Citrus Sinensis ID: 025342

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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----
Protein Sequence
MPVTTCTSSLYLPLSLSSSRVRASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIAKPPTSTVTPTSTDQSVFDLLKHPTQGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEANSKLTTV
Secondary Structure (PSIPRED)
cccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcHHHHHHHHHHHHHcccccHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHcccccccHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEEccccccccccEEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHcccccccc
Coil and Loop (DISEMBL)
mpvttctsslylplslsssrvrasfdtqqrlsynpnaprkikkpplnlntnsnsnksdvaiakpptstvtptstdqsvfdllkhptqgvvanldesymgyerwlpnppkvgkprsvFNAASLAYIGDCIYELYArrhflfpplsieeyNNRVMAVVRCETQDALLQKLLNdsylsaeerDVVRWgknvgsantrtKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSklgftngsSTQMILEEANSKLTTV
Flexible Loop (DISEMBL)
mpvttctsslylplslsssrVRASfdtqqrlsynpnaprkikkpplnlntnsnsnksdvaiakpptstvtpTSTDQSVFDLLKHPTQGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDsylsaeerdvvrwgknvgsantrtkrragaavynrasslETLAGYLYLTNANRLEDVMSKLGftngsstqMILEeansklttv
Low Complexity Region (SEG)
MPVTTCTsslylplslsssRVRASFDTQQRLSYNPNAPRKIkkpplnlntnsnsnksDVAIAKpptstvtptstDQSVFDLLKHPTQGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEANSKLTTV
Disordered region (IsUnstruct)
*****************************************************************************VFDLLKHPTQGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGF********************
Disordered Region (DISOPRED)
*********LYLPLSLSSSRVRASFDTQQRLSY********************************************V*********************YERWLPNPPKVGK*RSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKN***************VYNRASSLETLAGYLYLTNANRLEDVMSKLGFT*******************
Disordered Region (DISEMBL)
*********LYLPLSLSSSRVRASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIAK************QSVFDLLKHPTQGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEANSKLTTV
Disordered Region (DISPRO)
*PVTTCTSSLYLPLSLSSSRVRASFDTQQRLSYNPNAPRKIKK***********************************************ANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGS*NTR*KRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNG*****************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MPVTTCTSSLYLPLSLSSSRVRASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIAKPPTSTVTPTSTDQSVFDLLKHPTQGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEANSKLTTV
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	254	2.2.26 [Sep-21-2011]
P74327	143	Mini-ribonuclease 3 OS=Sy	N/A	no	0.444	0.790	0.432	9e-19
Q8DLQ0	151	Mini-ribonuclease 3 OS=Th	yes	no	0.476	0.801	0.375	1e-16
Q05370	146	Mini-ribonuclease 3 OS=Sy	N/A	no	0.421	0.732	0.401	4e-15
Q7NDQ2	135	Mini-ribonuclease 3 OS=Gl	yes	no	0.409	0.770	0.348	6e-11
Q5N0K8	138	Mini-ribonuclease 3 OS=Sy	yes	no	0.377	0.695	0.405	2e-09
O31418	143	Mini-ribonuclease 3 OS=Ba	yes	no	0.433	0.769	0.310	1e-08
Q890M5	151	Mini-ribonuclease 3 OS=Cl	yes	no	0.409	0.688	0.333	3e-08
Q2RFM4	127	Mini-ribonuclease 3 OS=Mo	yes	no	0.381	0.763	0.343	4e-08
Q8DQS7	128	Mini-ribonuclease 3 OS=St	yes	no	0.444	0.882	0.277	1e-07
Q839V4	132	Mini-ribonuclease 3 OS=En	yes	no	0.464	0.893	0.317	5e-07

>sp|P74327|MRNC_SYNY3 Mini-ribonuclease 3 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=mrnC PE=3 SV=1

 Score = 94.0 bits (232), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 51/118 (43%), Positives = 75/118 (63%), Gaps = 5/118 (4%)

Query: 121 SLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERD 180
           +LAY+GD ++ELY R  +LFPP  I +++ RV+A VR E Q  +L  LL    L+  E++
Sbjct: 29  ALAYLGDAVFELYVRCCYLFPPRRIGDFHRRVVAQVRAEQQAQILTTLLPQ--LTDPEKE 86

Query: 181 VVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGS 238
            VR G+N   A T T RRA   +Y  AS LETL GYLYL +A RL+++++ +   + +
Sbjct: 87  WVRRGRN---AATSTSRRANPELYQAASGLETLLGYLYLRDARRLDELLALIELPDAA 141

Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc); Rnc processes 30S rRNA into smaller rRNA precursors.
Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)
EC: 3EC: .EC: 1EC: .EC: 2EC: 6EC: .EC: -

>sp|Q8DLQ0|MRNC_THEEB Mini-ribonuclease 3 OS=Thermosynechococcus elongatus (strain BP-1) GN=mrnC PE=3 SV=1

 Score = 87.4 bits (215), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 48/128 (37%), Positives = 68/128 (53%), Gaps = 7/128 (5%)

Query: 106 NPPKVGKPRSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALL 165
            PP +  P      A+LAY GD +YEL+ R  FL PP  I  Y+ +V+A VR E+Q   +
Sbjct: 11  QPPTI--PAHQLPPAALAYFGDAVYELFIRLLFLTPPQRINAYHRQVVAHVRAESQARYM 68

Query: 166 QKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRL 225
             L    Y +  ER + R G+N  +      +R  A +Y +A+  E L GYLYLTN  RL
Sbjct: 69  DFLWE--YCTETERSIFRQGRNAAADG---PKRVAAKIYRQATGFEALLGYLYLTNPQRL 123

Query: 226 EDVMSKLG 233
           +++   L 
Sbjct: 124 QEIFQLLA 131

Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc); Rnc processes 30S rRNA into smaller rRNA precursors.

Thermosynechococcus elongatus (strain BP-1) (taxid: 197221)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: -

>sp|Q05370|MRNC_SYNP1 Mini-ribonuclease 3 OS=Synechococcus sp. (strain PCC 6716) GN=mrnC PE=3 SV=1

 Score = 82.0 bits (201), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 45/112 (40%), Positives = 66/112 (58%), Gaps = 5/112 (4%)

Query: 121 SLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERD 180
           +LAY GD +YEL+ R  FL PP  I  Y+++V+A VR E+Q   +  L    + +A E  
Sbjct: 26  ALAYFGDAVYELFIRFIFLTPPQRINAYHHQVVAHVRAESQARYMDILW--PHCTAAELT 83

Query: 181 VVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKL 232
           + R G+N   A     +R  A +Y +A+  E L GYLYLT+  RL+DV++ L
Sbjct: 84  IFRQGRN---AAADGPKRVPAKIYRQATGFEALLGYLYLTDPQRLQDVLALL 132

Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even if ribonuclease 3 (Rnc) is inactivated; Rnc processes 30S rRNA into smaller rRNA precursors.

Synechococcus sp. (strain PCC 6716) (taxid: 32048)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: -

>sp|Q7NDQ2|MRNC_GLOVI Mini-ribonuclease 3 OS=Gloeobacter violaceus (strain PCC 7421) GN=mrnC PE=3 SV=2

 Score = 68.2 bits (165), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 38/109 (34%), Positives = 58/109 (53%), Gaps = 5/109 (4%)

Query: 121 SLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERD 180
           +LAY+GD ++EL+ R   L PP  ++  +   +A VR   Q  L   L    +L+ EE D
Sbjct: 13  ALAYLGDAVWELHVRTRVLLPPRRLQWLHGDTVACVRASAQAKLATCL--SPHLTVEEAD 70

Query: 181 VVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVM 229
            +R G+N G       RR   A Y  A++ E L GYL+L + +RL  ++
Sbjct: 71  WLRRGRNAGGT---VPRRLDPATYRLATAFEALLGYLFLADRDRLGVIL 116

Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc); Rnc processes 30S rRNA into smaller rRNA precursors.

Gloeobacter violaceus (strain PCC 7421) (taxid: 251221)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: -

>sp|Q5N0K8|MRNC_SYNP6 Mini-ribonuclease 3 OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=mrnC PE=3 SV=2

 Score = 63.5 bits (153), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 41/101 (40%), Positives = 55/101 (54%), Gaps = 5/101 (4%)

Query: 121 SLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERD 180
           +LAY+GD +YE + R   L P     + +  V+  VR E Q  LL  LL     +AEE +
Sbjct: 27  ALAYLGDALYEFHVRLRLLLPAQRSHQVHQSVVGAVRAERQAELLVSLLPLL--TAEELE 84

Query: 181 VVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTN 221
           +VR G+N   A  R  RR     Y +A+ LETL GYLYL +
Sbjct: 85  IVRRGRN---AAGRVPRRLTGEYYQQATGLETLLGYLYLCD 122

Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc); Rnc processes 30S rRNA into smaller rRNA precursors.

Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) (taxid: 269084)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: -

>sp|O31418|MRNC_BACSU Mini-ribonuclease 3 OS=Bacillus subtilis (strain 168) GN=mrnC PE=1 SV=1

 Score = 60.5 bits (145), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 36/116 (31%), Positives = 61/116 (52%), Gaps = 6/116 (5%)

Query: 118 NAASLAYIGDCIYELYARRHFLFPPLSI-EEYNNRVMAVVRCETQDALLQKLLNDSYLSA 176
           N  +LAYIGD I+E+Y R H L    +   + + +   +V  ++Q  +L  L N S+ + 
Sbjct: 14  NGLALAYIGDAIFEVYVRHHLLKQGFTKPNDLHKKSSRIVSAKSQAEILFFLQNQSFFTE 73

Query: 177 EERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKL 232
           EE  V++ G+N  S    T +      Y  +++ E L GYL+L    + E+ +S+L
Sbjct: 74  EEEAVLKRGRNAKSGT--TPKNTDVQTYRYSTAFEALLGYLFL---EKKEERLSQL 124

Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc); Rnc processes 30S rRNA into smaller rRNA precursors. Cleaves more efficiently on assembled 50S ribosomal subunits. Cleavage is strongly stimulated by ribosomal protein L3 (RplC); 20-30% DMSO can replace RplC, suggesting RplC may alter rRNA conformation.

Bacillus subtilis (strain 168) (taxid: 224308)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: -

>sp|Q890M5|MRNC_CLOTE Mini-ribonuclease 3 OS=Clostridium tetani (strain Massachusetts / E88) GN=mrnC PE=3 SV=1

 Score = 58.9 bits (141), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 37/111 (33%), Positives = 61/111 (54%), Gaps = 7/111 (6%)

Query: 122 LAYIGDCIYELYARRHFLFP--PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEER 179
           LAYIGD +YE++ R + +       + + + + +  V+ + Q   ++++    YL+ EE 
Sbjct: 23  LAYIGDAVYEIFIRTYIISKNKDTCVNKLHKKTIQFVKADAQSYFIREI--QKYLNEEEI 80

Query: 180 DVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNAN-RLEDVM 229
            V + G+N  S NT  K  A    Y  A+  ET+ GYLYL N + RLE++M
Sbjct: 81  KVFKRGRNTKS-NTSAKN-ASIQDYRMATGFETVIGYLYLLNEDERLEEIM 129

Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc); Rnc processes 30S rRNA into smaller rRNA precursors.

Clostridium tetani (strain Massachusetts / E88) (taxid: 212717)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: -

>sp|Q2RFM4|MRNC_MOOTA Mini-ribonuclease 3 OS=Moorella thermoacetica (strain ATCC 39073) GN=mrnC PE=3 SV=1

 Score = 58.9 bits (141), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 35/102 (34%), Positives = 56/102 (54%), Gaps = 5/102 (4%)

Query: 121 SLAYIGDCIYELYARRHFLF-PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEER 179
           +LAY+GD +YEL  R H +   P   E+ +   +  VR   Q  ++  L  + YL+  E+
Sbjct: 11  ALAYVGDAVYELLVRAHLVGRGPAKPEQLHREALKYVRATAQARVVPAL--EEYLTPAEK 68

Query: 180 DVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTN 221
           D++R G+N    +    R A  A Y+ +++LE+L GYLYL  
Sbjct: 69  DILRRGRNARPGH--LPRTAAPAEYHSSTALESLLGYLYLQG 108

Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc); Rnc processes 30S rRNA into smaller rRNA precursors.

