEEEEEE
T ss_pred             CEEEEEHHHCCCCCCCcEeHHHhCCeEEE-ECCeEEEEEEEEc-c--CCCceEEEEE
Confidence            35666655442211222346899999999 9999999999995 4  5543334443

>2qgg_A 16S rRNA-processing protein RIMM; X-RAY, NESG, ASR73, structural genomics, PSI-2, protein structure initiative; 2.40A {Acinetobacter calcoaceticus}

Probab=88.92  E-value=0.44  Score=41.15  Aligned_cols=54  Identities=17%  Similarity=0.268  Sum_probs=35.8

Q ss_pred             cEEEEecCCcccccccccccccccCCEEEcC----CCceeEEEEEEEEEcCCccEEEEEEc
Q 022580          178 DVVLIEDESVMENDFKMVRLDTLVGYRVVTP----GRQNIGKVRGYTFNINSGAVESLELD  234 (295)
Q Consensus       178 DaIlV~~~~~v~~~~~l~~~~~LiG~~ViTe----~G~~LG~V~Dv~FD~~TG~I~~yels  234 (295)
                      -.++|..+....-..+-.-+++|+|++|++.    +|+.||+|.|+. +  ||.=.=|++.
T Consensus        87 ~~l~v~~~~lp~l~ede~Y~~dLiGl~V~~~~~~~~g~~lG~V~~v~-~--~gandvl~V~  144 (182)
T 2qgg_A           87 SNIWIAKSQLPKADVDEYYWSDLKGLTVLGLDDEEQEVNLGQIHELF-E--TGANDVMVVR  144 (182)
T ss_dssp             CEEEEETTCCCCCHHHHCCHHHHTTCEEEEECTTSCEEEEEEEEEEE-E--CSSCEEEEEE
T ss_pred             CEEEEEHHHCCCCCCCcEeHHHhCCcEEEEcccCCCCcEEEEEEEEc-c--CCCcEEEEEE
Confidence            3567766544221112235689999999998    999999999995 4  5543344554

>2qgg_A 16S rRNA-processing protein RIMM; X-RAY, NESG, ASR73, structural genomics, PSI-2, protein structure initiative; 2.40A {Acinetobacter calcoaceticus}

Probab=84.94  E-value=3.1  Score=35.70  Aligned_cols=65  Identities=22%  Similarity=0.311  Sum_probs=43.6

Q ss_pred             eeeccccCCeeEecc---CcceeeeEeEEEEECCCCEEEEEEEcCCC-CCC-CceEEecc-c-ceeeC-c--EEEEec
Q 022580          117 MRRSNLLAKQVISIQ---SAMSLGFVSQLWVDTTSWVVLVVEVRPNL-LSG-EPERLLLE-D-ICQVG-D--VVLIED  184 (295)
Q Consensus       117 ~r~SeLiGlpVIsi~---tG~rLG~V~DL~vDp~~~rV~gLiV~~~~-l~~-~~~~Ip~e-~-I~~IG-D--aIlV~~  184 (295)
                      .=..||+|+.|++..   +|..||+|.++. +...+-|.-+  +... -.+ +...||++ + |..|- +  .|+|+-
T Consensus       104 ~Y~~dLiGl~V~~~~~~~~g~~lG~V~~v~-~~gandvl~V--~~~~~~~g~ke~LIPf~~~~V~~VDl~~~~I~v~~  178 (182)
T 2qgg_A          104 YYWSDLKGLTVLGLDDEEQEVNLGQIHELF-ETGANDVMVV--RATPDSIDSEERMIPWHKDVVQRVDLEAGRIYVNW  178 (182)
T ss_dssp             CCHHHHTTCEEEEECTTSCEEEEEEEEEEE-ECSSCEEEEE--ECCSSSSSSCCEEEECCTTTEEEEETTTTEEEESC
T ss_pred             EeHHHhCCcEEEEcccCCCCcEEEEEEEEc-cCCCcEEEEE--EeccCCCCCeEEEeecChhhEeEEECCCCEEEEeC
Confidence            446799999999863   789999999995 6666777544  3200 113 56789993 2 55665 3  666653