Moorella thermoacetica (strain ATCC 39073) (taxid: 264732)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: -

>sp|Q8DQS7|MRNC_STRR6 Mini-ribonuclease 3 OS=Streptococcus pneumoniae (strain ATCC BAA-255 / R6) GN=mrnC PE=3 SV=1

 Score = 57.0 bits (136), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 33/119 (27%), Positives = 63/119 (52%), Gaps = 6/119 (5%)

Query: 115 SVFNAASLAYIGDCIYELYARRHFLFPPLSI-EEYNNRVMAVVRCETQDALLQKLLNDSY 173
           ++ N  +LA+ GD +Y +Y RRH +   ++   + +      V  + Q  L+  +L +  
Sbjct: 5   NLINGIALAFEGDAVYSMYIRRHLILKGMTKPNKLHQEATKYVSAKAQARLIALMLEEQV 64

Query: 174 LSAEERDVVRWGKNVGSANTRTK-RRAGAAVYNRASSLETLAGYLYLT-NANRLEDVMS 230
           L+ +E ++ + G+N    N+ TK + A    Y  ++  E + GYL++T N  RLE ++S
Sbjct: 65  LTEKEEEIYKRGRN---TNSHTKAKNADVVTYRMSTGFEAVMGYLHMTENLERLESLVS 120

Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc); Rnc processes 30S rRNA into smaller rRNA precursors.

Streptococcus pneumoniae (strain ATCC BAA-255 / R6) (taxid: 171101)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: -

>sp|Q839V4|MRNC_ENTFA Mini-ribonuclease 3 OS=Enterococcus faecalis (strain ATCC 700802 / V583) GN=mrnC PE=3 SV=1

 Score = 55.1 bits (131), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 40/126 (31%), Positives = 65/126 (51%), Gaps = 8/126 (6%)

Query: 117 FNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMA-VVRCETQDALLQKLLNDSYLS 175
            N  +LAY+GD IYE+Y R + +    +     +R+    V  + Q +L+Q +L    L+
Sbjct: 7   LNGLALAYVGDAIYEIYIRDYLVSLGQTKPNVLHRMATHYVSAKAQASLMQAMLAGEMLT 66

Query: 176 AEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNA-NRLEDVMS---- 230
            EE  + + G+N  S      + A    Y  A+  E+L GYL+LT    RLE++++    
Sbjct: 67  EEEEVMYKRGRNAKSHT--FAKNADVTTYRVATGFESLMGYLHLTQQKERLEELINWCIK 124

Query: 231 KLGFTN 236
           K+G TN
Sbjct: 125 KVGETN 130

Involved in correct processing of both the 5' and 3' ends of 23S rRNA precursor. Processes 30S rRNA precursor transcript even in absence of ribonuclease 3 (Rnc); Rnc processes 30S rRNA into smaller rRNA precursors.

Enterococcus faecalis (strain ATCC 700802 / V583) (taxid: 226185)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: -

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	254
118488084	246	unknown [Populus trichocarpa]	0.901	0.930	0.705	3e-84
224128634	246	predicted protein [Populus trichocarpa]	0.901	0.930	0.701	6e-84
255572959	248	RNA binding protein, putative [Ricinus c	0.858	0.879	0.682	7e-83
449458177	245	PREDICTED: uncharacterized protein LOC10	0.901	0.934	0.641	2e-78
225442262	233	PREDICTED: uncharacterized protein LOC10	0.874	0.952	0.623	6e-77
79366424	237	Ribonuclease III-like protein [Arabidops	0.893	0.957	0.616	8e-76
351723013	240	uncharacterized protein LOC100527214 [Gl	0.830	0.879	0.636	9e-76
358344607	279	hypothetical protein MTR_040s0004 [Medic	0.905	0.824	0.597	2e-74
357454675	258	hypothetical protein MTR_2g100220 [Medic	0.905	0.891	0.597	2e-74
21536670	247	unknown [Arabidopsis thaliana]	0.874	0.898	0.625	9e-72

>gi|118488084|gb|ABK95862.1| unknown [Populus trichocarpa]

 Score =  317 bits (813), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 168/238 (70%), Positives = 187/238 (78%), Gaps = 9/238 (3%)

Query: 18  SSRVR---ASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIAKPPTSTVTPTST 74
           S RVR   AS DTQQRLSYNPNAP   K P  NLN   N N    + A  P+STVT T+ 
Sbjct: 14  SRRVRVRAASVDTQQRLSYNPNAP---KNPFKNLNPKPN-NFVPTSTAPAPSSTVTLTA- 68

Query: 75  DQSVFDLLKHPTQGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYA 134
            Q+V  LLK  T  V   L++SY+GYERWLP+PPKV KPRSVFNAA+LAYIGD I+ELYA
Sbjct: 69  -QTVSGLLKRTTVIVQEQLNDSYLGYERWLPSPPKVEKPRSVFNAATLAYIGDSIFELYA 127

Query: 135 RRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTR 194
           RRHFLFPPLSIEE+N+RVMAVVRCE QDALLQKLLND+YLS EER ++RWGKNVGS  TR
Sbjct: 128 RRHFLFPPLSIEEHNDRVMAVVRCEAQDALLQKLLNDNYLSEEERLILRWGKNVGSTKTR 187

Query: 195 TKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEANSKLT 252
           TKRR G AVYNRASSLETL G+LYLTN +RLE+VM KLGF+  SSTQMI EE NSK T
Sbjct: 188 TKRRVGVAVYNRASSLETLVGFLYLTNVSRLEEVMLKLGFSTDSSTQMIPEEENSKST 245

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224128634|ref|XP_002329052.1| predicted protein [Populus trichocarpa] gi|222839723|gb|EEE78046.1| predicted protein [Populus trichocarpa]

 Score =  316 bits (810), Expect = 6e-84,   Method: Compositional matrix adjust.
 Identities = 167/238 (70%), Positives = 187/238 (78%), Gaps = 9/238 (3%)

Query: 18  SSRVR---ASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIAKPPTSTVTPTST 74
           S RV+   AS DTQQRLSYNPNAP   K P  NLN   N N    + A  P+STVT T+ 
Sbjct: 14  SRRVKVRAASVDTQQRLSYNPNAP---KNPFKNLNPKPN-NFVPTSTAPAPSSTVTLTA- 68

Query: 75  DQSVFDLLKHPTQGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYA 134
            Q+V  LLK  T  V   L++SY+GYERWLP+PPKV KPRSVFNAA+LAYIGD I+ELYA
Sbjct: 69  -QTVSGLLKRTTVIVQEQLNDSYLGYERWLPSPPKVEKPRSVFNAATLAYIGDSIFELYA 127

Query: 135 RRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTR 194
           RRHFLFPPLSIEE+N+RVMAVVRCE QDALLQKLLND+YLS EER ++RWGKNVGS  TR
Sbjct: 128 RRHFLFPPLSIEEHNDRVMAVVRCEAQDALLQKLLNDNYLSEEERLILRWGKNVGSTKTR 187

Query: 195 TKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEANSKLT 252
           TKRR G AVYNRASSLETL G+LYLTN +RLE+VM KLGF+  SSTQMI EE NSK T
Sbjct: 188 TKRRVGVAVYNRASSLETLVGFLYLTNVSRLEEVMLKLGFSTDSSTQMIPEEENSKST 245

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255572959|ref|XP_002527410.1| RNA binding protein, putative [Ricinus communis] gi|223533220|gb|EEF34976.1| RNA binding protein, putative [Ricinus communis]

 Score =  312 bits (800), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 159/233 (68%), Positives = 185/233 (79%), Gaps = 15/233 (6%)

Query: 21  VRASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIAKPPTSTVTP---TSTDQS 77
           VRAS+DTQQRL+YNPNAPRK  K     N  S  N     ++ PP +T +P   T T QS
Sbjct: 16  VRASWDTQQRLTYNPNAPRKHTK-----NPTSQPN----TLSLPPPTTTSPLSVTVTTQS 66

Query: 78  VFDLLKHPT--QGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYAR 135
           V +LLK  T  QGV+  LD++Y+GYERW+P PPKV KPRSV+NAA+LAYIGD IYELYAR
Sbjct: 67  VSNLLKRNTTPQGVMKKLDDTYLGYERWMPTPPKVEKPRSVYNAATLAYIGDSIYELYAR 126

Query: 136 RHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT 195
           RHFLFPPLSIEEYN+RVM+VVRCE QDALL KLLND++LS EERDV+RWGKN+ SA TRT
Sbjct: 127 RHFLFPPLSIEEYNDRVMSVVRCEAQDALLHKLLNDNFLSKEERDVLRWGKNIASAKTRT 186

Query: 196 KRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEAN 248
           K+RAGAAVYNRASSLETL GYLYLT+  RLE+VM KLGF+  SST  +LEE +
Sbjct: 187 KKRAGAAVYNRASSLETLVGYLYLTDVTRLEEVMLKLGFSVDSSTP-VLEETD 238

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458177|ref|XP_004146824.1| PREDICTED: uncharacterized protein LOC101205919 [Cucumis sativus]

 Score =  298 bits (762), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 154/240 (64%), Positives = 185/240 (77%), Gaps = 11/240 (4%)

Query: 14  LSLSSSRVRASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIAKPPTSTVTPTS 73
           LS +S+ + AS+DTQQRLSYNPNAPR   K P + + +  S  +  AI      T T   
Sbjct: 4   LSATSTSIVASWDTQQRLSYNPNAPRNPNKKPKSPSFSPTSQATGNAIL-----TATNIR 58

Query: 74  TDQSVFDLL--KHPTQGVVANLDES---YMGYERWLPNPPKVGKPRSVFNAASLAYIGDC 128
           T+Q V DLL  ++P+      L+E    Y+GY++WLP+PPKV KPRSVFNAASLAYIGDC
Sbjct: 59  TNQIVSDLLNRRNPSSIEGCKLEEPDGLYLGYDQWLPDPPKVQKPRSVFNAASLAYIGDC 118

Query: 129 IYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNV 188
           IYELYARRHFLFPPLSIEEYN+RVMAVVRCE QD LLQKLLND++L+  ERD++RWGKNV
Sbjct: 119 IYELYARRHFLFPPLSIEEYNDRVMAVVRCEAQDVLLQKLLNDNFLTEAERDILRWGKNV 178

Query: 189 GSAN-TRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEA 247
           GS++ TRTK+RAGAAVYNRASSLETL GYLYL N  RL+++M KLGF+  SS QMI EE+
Sbjct: 179 GSSSKTRTKKRAGAAVYNRASSLETLIGYLYLNNVKRLDEIMQKLGFSTDSSLQMISEES 238

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442262|ref|XP_002279256.1| PREDICTED: uncharacterized protein LOC100242891 [Vitis vinifera] gi|297743076|emb|CBI35943.3| unnamed protein product [Vitis vinifera]

 Score =  293 bits (749), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 151/242 (62%), Positives = 180/242 (74%), Gaps = 20/242 (8%)

Query: 14  LSLSSSRVRASFDTQQRLSYNPNAPRKIK-----KPPLNLNTNSNSNKSDVAIAKPPTST 68
           + ++S  VRAS+DT  RL YNP+  RK K     KPPLN         S V +   PT T
Sbjct: 4   VGMASLSVRASWDTLPRLPYNPHNRRKPKTPISLKPPLN--------PSPVTLVASPTGT 55

Query: 69  VTPTSTDQSVFDLLKHPTQ-GVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGD 127
           V P      V +LL+   Q       D+SYMGY+ WLP+PPKV KPRS +NAASLAY+GD
Sbjct: 56  VVP------VAELLRRDIQNSSQVKSDKSYMGYDIWLPSPPKVKKPRSAYNAASLAYLGD 109

Query: 128 CIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKN 187
           CI+ELYARRHFLFPPL++EEYN+RVMAVVRCE QDALLQKLL+D YLS EERDV+RWGKN
Sbjct: 110 CIFELYARRHFLFPPLNMEEYNDRVMAVVRCEAQDALLQKLLDDYYLSEEERDVLRWGKN 169

Query: 188 VGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEA 247
           +GSA TRTK+RAG AVYNRASSLETL GYLYLT+ NRLE+VM KLGF+  +STQ+ L+E 
Sbjct: 170 IGSAKTRTKKRAGVAVYNRASSLETLVGYLYLTDVNRLEEVMRKLGFSTDASTQLGLQET 229

Query: 248 NS 249
           ++
Sbjct: 230 DT 231

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79366424|ref|NP_175910.2| Ribonuclease III-like protein [Arabidopsis thaliana] gi|34146874|gb|AAQ62445.1| At1g55140 [Arabidopsis thaliana] gi|51968468|dbj|BAD42926.1| hypothetical protein [Arabidopsis thaliana] gi|332195069|gb|AEE33190.1| Ribonuclease III-like protein [Arabidopsis thaliana]

 Score =  289 bits (739), Expect = 8e-76,   Method: Compositional matrix adjust.
 Identities = 146/237 (61%), Positives = 181/237 (76%), Gaps = 10/237 (4%)

Query: 14  LSLSSSRVRASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIAKPPTSTVTPTS 73
           LS SS+ VRA+ DTQ +L YNPNAPR +KK         NSN S       P+S+   T+
Sbjct: 4   LSASSTIVRAALDTQPKLRYNPNAPRNVKK---------NSNLSSFVPPSSPSSSSPATN 54

Query: 74  TDQSVFDLLKHP-TQGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYEL 132
              SV DLLK P ++ +    D++ +GYE+W P+PPKV KPRSVFNAASLAYIGD IYE+
Sbjct: 55  LSVSVSDLLKRPASKDIGDGFDDTCVGYEKWFPSPPKVEKPRSVFNAASLAYIGDSIYEI 114

Query: 133 YARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSAN 192
           YARRHFLFPPLSIEEYN+RV AVVRCE Q ALLQKL++D +L+ +ERD++RWGKNVGS  
Sbjct: 115 YARRHFLFPPLSIEEYNDRVRAVVRCEAQYALLQKLVDDDFLTKDERDILRWGKNVGSVK 174

Query: 193 TRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEANS 249
           TR+ RRAG AVYN+ASSLETL GYLYL+N  RLE++M KLGF++GSST+ +++EA S
Sbjct: 175 TRSTRRAGVAVYNKASSLETLIGYLYLSNGKRLEEMMQKLGFSSGSSTERMVKEAGS 231

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351723013|ref|NP_001236496.1| uncharacterized protein LOC100527214 [Glycine max] gi|255631798|gb|ACU16266.1| unknown [Glycine max]

 Score =  289 bits (739), Expect = 9e-76,   Method: Compositional matrix adjust.
 Identities = 147/231 (63%), Positives = 173/231 (74%), Gaps = 20/231 (8%)

Query: 21  VRASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIAKPPTSTVTPTSTDQSVFD 80
           VRAS+DTQQRL YNPNAPRK+K               +  +A P  +       +Q + D
Sbjct: 16  VRASWDTQQRLPYNPNAPRKLK---------------NNIVATPTPTPPITRKREQYISD 60

Query: 81  LLKH----PTQGVVANL-DESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYAR 135
           LLK     PT G +  + DE+Y+GYE+WLP PPKV KPRSVFNAA+LAYIGDCIYELYAR
Sbjct: 61  LLKRATPLPTIGHIEEVQDETYLGYEKWLPTPPKVVKPRSVFNAATLAYIGDCIYELYAR 120

Query: 136 RHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT 195
           RHFLFPPLSIEEYN+RVMAVVRCE QDALLQKLL  ++LS +ERDV+RWGKN+ S  T+T
Sbjct: 121 RHFLFPPLSIEEYNDRVMAVVRCEAQDALLQKLLESNFLSDQERDVLRWGKNIVSNKTKT 180

Query: 196 KRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEE 246
           K+RAGAAVYNRASSLETL GYLYLTN NRLE +M +LGF+  SS  + +EE
Sbjct: 181 KKRAGAAVYNRASSLETLVGYLYLTNVNRLEKLMLELGFSVDSSVALNVEE 231

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358344607|ref|XP_003636379.1| hypothetical protein MTR_040s0004 [Medicago truncatula] gi|355502314|gb|AES83517.1| hypothetical protein MTR_040s0004 [Medicago truncatula]

 Score =  284 bits (727), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 150/251 (59%), Positives = 182/251 (72%), Gaps = 21/251 (8%)

Query: 7   TSSLYLPLSLSSSR----VRASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIA 62
           +SSL   ++ SSS+    V+AS+DTQQRL YN NAPRK+          +       + +
Sbjct: 5   SSSLSWSITFSSSKFKPVVKASWDTQQRLPYNRNAPRKL----------TTQPPKPQSPS 54

Query: 63  KPPTSTVTPTSTDQSVFDLLKH----PTQGVVANL---DESYMGYERWLPNPPKVGKPRS 115
              +S    T  +  + DLLK     PT G +  +   DE+Y+GY+RWLP PPKV KPRS
Sbjct: 55  PTSSSPAPSTRNENYISDLLKRATPLPTIGKIEEVQEHDETYLGYDRWLPTPPKVVKPRS 114

Query: 116 VFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLS 175
           VFNAA+LAYIGDCIYELYARRHFLFPPLSIEE+N+RVMAVVRCE QDALLQKLL  ++LS
Sbjct: 115 VFNAATLAYIGDCIYELYARRHFLFPPLSIEEFNDRVMAVVRCEAQDALLQKLLISNFLS 174

Query: 176 AEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFT 235
            +ERDV+RWGKN+ S+ T+TKRRAGAAVYNRASSLETL GYLYLTN NRLE +M +LGF+
Sbjct: 175 DQERDVLRWGKNIISSKTKTKRRAGAAVYNRASSLETLVGYLYLTNVNRLEKLMLELGFS 234

Query: 236 NGSSTQMILEE 246
             SS  + LEE
Sbjct: 235 VDSSMPLNLEE 245

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357454675|ref|XP_003597618.1| hypothetical protein MTR_2g100220 [Medicago truncatula] gi|355486666|gb|AES67869.1| hypothetical protein MTR_2g100220 [Medicago truncatula]

 Score =  284 bits (727), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 150/251 (59%), Positives = 182/251 (72%), Gaps = 21/251 (8%)

Query: 7   TSSLYLPLSLSSSR----VRASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIA 62
           +SSL   ++ SSS+    V+AS+DTQQRL YN NAPRK+          +       + +
Sbjct: 5   SSSLSWSITFSSSKFKPVVKASWDTQQRLPYNRNAPRKL----------TTQPPKPQSPS 54

Query: 63  KPPTSTVTPTSTDQSVFDLLKH----PTQGVVANL---DESYMGYERWLPNPPKVGKPRS 115
              +S    T  +  + DLLK     PT G +  +   DE+Y+GY+RWLP PPKV KPRS
Sbjct: 55  PTSSSPAPSTRNENYISDLLKRATPLPTIGKIEEVQEHDETYLGYDRWLPTPPKVVKPRS 114

Query: 116 VFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLS 175
           VFNAA+LAYIGDCIYELYARRHFLFPPLSIEE+N+RVMAVVRCE QDALLQKLL  ++LS
Sbjct: 115 VFNAATLAYIGDCIYELYARRHFLFPPLSIEEFNDRVMAVVRCEAQDALLQKLLISNFLS 174

Query: 176 AEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFT 235
            +ERDV+RWGKN+ S+ T+TKRRAGAAVYNRASSLETL GYLYLTN NRLE +M +LGF+
Sbjct: 175 DQERDVLRWGKNIISSKTKTKRRAGAAVYNRASSLETLVGYLYLTNVNRLEKLMLELGFS 234

Query: 236 NGSSTQMILEE 246
             SS  + LEE
Sbjct: 235 VDSSMPLNLEE 245

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21536670|gb|AAM61002.1| unknown [Arabidopsis thaliana]

 Score =  275 bits (704), Expect = 9e-72,   Method: Compositional matrix adjust.
 Identities = 147/235 (62%), Positives = 181/235 (77%), Gaps = 13/235 (5%)

Query: 17  SSSRVRASFDTQQRLSYNPNAPRKIKKPPLNLNTNSNSNKSDVAIAKPPTSTVTPTSTDQ 76
           +SS VRA+ DTQ RL YNPNAPRK+KK P     N NS     + A  P  ++       
Sbjct: 6   ASSTVRAALDTQPRLPYNPNAPRKVKKIP-----NGNSFLPPPSPAPSPGISI------- 53

Query: 77  SVFDLLKHPT-QGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYAR 135
           SV DLLK P+ + +  +LD++YMGYE W P+PPK+ KPRSVFNAASLA+IGD IYELYAR
Sbjct: 54  SVADLLKRPSSKEITVDLDDTYMGYETWSPSPPKLEKPRSVFNAASLAFIGDSIYELYAR 113

Query: 136 RHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT 195
           RHFLFPPLSIE+YN+RV AVVRCE Q ALL+KL++D +L+ EERD++RWGKN+GSA TRT
Sbjct: 114 RHFLFPPLSIEDYNDRVRAVVRCEAQYALLKKLVDDDFLTKEERDILRWGKNLGSARTRT 173

Query: 196 KRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEANSK 250
           +RRAG AVY +ASSLETL GYLYLTN  RLE +M KLGF++ SST++++EE N K
Sbjct: 174 RRRAGNAVYKKASSLETLIGYLYLTNGKRLEKIMEKLGFSSDSSTEIVIEETNPK 228

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	254
TAIR|locus:2091586	247	AT3G13740 [Arabidopsis thalian	0.685	0.704	0.685	2.9e-70
TAIR|locus:2205687	237	AT1G55140 [Arabidopsis thalian	0.866	0.928	0.582	1.2e-65
UNIPROTKB|Q97S24	128	mrnC "Mini-ribonuclease 3" [St	0.448	0.890	0.279	5.8e-11
UNIPROTKB|O31418	143	mrnC "Mini-ribonuclease 3" [Ba	0.5	0.888	0.300	9.4e-11
UNIPROTKB|Q3A9P2	129	mrnC "Mini-ribonuclease 3" [Ca	0.421	0.829	0.324	6.6e-10
TIGR_CMR|CHY_2337	129	CHY_2337 "conserved hypothetic	0.421	0.829	0.324	6.6e-10
UNIPROTKB|Q81VV0	135	mrnC "Mini-ribonuclease 3" [Ba	0.440	0.829	0.301	1.1e-09
TIGR_CMR|BA_0090	135	BA_0090 "conserved hypothetica	0.440	0.829	0.301	1.1e-09
UNIPROTKB|Q724H2	141	mrnC "Mini-ribonuclease 3" [Li	0.440	0.794	0.275	3.2e-08

TAIR|locus:2091586 AT3G13740 [Arabidopsis thaliana (taxid:3702)]

 Score = 643 (231.4 bits), Expect = 2.9e-70, Sum P(2) = 2.9e-70
 Identities = 120/175 (68%), Positives = 148/175 (84%)