>3h9n_A Ribosome maturation factor RIMM; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.70A {Haemophilus influenzae}

Probab=83.14  E-value=6.3  Score=33.64  Aligned_cols=68  Identities=16%  Similarity=0.274  Sum_probs=45.0

Q ss_pred             eeeccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCC-CCCCCceEEecc--c-ceeeC-c--EEEEecCC
Q 022580          117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPN-LLSGEPERLLLE--D-ICQVG-D--VVLIEDES  186 (295)
Q Consensus       117 ~r~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~-~l~~~~~~Ip~e--~-I~~IG-D--aIlV~~~~  186 (295)
                      .=..||+|+.|++ .+|..+|+|.++ ++...+-|.-+..... ...++...||+-  + |..|- +  .|+|+-.+
T Consensus        95 ~Y~~dLiGl~V~~-~~g~~lG~V~~v-~~~gandvl~V~~~~~~~~~~~e~LIP~v~~~~V~~VDl~~~~I~v~~p~  169 (177)
T 3h9n_A           95 YYWHDLIGCTVVN-LEGYTMGTVTEM-METGSNDVLVVKANTKDAFGKQERLIPFLYEQVVKRVDLTTKTIEVDWDA  169 (177)
T ss_dssp             GGGGGTTTCEEEE-TTCCEEEEEEEE-EESSSCEEEEEECCTTCTTCCSEEEEECCBTTTEEEEEGGGTEEEECCCS
T ss_pred             CCHHHhcCCEEEe-CCCCEEEEEEEE-eeCCCcEEEEEEeccccCCCCcEEEeeccchheEEEEeCCCCEEEEECCc
Confidence            4578999999997 469999999998 5665666654432111 112456799994  3 44565 3  67776543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	295
d1pm3a_	78	b.41.1.2 (A:) MTH1895 {Archaeon Methanobacterium t	0.003

>d1pm3a_ b.41.1.2 (A:) MTH1895 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 78

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: MTH1895
domain: MTH1895
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

 Score = 33.7 bits (77), Expect = 0.003
 Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 10/65 (15%)

Query: 194 MVRLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGIS----------IIPS 243
           M  ++ +VG  V+    + IGKV+    +I S A+ESL L   GIS          I+P 
Sbjct: 2   MRIVEEMVGKEVLDSSAKVIGKVKDVEVDIESQAIESLVLGKGGISEGLGLSKGETIVPY 61

Query: 244 SLVST 248
            +V  
Sbjct: 62  EMVKK 66

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	295
d1pm3a_	78	MTH1895 {Archaeon Methanobacterium thermoautotroph	99.14
d1pm3a_	78	MTH1895 {Archaeon Methanobacterium thermoautotroph	98.79
d1rzhh1	213	Photosynthetic reaction centre {Rhodobacter sphaer	97.32
d1eysh1	201	Photosynthetic reaction centre {Thermochromatium t	97.27
d1rzhh1	213	Photosynthetic reaction centre {Rhodobacter sphaer	97.15
d2i5nh1	222	Photosynthetic reaction centre {Rhodopseudomonas v	97.14
d2i5nh1	222	Photosynthetic reaction centre {Rhodopseudomonas v	96.98
d1eysh1	201	Photosynthetic reaction centre {Thermochromatium t	96.53
d2f1la1	75	16S rRNA processing protein RimM, C-terminal domai	92.79
d2f1la1	75	16S rRNA processing protein RimM, C-terminal domai	91.74

>d1pm3a_ b.41.1.2 (A:) MTH1895 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: MTH1895
domain: MTH1895
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.14  E-value=5.7e-11  Score=89.05  Aligned_cols=70  Identities=21%  Similarity=0.254  Sum_probs=61.7