Query:    77 SVFDLLKHPT-QGVVANLDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYAR 135
             SV DLLK P+ + +  ++D++YMGYE W P+PPK+ KPRSVFN ASLA+IGD IYELYAR
Sbjct:    54 SVADLLKRPSSKEITVDVDDTYMGYETWSPSPPKLEKPRSVFNPASLAFIGDSIYELYAR 113

Query:   136 RHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT 195
             RHFLFPPLSIE+YN+RV AVVRCE Q ALL KL++D +L+ EERD++RWGKN+GSA TRT
Sbjct:   114 RHFLFPPLSIEDYNDRVRAVVRCEAQYALLNKLVDDDFLTKEERDILRWGKNLGSARTRT 173

Query:   196 KRRAGAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEANSK 250
             +RRAG AVYN+ASSLETL GYLYLTN  RLE +M KLGF++ SST++++EE N K
Sbjct:   174 RRRAGNAVYNKASSLETLIGYLYLTNGKRLEKIMEKLGFSSDSSTEIVIEETNPK 228

GO:0003723 "RNA binding" evidence=IEA

GO:0004525 "ribonuclease III activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006396 "RNA processing" evidence=IEA

TAIR|locus:2205687 AT1G55140 [Arabidopsis thaliana (taxid:3702)]

 Score = 668 (240.2 bits), Expect = 1.2e-65, P = 1.2e-65
 Identities = 134/230 (58%), Positives = 165/230 (71%)

Query:    21 VRASFDTQQRLSYNPNAPRKIXXXXXXXXXXXXXXXXDVAIAKXXXXXXXXXXXDQSVFD 80
             VRA+ DTQ +L YNPNAPR +                  + A              SV D
Sbjct:    11 VRAALDTQPKLRYNPNAPRNVKKNSNLSSFVPPSSPSSSSPATNLSV---------SVSD 61

Query:    81 LLKHPTQGVVAN-LDESYMGYERWLPNPPKVGKPRSVFNAASLAYIGDCIYELYARRHFL 139
             LLK P    + +  D++ +GYE+W P+PPKV KPRSVFNAASLAYIGD IYE+YARRHFL
Sbjct:    62 LLKRPASKDIGDGFDDTCVGYEKWFPSPPKVEKPRSVFNAASLAYIGDSIYEIYARRHFL 121

Query:   140 FPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRA 199
             FPPLSIEEYN+RV AVVRCE Q ALLQKL++D +L+ +ERD++RWGKNVGS  TR+ RRA
Sbjct:   122 FPPLSIEEYNDRVRAVVRCEAQYALLQKLVDDDFLTKDERDILRWGKNVGSVKTRSTRRA 181

Query:   200 GAAVYNRASSLETLAGYLYLTNANRLEDVMSKLGFTNGSSTQMILEEANS 249
             G AVYN+ASSLETL GYLYL+N  RLE++M KLGF++GSST+ +++EA S
Sbjct:   182 GVAVYNKASSLETLIGYLYLSNGKRLEEMMQKLGFSSGSSTERMVKEAGS 231

GO:0003723 "RNA binding" evidence=IEA

GO:0004525 "ribonuclease III activity" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

UNIPROTKB|Q97S24 mrnC "Mini-ribonuclease 3" [Streptococcus pneumoniae TIGR4 (taxid:170187)]

 Score = 152 (58.6 bits), Expect = 5.8e-11, P = 5.8e-11
 Identities = 33/118 (27%), Positives = 63/118 (53%)

Query:   115 SVFNAASLAYIGDCIYELYARRHFLFPPLSI-EEYNNRVMAVVRCETQDALLQKLLNDSY 173
             ++ N  +LA+ GD +Y +Y RRH +   ++   + +      V  + Q  L+  +L +  
Sbjct:     5 NLINGIALAFEGDAVYSMYIRRHLILKGMTKPNKLHQEATKYVSAKAQARLIALMLEEQV 64

Query:   174 LSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLT-NANRLEDVMS 230
             L+ +E ++ + G+N  S +T+ K  A    Y  ++  E + GYL++T N  RLE ++S
Sbjct:    65 LTEKEEEIYKRGRNTNS-HTKAKN-ADVVTYRMSTGFEAVMGYLHMTENLERLESLVS 120

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|O31418 mrnC "Mini-ribonuclease 3" [Bacillus subtilis subsp. subtilis str. 168 (taxid:224308)]

 Score = 150 (57.9 bits), Expect = 9.4e-11, P = 9.4e-11
 Identities = 40/133 (30%), Positives = 67/133 (50%)

Query:   112 KPRSVFNAASLAYIGDCIYELYARRHFLFPPLSI-EEYNNRVMAVVRCETQDALLQKLLN 170
             K     N  +LAYIGD I+E+Y R H L    +   + + +   +V  ++Q  +L  L N
Sbjct:     8 KDSKQLNGLALAYIGDAIFEVYVRHHLLKQGFTKPNDLHKKSSRIVSAKSQAEILFFLQN 67

Query:   171 DSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNAN-RLEDVM 229
              S+ + EE  V++ G+N  S  T   +      Y  +++ E L GYL+L     RL  ++
Sbjct:    68 QSFFTEEEEAVLKRGRNAKSGTT--PKNTDVQTYRYSTAFEALLGYLFLEKKEERLSQLV 125

Query:   230 SK-LGF-TNGSST 240
             ++ + F T+G  T
Sbjct:   126 AEAIQFGTSGRKT 138

GO:0004540 "ribonuclease activity" evidence=IDA

GO:0006364 "rRNA processing" evidence=IDA

UNIPROTKB|Q3A9P2 mrnC "Mini-ribonuclease 3" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 142 (55.0 bits), Expect = 6.6e-10, P = 6.6e-10
 Identities = 37/114 (32%), Positives = 65/114 (57%)

Query:   117 FNAASLAYIGDCIYELYARRHFLFP-PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLS 175
             ++  +LAY+GD +YEL  R + L      + E + + +++V    Q AL  +L+ + YL+
Sbjct:     6 YSPLALAYLGDAVYELLTREYVLERYGGKMGEVHKKSVSLVNAR-QQALAGELIEE-YLT 63

Query:   176 AEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLT-NANRLEDV 228
             +EER++ R G+N   A     R     VY R++ LE + G+LYL  N  R++++
Sbjct:    64 SEEREIFRRGRN---AKGNYPRNVEVVVYRRSTGLEAVFGFLYLKGNIVRIKEL 114

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|CHY_2337 CHY_2337 "conserved hypothetical protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 142 (55.0 bits), Expect = 6.6e-10, P = 6.6e-10
 Identities = 37/114 (32%), Positives = 65/114 (57%)

Query:   117 FNAASLAYIGDCIYELYARRHFLFP-PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLS 175
             ++  +LAY+GD +YEL  R + L      + E + + +++V    Q AL  +L+ + YL+
Sbjct:     6 YSPLALAYLGDAVYELLTREYVLERYGGKMGEVHKKSVSLVNAR-QQALAGELIEE-YLT 63

Query:   176 AEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLT-NANRLEDV 228
             +EER++ R G+N   A     R     VY R++ LE + G+LYL  N  R++++
Sbjct:    64 SEEREIFRRGRN---AKGNYPRNVEVVVYRRSTGLEAVFGFLYLKGNIVRIKEL 114

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q81VV0 mrnC "Mini-ribonuclease 3" [Bacillus anthracis (taxid:1392)]

 Score = 140 (54.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 35/116 (30%), Positives = 59/116 (50%)

Query:   118 NAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRV-MAVVRCETQDALLQKLLNDSYLSA 176
             N+ +LAY+GD +YE Y R H L          +R+  + V  + Q  ++  LL  ++L+ 
Sbjct:     8 NSLALAYMGDAVYEQYIRYHLLQKGKVRPNQLHRLGTSFVSAKAQAKVVYHLLETAFLTE 67

Query:   177 EERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYL-TNANRLEDVMSK 231
             EE  V+R G+N  S      +      Y  +++ E L GY +L  N  RL++++ K
Sbjct:    68 EEEAVLRRGRNANSGTV--PKNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYK 121

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|BA_0090 BA_0090 "conserved hypothetical protein" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 140 (54.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 35/116 (30%), Positives = 59/116 (50%)

Query:   118 NAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRV-MAVVRCETQDALLQKLLNDSYLSA 176
             N+ +LAY+GD +YE Y R H L          +R+  + V  + Q  ++  LL  ++L+ 
Sbjct:     8 NSLALAYMGDAVYEQYIRYHLLQKGKVRPNQLHRLGTSFVSAKAQAKVVYHLLETAFLTE 67

Query:   177 EERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYL-TNANRLEDVMSK 231
             EE  V+R G+N  S      +      Y  +++ E L GY +L  N  RL++++ K
Sbjct:    68 EEEAVLRRGRNANSGTV--PKNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYK 121

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q724H2 mrnC "Mini-ribonuclease 3" [Listeria monocytogenes serotype 4b str. F2365 (taxid:265669)]

 Score = 127 (49.8 bits), Expect = 3.2e-08, P = 3.2e-08
 Identities = 32/116 (27%), Positives = 56/116 (48%)

Query:   118 NAASLAYIGDCIYELYARRHFLFP-PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSA 176
             N  +LAY+GD +YE + R + L        + +      V  + Q   L+ ++ + +L+ 
Sbjct:    11 NGLALAYMGDAVYEKFIREYLLAAGKTKPNQLHKTATKFVSAKGQAVALKAMIAEGFLTE 70

Query:   177 EERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTNA-NRLEDVMSK 231
             EE  + + G+N  S         G   Y+ ++S E + GYLYL    +RL++ M K
Sbjct:    71 EEDRIAKRGRNAKSYTVPKNTDPGT--YSMSTSFEAVLGYLYLAGELDRLQEWMEK 124


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        0.317   0.131   0.379    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      254       215   0.00087  112 3  11 22  0.38    33
                                                     32  0.50    35


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:  9
  No. of states in DFA:  593 (63 KB)
  Total size of DFA:  161 KB (2096 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:  15.99u 0.09s 16.08t   Elapsed:  00:00:00
  Total cpu time:  16.00u 0.09s 16.09t   Elapsed:  00:00:00
  Start:  Fri May 10 05:03:23 2013   End:  Fri May 10 05:03:23 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" 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: gw1.97.72.1 SubName- Full=Putative uncharacterized protein; (232 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	254
COG1939	132	COG1939, COG1939, Ribonuclease III family protein	8e-24
pfam00636	91	pfam00636, Ribonuclease_3, Ribonuclease III domain	2e-17
cd00593	133	cd00593, RIBOc, RIBOc	4e-11
smart00535	129	smart00535, RIBOc, Ribonuclease III family	1e-06

>gnl|CDD|224850 COG1939, COG1939, Ribonuclease III family protein [Replication, recombination, and repair]

 Score = 92.8 bits (231), Expect = 8e-24
 Identities = 41/117 (35%), Positives = 65/117 (55%), Gaps = 8/117 (6%)

Query: 118 NAASLAYIGDCIYELYARRHFLFPPLS-IEEYNNRVMAVVRCETQDALLQKLLNDSYLSA 176
           N  +LAY+GD +YELY R + L    +   + + R  A V  + Q  +L+ LL   +L+ 
Sbjct: 14  NGLALAYLGDAVYELYVREYLLLKGKTKPNDLHKRATAYVSAKAQALILKALLE--FLTE 71

Query: 177 EERDVVRWGKNVGSANTRTKRR-AGAAVYNRASSLETLAGYLYLTNA-NRLEDVMSK 231
           EE ++V+ G+N   A + TK +      Y  ++  E L GYLYLT    RLE++++K
Sbjct: 72  EEEEIVKRGRN---AKSGTKPKNTDVETYRMSTGFEALIGYLYLTKQEERLEELLNK 125

Length = 132

>gnl|CDD|216036 pfam00636, Ribonuclease_3, Ribonuclease III domain

 Score = 74.6 bits (184), Expect = 2e-17
 Identities = 32/103 (31%), Positives = 42/103 (40%), Gaps = 16/103 (15%)

Query: 121 SLAYIGDCIYELYARRHFL--FPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEE 178
            L ++GD + ELY   +    FP LS  E +    A+V  E    L +KL  D YL   E
Sbjct: 2   RLEFLGDAVLELYVSEYLYEKFPDLSEGELHRLRSALVSNEALAKLARKLGLDKYLREGE 61

Query: 179 RDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTN 221
            D+V              +RA       A + E L G LYL  
Sbjct: 62  GDIV--------------KRASVKDKVLADAFEALIGALYLDG 90

Length = 91

>gnl|CDD|238333 cd00593, RIBOc, RIBOc

 Score = 58.8 bits (143), Expect = 4e-11
 Identities = 31/128 (24%), Positives = 42/128 (32%), Gaps = 17/128 (13%)

Query: 108 PKVGKPRSVFNAASLAYIGDCIYELYARRHFL--FPPLSIEEYNNRVMAVVRCETQDALL 165
           P        FN   L ++GD + EL    +    FP LS  +      A+V  ET   L 
Sbjct: 10  PSYANEHGRFNNERLEFLGDAVLELVVTEYLFKKFPDLSEGDLTRLRSALVSNETLARLA 69

Query: 166 QKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTN-ANR 224
           ++L    YL        R GK         K          A   E L G +YL      
Sbjct: 70  RELGLGKYL--------RLGKG------EEKSGGRLRPKILADVFEALIGAIYLDGGFEA 115

Query: 225 LEDVMSKL 232
               + +L
Sbjct: 116 ARKFLLRL 123

Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional control of mRNA stability and translational efficiency. It is involved in the processing of ribosomal RNA precursors. Prokaryotic RNAse III also plays a role in the maturation of tRNA precursors and in the processing of phage and plasmid transcripts. Eukaryotic RNase III's participate (through direct cleavage) in rRNA processing, in processing of small nucleolar RNAs (snoRNAs) and snRNA's (components of the spliceosome). In eukaryotes RNase III or RNaseIII like enzymes such as Dicer are involved in RNAi (RNA interference) and miRNA (micro-RNA) gene silencing. Length = 133

>gnl|CDD|197778 smart00535, RIBOc, Ribonuclease III family

 Score = 46.1 bits (110), Expect = 1e-06
 Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 16/100 (16%)

Query: 122 LAYIGDCIYELYARRHFL--FPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEER 179
           L ++GD + EL    +    +P LS  + +    A+V  ET   L +KL    ++     
Sbjct: 22  LEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNETLARLAKKLGLGEFI----- 76

Query: 180 DVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYL 219
              R G+          R     +   A   E L G +YL
Sbjct: 77  ---RLGRG---EAISGGRDKPKIL---ADVFEALIGAIYL 107

Length = 129

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	254
COG1939	132	Ribonuclease III family protein [Replication, reco	100.0
PF00636	114	Ribonuclease_3: Ribonuclease III domain; InterPro:	99.4
cd00593	133	RIBOc RIBOc. Ribonuclease III C terminal domain. T	99.38
smart00535	129	RIBOc Ribonuclease III family.	99.35
PRK00102	229	rnc ribonuclease III; Reviewed	98.91
TIGR02191	220	RNaseIII ribonuclease III, bacterial. This family	98.7
PRK12371	235	ribonuclease III; Reviewed	97.99
PRK14718	467	ribonuclease III; Provisional	97.95
PRK12372	413	ribonuclease III; Reviewed	97.86
PF14622	128	Ribonucleas_3_3: Ribonuclease-III-like; PDB: 1O0W_	97.8
COG0571	235	Rnc dsRNA-specific ribonuclease [Transcription]	97.26
KOG1817	533	consensus Ribonuclease [RNA processing and modific	93.34

>COG1939 Ribonuclease III family protein [Replication, recombination, and repair]

Probab=100.00  E-value=8.3e-48  Score=319.17  Aligned_cols=117  Identities=33%  Similarity=0.635  Sum_probs=110.5

Q ss_pred             CCCCCcChHHHHHHhhHHHHHHHHHHhhCCCC-ChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCC
Q 025342          112 KPRSVFNAASLAYIGDCIYELYARRHFLFPPL-SIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGS  190 (254)
Q Consensus       112 k~~~~~spLaLAYIGDAVYELyVR~~ll~~~~-kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks  190 (254)
                      ++.+++||++|||+||||||+|||.|++.++. ++++||+.|++||+|++||.+|+.|++  +|||+|.+|+|||||+|+
T Consensus         8 ~~~~qln~laLAy~GDAV~e~yVR~~~l~~g~~k~~~lH~~a~~~VsAk~QA~il~~~~~--~Lte~E~~I~KRgRNaks   85 (132)
T COG1939           8 ADAKQLNGLALAYLGDAVYELYVREYLLLKGKTKPNDLHKRATAYVSAKAQALILKALLE--FLTEEEEEIVKRGRNAKS   85 (132)
T ss_pred             cCHHhcCHHHHHHhhhHHHHHHHHHHHHhcccCChHHHHHHHHHHhhHHHHHHHHHHHHH--HhhHHHHHHHHHhccccc
Confidence            35568999999999999999999999999886 799999999999999999999999996  999999999999999999


Q ss_pred             CCCCCCCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342          191 ANTRTKRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL  232 (254)
Q Consensus       191 ~~t~~pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l  232 (254)
                      ++  .|||+++.+||.|||||||||||||++ .|||+||++++
T Consensus        86 ~T--~~kn~dv~tYr~sTgfEAliGyLyL~~~~eRL~ell~~~  126 (132)
T COG1939          86 GT--KPKNTDVETYRMSTGFEALIGYLYLTKQEERLEELLNKV  126 (132)
T ss_pred             CC--CCCCCChHHHHHhhhHHHHHHHHHHcccHHHHHHHHHHH
Confidence            86  689999999999999999999999998 78999999874

>PF00636 Ribonuclease_3: Ribonuclease III domain; InterPro: IPR000999 Prokaryotic ribonuclease III (3

Probab=99.40  E-value=1.9e-12  Score=99.94  Aligned_cols=98  Identities=23%  Similarity=0.302  Sum_probs=81.5

Q ss_pred             HHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcC-----------
Q 025342          121 SLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKN-----------  187 (254)
Q Consensus       121 aLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRN-----------  187 (254)
                      -|+||||||++++|+.+++.  +..+...||.....+|+.+.++.+..++-=..+|..++.++.++++|           
T Consensus         2 rLefLGDavL~~~v~~~l~~~~p~~~~~~L~~~r~~~vsn~~L~~~a~~~gl~~~l~~~~~~~~~~~~~~~~~~~~~~~~   81 (114)
T PF00636_consen    2 RLEFLGDAVLKLLVSEYLFEKYPNLNEGQLTKLRSALVSNKFLARLAVKLGLHKYLRQEPFEIQRWIKPFNEDLNNGDSE   81 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTTSSHHHHHHHHHHHHSHHHHHHHHHHTTHGCTCBHHHHHHHHHHHCHHCC-------
T ss_pred             cHhHhHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHhCHHHHHHHHHHhCchHhhhccchhHHHHHHHHHHHHHhcccc
Confidence            48999999999999999995  45689999999999999999999988844346999999999999988           


Q ss_pred             CCCCCCCCCCCCChhHHhhhhhHHHHHHHHhcC
Q 025342          188 VGSANTRTKRRAGAAVYNRASSLETLAGYLYLT  220 (254)
Q Consensus       188 aks~~t~~pKna~v~~YR~ATGFEALIGYLYLt  220 (254)
                      ....  ..+++.....+..|+.||||||.+||.
T Consensus        82 ~~~~--~~~~~~~~~~k~laD~~EAliGAiyld  112 (114)
T PF00636_consen   82 SSIS--YDPKNQVLPPKVLADVFEALIGAIYLD  112 (114)
T ss_dssp             C-SS--S--SSSSHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccC--CCccccCCccHHHHHHHHHHHHHHHHh
Confidence            1111  123467788999999999999999985

1.26.3 from EC) (gene rnc) [] is an enzyme that digests double-stranded RNA. It is involved in the processing of ribosomal RNA precursors and of some mRNAs. RNase III is evolutionary related to a number of proteins including []: Saccharomyces cerevisiae (Baker's yeast) protein pac1, a ribonuclease that probably inhibits mating and meiosis by degrading a specific mRNA required for sexual development yeast ribonuclease III (gene RNT1), a dsRNA-specific nuclease that cleaves eukaryotic preribosomal RNA at various sites Caenorhabditis elegans hypothetical protein F26E4.13 Paramecium bursaria Chlorella virus 1 (PBCV-1) 1 protein A464R Synechocystis sp. (strain PCC 6803) hypothetical protein slr0346 yeast hypothetical protein SpAC8A4.08c, a protein with a N-terminal helicase domain and a C-terminal RNase III domain C. elegans hypothetical protein K12H4.8, a protein with the same structure as SpAC8A4.08c ; GO: 0003723 RNA binding, 0004525 ribonuclease III activity, 0006396 RNA processing; PDB: 2GSL_A 2NUE_B 1YYO_A 2NUF_A 1YZ9_A 1JFZ_A 1YYW_C 1RC5_B 1YYK_B 1RC7_A ....

>cd00593 RIBOc RIBOc

Probab=99.38  E-value=1.9e-12  Score=101.06  Aligned_cols=103  Identities=26%  Similarity=0.308  Sum_probs=85.7

Q ss_pred             CcChHHHHHHhhHHHHHHHHHHhhCCC--CChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCC
Q 025342          116 VFNAASLAYIGDCIYELYARRHFLFPP--LSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANT  193 (254)
Q Consensus       116 ~~spLaLAYIGDAVYELyVR~~ll~~~--~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t  193 (254)
                      ..+--.|+|+||+|++++|+.+++...  .+.+.+|.....+|+.+.++.+...+-    |-    +.++++++..    
T Consensus        18 ~~~~e~Le~lGdavl~~~~~~~l~~~~~~~~~~~l~~~~~~~v~n~~l~~~a~~~g----l~----~~i~~~~~~~----   85 (133)
T cd00593          18 RFNNERLEFLGDAVLELVVTEYLFKKFPDLSEGDLTRLRSALVSNETLARLARELG----LG----KYLRLGKGEE----   85 (133)
T ss_pred             CcchHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHCHHHHHHHHHHcC----cH----HHhccCchHh----
Confidence            367889999999999999999999653  578899999999999999999988873    22    5677776652    


Q ss_pred             CCCCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342          194 RTKRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL  232 (254)
Q Consensus       194 ~~pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l  232 (254)
                        .++.....+..|++||||||++||.+ .++..++|..+
T Consensus        86 --~~~~~~~~k~~ad~~eAliGAiyld~g~~~~~~~i~~~  123 (133)
T cd00593          86 --KSGGRLRPKILADVFEALIGAIYLDGGFEAARKFLLRL  123 (133)
T ss_pred             --hcCCcccccHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence              23456788899999999999999996 78999998874

Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional control of mRNA stability and translational efficiency. It is involved in the processing of ribosomal RNA precursors. Prokaryotic RNAse III also plays a role in the maturation of tRNA precursors and in the processing of phage and plasmid transcripts. Eukaryotic RNase III's participate (through direct cleavage) in rRNA processing, in processing of small nucleolar RNAs (snoRNAs) and snRNA's (components of the spliceosome). In eukaryotes RNase III or RNaseIII like enzymes such as Dicer are involved in RNAi (RNA interference) and miRNA (micro-RNA) gene silencing.