Q ss_pred             eeeeccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCC------CCCCceEEecccceeeCcEEEEecCC
Q 022580          116 VMRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNL------LSGEPERLLLEDICQVGDVVLIEDES  186 (295)
Q Consensus       116 m~r~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~------l~~~~~~Ip~e~I~~IGDaIlV~~~~  186 (295)
                      |+...||+|++|++ .+++.+|+|.|+.||++++.|..+++.+++      |.+.+..+|+++|..|||.|+++.++
T Consensus         2 mRi~~dliGk~VlD-~~A~~IGkV~DvEiD~esg~vtsLiI~k~Gis~~igl~~~e~~Vp~e~V~~IGD~VlL~~~~   77 (78)
T d1pm3a_           2 MRIVEEMVGKEVLD-SSAKVIGKVKDVEVDIESQAIESLVLGKGGISEGLGLSKGETIVPYEMVKKIGDKILLKGPE   77 (78)
T ss_dssp             EETTTTSSSCEEEC-TTSCEEEEEEEEEEETTTTEEEEEEEECCC---------CEEEEEGGGEEEESSSEEECCTT
T ss_pred             cchHHhHhCchhcc-cccceeeeeeeEEEcCCCCeeEEEEEcCcccchhhcccCCeEEcCHHHHhhhccEEEEeCCC
Confidence            78889999999997 899999999999999999999999998775      45667899999999999999998753

>d1pm3a_ b.41.1.2 (A:) MTH1895 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: MTH1895
domain: MTH1895
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=98.79  E-value=7.9e-09  Score=77.26  Aligned_cols=71  Identities=28%  Similarity=0.302  Sum_probs=56.5

Q ss_pred             ccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccceeeehhhhhhccCcEEEEc
Q 022580          196 RLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVH  267 (295)
Q Consensus       196 ~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~~Lp~e~IvsiG~D~VIV~  267 (295)
                      -..+|+|++|++.++..+|+|.|+.||++||+|+++.++..|..---..+..+..+|.+.+..+| |.|++.
T Consensus         4 i~~dliGk~VlD~~A~~IGkV~DvEiD~esg~vtsLiI~k~Gis~~igl~~~e~~Vp~e~V~~IG-D~VlL~   74 (78)
T d1pm3a_           4 IVEEMVGKEVLDSSAKVIGKVKDVEVDIESQAIESLVLGKGGISEGLGLSKGETIVPYEMVKKIG-DKILLK   74 (78)
T ss_dssp             TTTTSSSCEEECTTSCEEEEEEEEEEETTTTEEEEEEEECCC---------CEEEEEGGGEEEES-SSEEEC
T ss_pred             hHHhHhCchhcccccceeeeeeeEEEcCCCCeeEEEEEcCcccchhhcccCCeEEcCHHHHhhhc-cEEEEe
Confidence            35689999999999999999999999999999999999987653111224467899999999999 777764

>d1rzhh1 b.41.1.1 (H:36-248) Photosynthetic reaction centre {Rhodobacter sphaeroides [TaxId: 1063]}

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: Photosynthetic reaction centre, H-chain, cytoplasmic domain
domain: Photosynthetic reaction centre
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=97.32  E-value=0.00035  Score=60.77  Aligned_cols=63  Identities=21%  Similarity=0.245  Sum_probs=53.5

Q ss_pred             eeeccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCCCceEEecccceeeC-cEEEEe
Q 022580          117 MRRSNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVG-DVVLIE  183 (295)
Q Consensus       117 ~r~SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~~~~~Ip~e~I~~IG-DaIlV~  183 (295)
                      -+-.+++|++|+. .+|+++|+|+|+|||..++.|..+.|+-++  ++...+||... .+. |.|.|.
T Consensus       108 ~~~~DprG~~V~~-~DG~kIGtV~DvwvD~~e~~vRYleV~tgg--gk~vLvP~~~a-~i~~d~V~V~  171 (213)
T d1rzhh1         108 SAGKNPIGLPVRG-CDLEIAGKVVDIWVDIPEQMARFLEVELKD--GSTRLLPMQMV-KVQSNRVHVN  171 (213)
T ss_dssp             EESCCCTTCEEEE-TTSCEEEEEEEEEEETTTTEEEEEEEECTT--SCEEEEEGGGC-EECSSCEEES
T ss_pred             ecCCCccCCeeEc-CCCCcceEEEEEEEECCCCcEEEEEEEeCC--CcEEEechhhe-EecCCeEEEc
Confidence            3456899999998 579999999999999999999999998763  56678999765 567 888886