>smart00535 RIBOc Ribonuclease III family

Probab=99.35  E-value=3.3e-12  Score=100.04  Aligned_cols=101  Identities=24%  Similarity=0.317  Sum_probs=82.0

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhCC--CCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342          118 NAASLAYIGDCIYELYARRHFLFP--PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT  195 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~~--~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~  195 (254)
                      +-..|+||||+|++++|+.+++..  ....+.+|.....+|+.+.++.+..++-    |.    +.++++++...     
T Consensus        18 ~~e~Le~lGd~vl~~~v~~~l~~~~p~~~~~~l~~~~~~lvsn~~la~~a~~~~----l~----~~i~~~~~~~~-----   84 (129)
T smart00535       18 HNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNETLARLAKKLG----LG----EFIRLGRGEAI-----   84 (129)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHCHHHHHHHHHHCC----cH----HHHccCchHhh-----
Confidence            567899999999999999999964  3467889999999999999999988873    22    56777776532     


Q ss_pred             CCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342          196 KRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL  232 (254)
Q Consensus       196 pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l  232 (254)
                       ++.....+..|++|||+||++|+.+ .++..+++..+
T Consensus        85 -~~~~~~~k~~a~~~eAliGAi~ld~g~~~~~~~i~~~  121 (129)
T smart00535       85 -SGGRDKPSILADVFEALIGAIYLDSGLEAAREFIRDL  121 (129)
T ss_pred             -cCCcccchHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence             2234678899999999999999995 78888887653

>PRK00102 rnc ribonuclease III; Reviewed

Probab=98.91  E-value=4.7e-09  Score=90.33  Aligned_cols=100  Identities=24%  Similarity=0.384  Sum_probs=75.4

Q ss_pred             hHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCC
Q 025342          119 AASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTK  196 (254)
Q Consensus       119 pLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~p  196 (254)
                      =-.|+||||+|++++|..+++.  +..+...++.....+|+.+.++.+...+-    |.    +.+++|++.....  .+
T Consensus        41 nerLefLGDavl~~~v~~~l~~~~p~~~~g~l~~~~~~lvsn~~la~~a~~lg----l~----~~i~~~~~~~~~~--~~  110 (229)
T PRK00102         41 NERLEFLGDAVLELVVSEYLFKRFPDLDEGDLSKLRAALVREESLAEIARELG----LG----EYLLLGKGEEKSG--GR  110 (229)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHhCHHHHHHHHHHCC----cH----HHHccCcHHHHcC--CC
Confidence            3789999999999999999984  34578889999999999999999988872    32    4566666431110  11


Q ss_pred             CCCChhHHhhhhhHHHHHHHHhcC-ChhHHHHHHHHh
Q 025342          197 RRAGAAVYNRASSLETLAGYLYLT-NANRLEDVMSKL  232 (254)
Q Consensus       197 Kna~v~~YR~ATGFEALIGYLYLt-~~eRL~EL~~~l  232 (254)
                      ++..    -.|+.|||+||.+|+. |.++..+++..+
T Consensus       111 ~~~k----~~ad~~EA~iGAiyld~g~~~~~~~i~~~  143 (229)
T PRK00102        111 RRPS----ILADAFEALIGAIYLDQGLEAARKFILRL  143 (229)
T ss_pred             CCcc----HHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            1111    2699999999999999 478888887655

>TIGR02191 RNaseIII ribonuclease III, bacterial

Probab=98.70  E-value=7e-08  Score=82.28  Aligned_cols=101  Identities=26%  Similarity=0.336  Sum_probs=75.2

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342          118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT  195 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~  195 (254)
                      +=-.|+||||+|.+++|..+++.  +..+...++.....+|+.+.++.+...+-    |    .+.++++++.....  .
T Consensus        34 ~nerLe~lGd~vl~~~~~~~l~~~~p~~~~~~l~~~~~~lvsn~~la~~a~~~g----l----~~~i~~~~~~~~~~--~  103 (220)
T TIGR02191        34 NNERLEFLGDAVLGLVVAEYLFKNFPDLSEGELSKLRAALVSEESLAEVARELG----L----GKFLLLGKGEEKSG--G  103 (220)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCHHHHHHHHHHCC----c----HHHhccCchHhhcC--C
Confidence            55689999999999999999996  34678889999999999999999988772    3    23455554321100  0


Q ss_pred             CCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342          196 KRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL  232 (254)
Q Consensus       196 pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l  232 (254)
                       ++   ..--.|+.|||+||.+|+.+ .+++.+++..+
T Consensus       104 -~~---~~k~~ad~~eAliGAiyld~g~~~~~~~i~~~  137 (220)
T TIGR02191       104 -RR---RESILADAFEALIGAIYLDSGLEAARKFILKL  137 (220)
T ss_pred             -cc---cchHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence             00   01246999999999999995 78888887765

This family consists of bacterial examples of ribonuclease III. This enzyme cleaves double-stranded rRNA. It is involved in processing ribosomal RNA precursors. It is found even in minimal genones such as Mycoplasma genitalium and Buchnera aphidicola, and in some cases has been shown to be an essential gene. These bacterial proteins contain a double-stranded RNA binding motif (pfam00035) and a ribonuclease III domain (pfam00636). Eukaryotic homologs tend to be much longer proteins with additional domains, localized to the nucleus, and not included in this family.

>PRK12371 ribonuclease III; Reviewed

Probab=97.99  E-value=4.7e-05  Score=68.15  Aligned_cols=98  Identities=26%  Similarity=0.339  Sum_probs=67.6

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhCC--CCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342          118 NAASLAYIGDCIYELYARRHFLFP--PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT  195 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~~--~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~  195 (254)
                      |=--|+|+||||.++.|=.+++..  ..+..+|++.-..+|+.+.-+.+...+-    |    .+.++.|.+.....  .
T Consensus        45 ~~eRLEFLGDavL~l~vs~~Lf~~~p~~~eG~Lt~~rs~lV~n~~La~ia~~lg----L----~~~i~~~~~~~~~~--~  114 (235)
T PRK12371         45 NYERLEFLGDRVLGLCVAEMLFEAFPDASEGELSVRLNQLVNAETCAAIADEIG----L----HDLIRTGSDVKKLT--G  114 (235)
T ss_pred             chHhHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhChHHHHHHHHHCC----c----HHHhccCcchhhcC--C
Confidence            446799999999999999998853  4578889888888999998888877762    3    23445554432211  1


Q ss_pred             CCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHH
Q 025342          196 KRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVM  229 (254)
Q Consensus       196 pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~  229 (254)
                      .++.    --.|+.||||||-+||.+ .+=..+++
T Consensus       115 ~~~~----~ilad~~EAliGAiylD~G~~~a~~~i  145 (235)
T PRK12371        115 KRLL----NVRADVVEALIAAIYLDGGLEAARPFI  145 (235)
T ss_pred             cccc----hHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            1221    234999999999999994 44333333

>PRK14718 ribonuclease III; Provisional

Probab=97.95  E-value=4.8e-05  Score=75.03  Aligned_cols=100  Identities=18%  Similarity=0.248  Sum_probs=72.2

Q ss_pred             hHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCC
Q 025342          119 AASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTK  196 (254)
Q Consensus       119 pLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~p  196 (254)
                      =--|.||||+|.+++|=.+|+.  +..+...|.+.-..+|+-+.-+.+-+.|-    |.    +.++.|++.....  ..
T Consensus        34 NERLEFLGDAVL~liVse~Lf~~fPdl~EGeLT~LRS~LVSnetLA~IAr~LG----L~----d~Lrlg~gE~~sg--G~  103 (467)
T PRK14718         34 NERLEFLGDSVLNCAVAALLFQRFGKLDEGDLSRVRANLVKQQSLYEIAQALN----IS----DGLRLGEGELRSG--GF  103 (467)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHhhhHHHHHHHHHcC----ch----HHHhhCCcccccC--CC
Confidence            3679999999999999999984  34578889988888999998888877762    33    2455554331100  01


Q ss_pred             CCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342          197 RRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL  232 (254)
Q Consensus       197 Kna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l  232 (254)
                      +    ..--.|..||||||-+||.. .+..+++|..+
T Consensus       104 ~----~~sILADvFEALIGAIYLDsG~e~a~~fI~~l  136 (467)
T PRK14718        104 R----RPSILADAFEAIIGAVFLDGGFEAAQGVIKRL  136 (467)
T ss_pred             C----ChhHHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            1    12237999999999999994 78887776654

>PRK12372 ribonuclease III; Reviewed

Probab=97.86  E-value=8.7e-05  Score=72.36  Aligned_cols=99  Identities=17%  Similarity=0.245  Sum_probs=71.0

Q ss_pred             HHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCC
Q 025342          120 ASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKR  197 (254)
Q Consensus       120 LaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pK  197 (254)
                      --|.||||+|.+++|=.+|+.  +..+..+|++.-..+|+.+.-+.+-..|-    |.    +.++-|+......  ...
T Consensus        35 ERLEFLGDAVL~liVse~Lf~~fP~~~EG~LT~lRS~LVsn~tLA~IA~~Lg----L~----~~Lrlg~ge~~sg--g~~  104 (413)
T PRK12372         35 ERLEFLGDSVLNCAVAALLFQRFGKLDEGDLSRVRANLVKQQSLYEIAQALN----IS----EGLRLGEGELRSG--GFR  104 (413)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhhHHHHHHHHHcC----ch----HhhhcCcchhhcC--CCC
Confidence            679999999999999999884  34578889988888999998888877762    32    2344444221100  001


Q ss_pred             CCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342          198 RAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL  232 (254)
Q Consensus       198 na~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l  232 (254)
                          ..--.|..||||||-+||.+ .++..+++..+
T Consensus       105 ----~~kILADvfEALIGAIYLDsG~e~a~~fV~~l  136 (413)
T PRK12372        105 ----RPSILADAFEAIIGAVFLDGGFEAAQGVIKRL  136 (413)
T ss_pred             ----CccHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence                11237999999999999995 88887776655

>PF14622 Ribonucleas_3_3: Ribonuclease-III-like; PDB: 1O0W_A 2A11_A 3N3W_B

Probab=97.80  E-value=9e-05  Score=59.79  Aligned_cols=99  Identities=22%  Similarity=0.350  Sum_probs=65.2

Q ss_pred             HHHHHHhhHHHHHHHHHHhhCCC-CChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCC
Q 025342          120 ASLAYIGDCIYELYARRHFLFPP-LSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRR  198 (254)
Q Consensus       120 LaLAYIGDAVYELyVR~~ll~~~-~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKn  198 (254)
                      --|+||||+|.+++|-.+++..+ .....+.+....+|+-+.-+.+.+.+-    |.    .++++|.+...      ..
T Consensus        23 erLefLGd~vL~~~vs~~l~~~~~~~~g~l~~~~~~lv~~~~La~~a~~lg----L~----~~i~~~~~~~~------~~   88 (128)
T PF14622_consen   23 ERLEFLGDAVLGLVVSEYLFQRPPADEGELTRLRSNLVSNETLAEIAKQLG----LD----KLIRWGPGEEK------SG   88 (128)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHSHHHHHHHHHHTT----CG----GC-B--HHHHH------TT
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCcCccchHHHHHHHHHhChHHHHHHHHHCC----HH----HHHHhCccHhh------cC
Confidence            45999999999999999998643 344556666667888888888877763    32    23444321100      00


Q ss_pred             CChhHHhhhhhHHHHHHHHhcC-ChhHHHHHHHHh
Q 025342          199 AGAAVYNRASSLETLAGYLYLT-NANRLEDVMSKL  232 (254)
Q Consensus       199 a~v~~YR~ATGFEALIGYLYLt-~~eRL~EL~~~l  232 (254)
                      .....--.|..||||||-+||. |.+..++++.+.
T Consensus        89 ~~~~~~vlad~feAliGAiyld~G~~~a~~~i~~~  123 (128)
T PF14622_consen   89 GSGSDKVLADVFEALIGAIYLDSGFEAARKFIQKL  123 (128)
T ss_dssp             GGG-HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
T ss_pred             CCCCccHHHhHHHHHHHHHHHHcCHHHHHHHHHHH
Confidence            1112224799999999999999 588888877664

>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]

Probab=97.26  E-value=0.00087  Score=60.81  Aligned_cols=101  Identities=26%  Similarity=0.360  Sum_probs=67.6

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342          118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT  195 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~  195 (254)
                      |=--|=||||||-++.|=++|..  +..+-.+|++.-..+|+.++=+.+-+.|-    |.+    .++-|+-....  ..
T Consensus        43 ~nERLEFLGDavL~l~vae~Lf~~yP~~~EG~Ls~~ra~lV~~~~La~ia~~l~----l~~----~l~lg~ge~~~--gg  112 (235)
T COG0571          43 NNERLEFLGDAVLGLVVAEYLFKKYPNLPEGELSKLRAALVSEESLAEIARELG----LGD----YLRLGKGEEKS--GG  112 (235)
T ss_pred             chHHHHhhHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHhC----ccc----hhhccCChhhc--CC
Confidence            44568899999999999999984  45678889999999999988777766652    221    22233222110  01


Q ss_pred             CCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342          196 KRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL  232 (254)
Q Consensus       196 pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l  232 (254)
                      .++    +=-.|.+||||||-+||.. .+-.++++..+
T Consensus       113 ~~~----~silaD~~EAligAiylD~g~~~~~~~i~~l  146 (235)
T COG0571         113 RRR----ESILADAFEALIGAIYLDSGLEAARKFILKL  146 (235)
T ss_pred             CCc----hhHHHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            121    2235899999999999994 55555544443

>KOG1817 consensus Ribonuclease [RNA processing and modification]

Probab=93.34  E-value=0.54  Score=47.38  Aligned_cols=100  Identities=20%  Similarity=0.223  Sum_probs=65.6

Q ss_pred             HHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCCC
Q 025342          121 SLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKRR  198 (254)
Q Consensus       121 aLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pKn  198 (254)
                      -|-|+||+|+.|.+-.++..  +...-..|-..-..+|+-+.|+++-..+    -++|-  .|.    |-..     .+-
T Consensus       313 RLEFLGDSilqlv~T~ily~kFPdhhEGhLSlLRssLVsNetqakva~~l----gf~e~--li~----n~~~-----k~~  377 (533)
T KOG1817|consen  313 RLEFLGDSILQLVMTEILYRKFPDHHEGHLSLLRSSLVSNETQAKVADDL----GFHEY--LIT----NFDL-----KDF  377 (533)
T ss_pred             HHHHhHHHHHHHHHHHHHHHhCCccccchHHHHHHHHhccHHHHHHHHHh----CCchh--hhh----Ccch-----hhh
Confidence            47799999999999988873  3334455556667799999999886655    23332  221    2110     011


Q ss_pred             CChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHhCCC
Q 025342          199 AGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKLGFT  235 (254)
Q Consensus       199 a~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~lg~s  235 (254)
                      .....==+|.-|||.||-||+.+ .+-+.+.+..|-+.
T Consensus       378 ~~lk~K~~ADlfEAfiGaLyvD~~le~~~qf~~~l~~P  415 (533)
T KOG1817|consen  378 QNLKLKDYADLFEAFIGALYVDKGLEYCRQFLRVLFFP  415 (533)
T ss_pred             hhhhHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhhH
Confidence            11222235889999999999996 67777777666543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	254
1u61_A	138	Crystal Structure Of Putative Ribonuclease Iii From		2e-07
2gsl_A	137	X-Ray Crystal Structure Of Protein Fn1578 From Fuso		1e-05

>pdb|1U61|A Chain A, Crystal Structure Of Putative Ribonuclease Iii From Bacillus Cereus Length = 138

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/117 (29%), Positives = 58/117 (49%), Gaps = 4/117 (3%)
Query: 117 FNAASLAYIGDCIYELYARRHFLFP-PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLS 175
            N+ +LAY GD +YE Y R H L    +   + +    + V  + Q  ++  LL  ++L+
Sbjct: 10  LNSLALAYXGDAVYEQYIRYHLLQKGKVRPNQLHRLGTSFVSAKAQAKVVYHLLETAFLT 69
Query: 176 AEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLY-LTNANRLEDVMSK 231
            EE  V+R G+N  S      +      Y  +++ E L GY + L N  RL++++ K
Sbjct: 70  EEEEAVLRRGRNANSGT--VPKNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYK 124

>pdb|2GSL|A Chain A, X-Ray Crystal Structure Of Protein Fn1578 From Fusobacterium Nucleatum. Northeast Structural Genomics Consortium Target Nr1. Length = 137

Iteration: 1
 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 54/104 (51%), Gaps = 6/104 (5%)
Query: 117 FNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSA 176
           ++   LA++GD I+EL  R+++L    +I   N  V A V  + Q  + +K++ND     
Sbjct: 13  YSGLELAFLGDAIWELEIRKYYLQFGYNIPTLNKYVKAKVNAKYQSLIYKKIIND---LD 69
Query: 177 EERDVVRWGKNVGSANTRT-KRRAGAAVYNRASSLETLAGYLYL 219
           EE  V+  GK   ++N +T  R      Y  A++LE + G  YL
Sbjct: 70  EEFKVI--GKRAKNSNIKTFPRSCTVXEYKEATALEAIIGAXYL 111

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	254
2gsl_A	137	Hypothetical protein; alpha-helical protein, struc	9e-37
1u61_A	138	Hypothetical protein; structural genomics, PSI, pr	2e-34
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04

>2gsl_A Hypothetical protein; alpha-helical protein, structural genomics, PSI, protein STR initiative; 2.60A {Fusobacterium nucleatum subsp} Length = 137

 Score =  125 bits (316), Expect = 9e-37
 Identities = 31/128 (24%), Positives = 58/128 (45%), Gaps = 6/128 (4%)

Query: 106 NPPKVGKPRSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALL 165
           N       R  ++   LA++GD I+EL  R+++L    +I   N  V A V  + Q  + 
Sbjct: 3   NVDFSKDIRD-YSGLELAFLGDAIWELEIRKYYLQFGYNIPTLNKYVKAKVNAKYQSLIY 61

Query: 166 QKLLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLTN-ANR 224
           +K++N   L  E + + +  KN         R      Y  A++LE + G +YL      
Sbjct: 62  KKIIN--DLDEEFKVIGKRAKNSNIK--TFPRSCTVMEYKEATALEAIIGAMYLLKKEEE 117

Query: 225 LEDVMSKL 232
           ++ +++ +
Sbjct: 118 IKKIINIV 125

>1u61_A Hypothetical protein; structural genomics, PSI, protein STRU initiative, midwest center for structural genomics, MCSG, U function; 2.15A {Bacillus cereus} SCOP: a.149.1.1 Length = 138

 Score =  120 bits (301), Expect = 2e-34
 Identities = 34/117 (29%), Positives = 59/117 (50%), Gaps = 4/117 (3%)

Query: 117 FNAASLAYIGDCIYELYARRHFLFP-PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLS 175
            N+ +LAY+GD +YE Y R H L    +   + +    + V  + Q  ++  LL  ++L+
Sbjct: 10  LNSLALAYMGDAVYEQYIRYHLLQKGKVRPNQLHRLGTSFVSAKAQAKVVYHLLETAFLT 69

Query: 176 AEERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLT-NANRLEDVMSK 231
            EE  V+R G+N  S      +      Y  +++ E L GY +L  N  RL++++ K
Sbjct: 70  EEEEAVLRRGRNANSGTVP--KNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYK 124

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.0 bits (95), Expect = 3e-04
 Identities = 49/328 (14%), Positives = 90/328 (27%), Gaps = 107/328 (32%)

Query: 1   MPVTTCTSSLYLPLSLSSSRVRASFDTQQRLSYNPNAPRKI---KKPPLNLNTNSNSNKS 57
           + +  C S   +   L     +   +   R  ++ N   +I   +     L  +      
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246

Query: 58  -----DV---AIAKP--PTSTVTPTSTDQSVFDLLKHPTQGVVANLDESYMGYE------ 101
                +V           +  +  T+  + V D L   T   ++ LD   M         
Sbjct: 247 LLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS-LDHHSMTLTPDEVKS 305

Query: 102 ---RW-------LPNPPKVGKPR--SVFNAASL-------------------AYIGDCIY 130
              ++       LP       PR  S+  A S+                     I   + 
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSII-AESIRDGLATWDNWKHVNCDKLTTIIESSLN 364

Query: 131 ELYA---RRHF----LFPP--------LSI-----EEYNNRVMAVVRCETQDALLQK--- 167
            L     R+ F    +FPP        LS+      + +  V+ V +     +L++K   
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV-VNKLHKY-SLVEKQPK 422

Query: 168 ----LLNDSYLSAEERDVVRWGKNVGSANTRTKRRAGAAVYN--RASSLETLA-----GY 216
                +   YL  + +            N     R+    YN  +    + L       Y
Sbjct: 423 ESTISIPSIYLELKVK----------LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472

Query: 217 LY------LTNANRLE--DVMSKLGFTN 236
            Y      L N    E   +   + F +
Sbjct: 473 FYSHIGHHLKNIEHPERMTLFRMV-FLD 499

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	254
2gsl_A	137	Hypothetical protein; alpha-helical protein, struc	100.0
1u61_A	138	Hypothetical protein; structural genomics, PSI, pr	100.0
1o0w_A	252	Ribonuclease III, RNAse III; TM1102, structural ge	99.28
2nug_A	221	Ribonuclease III, RNAse III; dsRNA, RNA interferen	99.26
2a11_A	242	Ribonuclease III, RNAse III; nuclease domain, stru	99.24
3o2r_A	170	Ribonuclease III; structural genomics, center for	99.16
3n3w_A	248	Ribonuclease III; nuclease domain, ribonuclase III	99.06
3c4b_A	265	Endoribonuclease dicer; RNAse, dsRNA binding prote	99.04
3rv1_A	246	K. polysporus DCR1; RNAse III enzyme, RNA binding	97.83
3rv0_A	341	K. polysporus DCR1; RNAse III enzyme, RNA binding	97.72
2qvw_A	756	GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral	96.98
2qvw_A	756	GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral	96.31

>2gsl_A Hypothetical protein; alpha-helical protein, structural genomics, PSI, protein STR initiative; 2.60A {Fusobacterium nucleatum subsp}

Probab=100.00  E-value=5.6e-39  Score=265.56  Aligned_cols=117  Identities=24%  Similarity=0.370  Sum_probs=106.6

Q ss_pred             CCCCcChHHHHHHhhHHHHHHHHHHhhCCCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCC
Q 025342          113 PRSVFNAASLAYIGDCIYELYARRHFLFPPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSAN  192 (254)
Q Consensus       113 ~~~~~spLaLAYIGDAVYELyVR~~ll~~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~  192 (254)
                      +.+++||+.|||||||||||+||++|+.++.++++||+.++++|+|++||.+++.|.  ++|||+|.+++|||||+++++
T Consensus         9 ~~~~~~~~~LefLGDAVleL~vr~~L~~~~~~~g~L~k~~~~~V~a~aqa~~~~~l~--~~Lte~E~~~~rrGrna~~~~   86 (137)
T 2gsl_A            9 DIRDYSGLELAFLGDAIWELEIRKYYLQFGYNIPTLNKYVKAKVNAKYQSLIYKKII--NDLDEEFKVIGKRAKNSNIKT   86 (137)
T ss_dssp             TTTSCCHHHHHHHHHHHHHHHHHHHHTTSCBCHHHHHHHHHHHHSHHHHHHHHHHHG--GGSCHHHHHHHHHHHC--CCS
T ss_pred             ChhhcCHHHHHHhhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHhCHHHHHHHHHHHH--HHhCHHHHHHHHhcccccCCC
Confidence            346899999999999999999999999866599999999999999999999999994  589999999999999999864