>d1eysh1 b.41.1.1 (H:59-259) Photosynthetic reaction centre {Thermochromatium tepidum [TaxId: 1050]}

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: Photosynthetic reaction centre, H-chain, cytoplasmic domain
domain: Photosynthetic reaction centre
species: Thermochromatium tepidum [TaxId: 1050]

Probab=97.27  E-value=0.00035  Score=60.29  Aligned_cols=61  Identities=18%  Similarity=0.215  Sum_probs=52.1

Q ss_pred             ccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCCCceEEecccceeeC---cEEEEe
Q 022580          120 SNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVG---DVVLIE  183 (295)
Q Consensus       120 SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~~~~~Ip~e~I~~IG---DaIlV~  183 (295)
                      .|++|++|+. .+|+.+|+|+|+|||..+++|..+.|+-++| ++...+||. +..|.   +.|.|+
T Consensus        91 ~DprG~~V~~-~DG~~vGtV~Dv~vD~~e~~vRYleVdtg~g-gk~vLvP~~-~a~id~~~~~V~V~  154 (201)
T d1eysh1          91 PDPRGMTVVG-LDGEVAGTVSDVWVDRSEPQIRYLEVEVAAN-KKKVLLPIG-FSRFDKKARKVKVD  154 (201)
T ss_dssp             CCCTTCEEEC-SSSCEEEEEEEEEEETTTTEEEEEEEEETTT-CCEEEEEGG-GCEEEGGGTEEECS
T ss_pred             CCcccCeeEc-CCCCEEEEEEEEEEECCCCcEEEEEEEecCC-CcEEEEeee-eeEecCCCCEEEEe
Confidence            5899999997 5799999999999999999999999998876 556788986 66665   478886

>d1rzhh1 b.41.1.1 (H:36-248) Photosynthetic reaction centre {Rhodobacter sphaeroides [TaxId: 1063]}

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: Photosynthetic reaction centre, H-chain, cytoplasmic domain
domain: Photosynthetic reaction centre
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=97.15  E-value=0.0007  Score=58.84  Aligned_cols=64  Identities=20%  Similarity=0.154  Sum_probs=51.4

Q ss_pred             ccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccceeeehhhhhhccCcEEEEcc
Q 022580          196 RLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTYALLVEDVLEVVADIVVVHE  268 (295)
Q Consensus       196 ~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~~Lp~e~IvsiG~D~VIV~e  268 (295)
                      .-.+++|++|+..+|+.+|+|.|++||..++.|..++++-.|         ++..|-+-....+.+|.|.|..
T Consensus       109 ~~~DprG~~V~~~DG~kIGtV~DvwvD~~e~~vRYleV~tgg---------gk~vLvP~~~a~i~~d~V~V~s  172 (213)
T d1rzhh1         109 AGKNPIGLPVRGCDLEIAGKVVDIWVDIPEQMARFLEVELKD---------GSTRLLPMQMVKVQSNRVHVNA  172 (213)
T ss_dssp             ESCCCTTCEEEETTSCEEEEEEEEEEETTTTEEEEEEEECTT---------SCEEEEEGGGCEECSSCEEESS
T ss_pred             cCCCccCCeeEcCCCCcceEEEEEEEECCCCcEEEEEEEeCC---------CcEEEechhheEecCCeEEEcc
Confidence            346999999999999999999999999999999999998622         2233334455678889999853

>d2i5nh1 b.41.1.1 (H:37-258) Photosynthetic reaction centre {Rhodopseudomonas viridis [TaxId: 1079]}

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: Photosynthetic reaction centre, H-chain, cytoplasmic domain
domain: Photosynthetic reaction centre
species: Rhodopseudomonas viridis [TaxId: 1079]

Probab=97.14  E-value=0.00032  Score=61.41  Aligned_cols=61  Identities=20%  Similarity=0.278  Sum_probs=52.2

Q ss_pred             ccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCCCceEEecccceeeC-cEEEEe
Q 022580          120 SNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLEDICQVG-DVVLIE  183 (295)
Q Consensus       120 SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~~~~~Ip~e~I~~IG-DaIlV~  183 (295)
                      .|++|++|+. .+|+++|+|+|+|||..++.|..+.|+-++ +++...+||... .|. |.|.|.
T Consensus       114 ~DprG~~V~g-~DGekIGtV~DvwVD~~e~~vRYleVetg~-ggk~vLvP~~~a-~i~~d~v~V~  175 (222)
T d2i5nh1         114 VDPRGLPVVA-ADGVEAGTVTDLWVDRSEHYFRYLELSVAG-SARTALIPLGFC-DVKKDKIVVT  175 (222)
T ss_dssp             CCCTTCEEEC-TTSCEEEEEEEEEEETTTTEEEEEEEEETT-TTEEEEEEGGGC-EECSSCEECC
T ss_pred             CCcccCeeEc-CCCCeeeEEEEEEEeCCCCeEEEEEEEeCC-CCceEeeehhhc-eecCCcEEEc
Confidence            4899999996 689999999999999999999999998875 355668898865 556 888886

>d2i5nh1 b.41.1.1 (H:37-258) Photosynthetic reaction centre {Rhodopseudomonas viridis [TaxId: 1079]}

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: Photosynthetic reaction centre, H-chain, cytoplasmic domain
domain: Photosynthetic reaction centre
species: Rhodopseudomonas viridis [TaxId: 1079]

Probab=96.98  E-value=0.00095  Score=58.29  Aligned_cols=63  Identities=19%  Similarity=0.121  Sum_probs=50.0

Q ss_pred             ccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcCCCccccCCCcccce-eeehhhhhhccCcEEEEc
Q 022580          196 RLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDSFGISIIPSSLVSTY-ALLVEDVLEVVADIVVVH  267 (295)
Q Consensus       196 ~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~~G~~~ip~~~~sr~-~Lp~e~IvsiG~D~VIV~  267 (295)
                      +-.+++|++|+..+|+++|+|.|++||..++.|..++++- |.       .++. .||. ....+..|.+.|.
T Consensus       112 ~~~DprG~~V~g~DGekIGtV~DvwVD~~e~~vRYleVet-g~-------ggk~vLvP~-~~a~i~~d~v~V~  175 (222)
T d2i5nh1         112 GDVDPRGLPVVAADGVEAGTVTDLWVDRSEHYFRYLELSV-AG-------SARTALIPL-GFCDVKKDKIVVT  175 (222)
T ss_dssp             TSCCCTTCEEECTTSCEEEEEEEEEEETTTTEEEEEEEEE-TT-------TTEEEEEEG-GGCEECSSCEECC
T ss_pred             CCCCcccCeeEcCCCCeeeEEEEEEEeCCCCeEEEEEEEe-CC-------CCceEeeeh-hhceecCCcEEEc
Confidence            3469999999999999999999999999999999999987 31       1233 4443 3456777888885

>d1eysh1 b.41.1.1 (H:59-259) Photosynthetic reaction centre {Thermochromatium tepidum [TaxId: 1050]}

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: Photosynthetic reaction centre, H-chain, cytoplasmic domain
domain: Photosynthetic reaction centre
species: Thermochromatium tepidum [TaxId: 1050]

Probab=96.53  E-value=0.0035  Score=53.86  Aligned_cols=40  Identities=18%  Similarity=0.125  Sum_probs=37.8

Q ss_pred             ccccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcC
Q 022580          196 RLDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDS  235 (295)
Q Consensus       196 ~~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~  235 (295)
                      +-.+++|++|+..+|+.+|+|.|++||..++.|..++++-
T Consensus        89 g~~DprG~~V~~~DG~~vGtV~Dv~vD~~e~~vRYleVdt  128 (201)
T d1eysh1          89 GDPDPRGMTVVGLDGEVAGTVSDVWVDRSEPQIRYLEVEV  128 (201)
T ss_dssp             TSCCCTTCEEECSSSCEEEEEEEEEEETTTTEEEEEEEEE
T ss_pred             CCCCcccCeeEcCCCCEEEEEEEEEEECCCCcEEEEEEEe
Confidence            4479999999999999999999999999999999999986

>d2f1la1 b.41.1.4 (A:101-175) 16S rRNA processing protein RimM, C-terminal domain {Pseudomonas aeruginosa [TaxId: 287]}

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: RimM C-terminal domain-like
domain: 16S rRNA processing protein RimM, C-terminal domain
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=92.79  E-value=0.099  Score=37.17  Aligned_cols=51  Identities=24%  Similarity=0.231  Sum_probs=37.1

Q ss_pred             ccccCCeeEeccCcceeeeEeEEEEECCCCEEEEEEEcCCCCCCCceEEeccc
Q 022580          120 SNLLAKQVISIQSAMSLGFVSQLWVDTTSWVVLVVEVRPNLLSGEPERLLLED  172 (295)
Q Consensus       120 SeLiGlpVIsi~tG~rLG~V~DL~vDp~~~rV~gLiV~~~~l~~~~~~Ip~e~  172 (295)
                      .||+|+.|++. +|+.+|.|.++. |...+-+.-+....+...++...||+..
T Consensus         4 ~dLiG~~V~d~-~g~~lG~V~~v~-~~ga~dll~I~~~~~~~~~keiLIP~v~   54 (75)
T d2f1la1           4 HQLEGLKVIDQ-GRQLLGVIDHLL-ETGANDVMVVKPCAGSLDDRERLLPYTG   54 (75)
T ss_dssp             HHHTTCEEEET-TSCEEEEEEEEE-CCSSSCEEEEECCTTSSSSCCEEEECST
T ss_pred             HHcCCCEEEeC-CCCEEEEEEEEc-ccCCccEEEEEeCCCCCCCeEEEEEcCc
Confidence            68999999985 599999999985 4456777655544434445567899864

>d2f1la1 b.41.1.4 (A:101-175) 16S rRNA processing protein RimM, C-terminal domain {Pseudomonas aeruginosa [TaxId: 287]}

class: All beta proteins
fold: PRC-barrel domain
superfamily: PRC-barrel domain
family: RimM C-terminal domain-like
domain: 16S rRNA processing protein RimM, C-terminal domain
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=91.74  E-value=0.082  Score=37.63  Aligned_cols=38  Identities=21%  Similarity=0.356  Sum_probs=31.1

Q ss_pred             cccccCCEEEcCCCceeEEEEEEEEEcCCccEEEEEEcC
Q 022580          197 LDTLVGYRVVTPGRQNIGKVRGYTFNINSGAVESLELDS  235 (295)
Q Consensus       197 ~~~LiG~~ViTe~G~~LG~V~Dv~FD~~TG~I~~yels~  235 (295)
                      +++|+|++|++++|+.+|+|.++ ++.-.+.+.-+...+
T Consensus         3 ~~dLiG~~V~d~~g~~lG~V~~v-~~~ga~dll~I~~~~   40 (75)
T d2f1la1           3 WHQLEGLKVIDQGRQLLGVIDHL-LETGANDVMVVKPCA   40 (75)
T ss_dssp             HHHHTTCEEEETTSCEEEEEEEE-ECCSSSCEEEEECCT
T ss_pred             HHHcCCCEEEeCCCCEEEEEEEE-cccCCccEEEEEeCC
Confidence            46899999999999999999999 565566777666654