Q ss_pred             CCCCCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHhC
Q 025342          193 TRTKRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKLG  233 (254)
Q Consensus       193 t~~pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~lg  233 (254)
                        .|||+++.+||.|||||||||||||.+ .+|+++++..+.
T Consensus        87 --~~k~~si~~Y~~At~fEALiGaLYLd~~~erl~~ll~~~~  126 (137)
T 2gsl_A           87 --FPRSCTVMEYKEATALEAIIGAMYLLKKEEEIKKIINIVI  126 (137)
T ss_dssp             --CCSSSCHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             --CCCCCChHHHHHhhHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence              689999999999999999999999996 799999998754

>1u61_A Hypothetical protein; structural genomics, PSI, protein STRU initiative, midwest center for structural genomics, MCSG, U function; 2.15A {Bacillus cereus} SCOP: a.149.1.1

Probab=100.00  E-value=4.6e-37  Score=254.19  Aligned_cols=118  Identities=29%  Similarity=0.522  Sum_probs=108.9

Q ss_pred             CCCCcChHHHHHHhhHHHHHHHHHHhhCCC-CChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCC
Q 025342          113 PRSVFNAASLAYIGDCIYELYARRHFLFPP-LSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSA  191 (254)
Q Consensus       113 ~~~~~spLaLAYIGDAVYELyVR~~ll~~~-~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~  191 (254)
                      +.+++||+.|||||||||||+||+||+..+ .+.++||+.+.++|+|++||.+++.|++++.|+|||.+++|||||+++.
T Consensus         6 ~~~~~~~erLefLGDAVlel~vr~~L~~~~~~~eg~L~k~r~~~V~a~aqa~~~~~l~~~~~L~eeE~~~~r~Grn~~~~   85 (138)
T 1u61_A            6 DAKQLNSLALAYMGDAVYEQYIRYHLLQKGKVRPNQLHRLGTSFVSAKAQAKVVYHLLETAFLTEEEEAVLRRGRNANSG   85 (138)
T ss_dssp             CTTTSCHHHHHHHHHHHHHHHHHHHHHHHCCSCGGGHHHHHHHHHSHHHHHHHHHHHHHTTCSCHHHHHHHHHHTCCCSS
T ss_pred             chhhcCHHHHHHhhHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHcCHHHHHHHHHHhhcccCCChHHHHHhhcCCCcccC
Confidence            346899999999999999999999999754 6899999999999999999999999977789999999999999999875


Q ss_pred             CCCCCCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342          192 NTRTKRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL  232 (254)
Q Consensus       192 ~t~~pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l  232 (254)
                      +  .+||+++.+||.|||||||||||||.+ .+|+++++..+
T Consensus        86 ~--~~k~~si~~Yr~A~~fEALiGalYLd~g~er~~~~i~~~  125 (138)
T 1u61_A           86 T--VPKNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYKA  125 (138)
T ss_dssp             C--CCTTCCHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             C--CCCCCchhhhhhhhHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            3  589999999999999999999999996 79999999764

>1o0w_A Ribonuclease III, RNAse III; TM1102, structural genomics, JCSG, PSI, protein structure initiative, joint center for structural genomics; 2.00A {Thermotoga maritima} SCOP: a.149.1.1 d.50.1.1

Probab=99.28  E-value=3.9e-12  Score=111.21  Aligned_cols=100  Identities=17%  Similarity=0.270  Sum_probs=77.4

Q ss_pred             cChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCC--CCHHHHHHHHhhcCCCCCC
Q 025342          117 FNAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSY--LSAEERDVVRWGKNVGSAN  192 (254)
Q Consensus       117 ~spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~--LTEEE~~IvRRGRNaks~~  192 (254)
                      .+...|+||||||++++|+.+|+.  +..+...|++....+|++++++.+...|--+++  +...|.  ...||      
T Consensus        60 ~~nerLefLGDavL~l~v~~~L~~~~p~~~eg~Ls~~r~~lV~~~~la~~a~~lgL~~~l~~~~~e~--~~~~~------  131 (252)
T 1o0w_A           60 ESNEKLEFLGDAVLELFVCEILYKKYPEAEVGDLARVKSAAASEEVLAMVSRKMNLGKFLFLGKGEE--KTGGR------  131 (252)
T ss_dssp             CCSHHHHHHHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHTSHHHHHHHHHHTTHHHHCBCCHHHH--HTTGG------
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCHHHHHHHHHHcCcHHhhccCchhh--hcCCC------
Confidence            367999999999999999999984  456889999999999999999999887632112  223332  11111      


Q ss_pred             CCCCCCCChhHHhhhhhHHHHHHHHhcC-ChhHHHHHHHHh
Q 025342          193 TRTKRRAGAAVYNRASSLETLAGYLYLT-NANRLEDVMSKL  232 (254)
Q Consensus       193 t~~pKna~v~~YR~ATGFEALIGYLYLt-~~eRL~EL~~~l  232 (254)
                              ..++..|++||||||++||. |.+++.+++..+
T Consensus       132 --------~~~~~lad~~EAliGAiyld~g~~~~~~~i~~~  164 (252)
T 1o0w_A          132 --------DRDSILADAFEALLAAIYLDQGYEKIKELFEQE  164 (252)
T ss_dssp             --------GCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             --------CCccHHHhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                    24789999999999999999 588888877654

>2nug_A Ribonuclease III, RNAse III; dsRNA, RNA interference, endonucleolytic cleavage, hydrolase/RNA complex; 1.70A {Aquifex aeolicus} SCOP: a.149.1.1 d.50.1.1 PDB: 1yyw_A 2nue_A 2nuf_A 1yyk_A 1yz9_A 1yyo_A 2ez6_A 1rc7_A 1i4s_A 1jfz_A 1rc5_A

Probab=99.26  E-value=9.8e-12  Score=106.20  Aligned_cols=95  Identities=16%  Similarity=0.184  Sum_probs=78.5

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342          118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT  195 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~  195 (254)
                      +-.-|+||||||++++|+.+++.  +..+.+.||+....+|++++++.+...+--.        +.+++|++..      
T Consensus        35 ~nerLefLGDavL~~~v~~~L~~~~p~~~~g~Ls~~r~~lV~~~~la~~a~~l~l~--------~~l~~~~~~~------  100 (221)
T 2nug_A           35 HYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELH--------KFIRIKRGKI------  100 (221)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHTCTTCCHHHHHHHHHHHTSHHHHHHHHHTTTGG--------GTCBSCTTCC------
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHCHHHHHHHHHHcChH--------HhhccCCCcc------
Confidence            56899999999999999999985  3468899999999999999999999887322        3457887752      


Q ss_pred             CCCCChhHHhhhhhHHHHHHHHhcC-ChhH--HHHHHHHh
Q 025342          196 KRRAGAAVYNRASSLETLAGYLYLT-NANR--LEDVMSKL  232 (254)
Q Consensus       196 pKna~v~~YR~ATGFEALIGYLYLt-~~eR--L~EL~~~l  232 (254)
                       +     .+..|++||||||++||. |.++  +.+++..+
T Consensus       101 -~-----~~~lad~~EAliGAiyld~g~~~~~~~~~i~~~  134 (221)
T 2nug_A          101 -N-----ETIIGDVFEALWAAVYIDSGRDANFTRELFYKL  134 (221)
T ss_dssp             -C-----HHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             -c-----chHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence             1     889999999999999999 4788  77766554

>2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomic protein structure initiative; 2.10A {Mycobacterium tuberculosis}

Probab=99.24  E-value=1.3e-11  Score=106.74  Aligned_cols=100  Identities=20%  Similarity=0.282  Sum_probs=77.8

Q ss_pred             cChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHh---hcCCC--CCHHHHHHHHhhcCCC
Q 025342          117 FNAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKL---LNDSY--LSAEERDVVRWGKNVG  189 (254)
Q Consensus       117 ~spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~L---l~e~~--LTEEE~~IvRRGRNak  189 (254)
                      .+-..|+||||||++++|+.+++.  +..+...||+....+|++++++.+...+   --.++  +...|..  ..||   
T Consensus        40 ~~nerLefLGDavL~~~v~~~L~~~~p~~~~g~Ls~~r~~lV~~~~la~~a~~l~~~gL~~~l~~~~~e~~--~~~~---  114 (242)
T 2a11_A           40 PTNERLEFLGDAVLGLTITDALFHRHPDRSEGDLAKLRASVVNTQALADVARRLCAEGLGVHVLLGRGEAN--TGGA---  114 (242)
T ss_dssp             CCTHHHHHHHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHSHHHHHHHHHHHSSSCSGGGCBCCHHHHH--TTGG---
T ss_pred             CccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCHHHHHHHHHHhhhhChHHHhhcCchhhh--cCCC---
Confidence            466899999999999999999984  4568999999999999999999999988   21123  2332210  1111   


Q ss_pred             CCCCCCCCCCChhHHhhhhhHHHHHHHHhcC-ChhHHHHHHHHh
Q 025342          190 SANTRTKRRAGAAVYNRASSLETLAGYLYLT-NANRLEDVMSKL  232 (254)
Q Consensus       190 s~~t~~pKna~v~~YR~ATGFEALIGYLYLt-~~eRL~EL~~~l  232 (254)
                                 ..++..|++||||||++||. |.+++.+++..+
T Consensus       115 -----------~~~~~lad~~EAliGAiyld~g~~~~~~~i~~~  147 (242)
T 2a11_A          115 -----------DKSSILADGMESLLGAIYLQHGMEKAREVILRL  147 (242)
T ss_dssp             -----------GCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             -----------CCccHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence                       23788999999999999999 588988887765

>3o2r_A Ribonuclease III; structural genomics, center for structural genomics of infec diseases, csgid, nuclease domain, ribonuclase III; HET: MLZ; 1.25A {Campylobacter jejuni subsp} PDB: 3o2r_B*

Probab=99.16  E-value=6.8e-11  Score=99.36  Aligned_cols=101  Identities=15%  Similarity=0.193  Sum_probs=75.5

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342          118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT  195 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~  195 (254)
                      +=-.|+||||||++++|+.+++.  +..+..+|++....+|+.++++.+.+.+-=.++|.-........||         
T Consensus        59 ~neRLEfLGDaVL~l~vs~~L~~~~P~~~eg~Lt~~r~~lVs~~~La~ia~~lgL~~~l~~~~~~~~~~~~---------  129 (170)
T 3o2r_A           59 NNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFILMSVAEENNGGK---------  129 (170)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHSSHHHHHHHHHHTTGGGTCBCCHHHHHTTGG---------
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHCHHHHHHHHHHcCcHHhhhcCcchhhcCCC---------
Confidence            34679999999999999999985  4568999999999999999999998887422343321111111111         


Q ss_pred             CCCCChhHHhhhhhHHHHHHHHhcC-ChhHHHHHHHHh
Q 025342          196 KRRAGAAVYNRASSLETLAGYLYLT-NANRLEDVMSKL  232 (254)
Q Consensus       196 pKna~v~~YR~ATGFEALIGYLYLt-~~eRL~EL~~~l  232 (254)
                           ....-.|++||||||.+||. |.++..+++..+
T Consensus       130 -----~~~~ilad~fEAliGAiylD~G~~~a~~~i~~~  162 (170)
T 3o2r_A          130 -----EKPSILSDALEAIIGAIHLEAGFEFAKTIALRL  162 (170)
T ss_dssp             -----GCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             -----CcchHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
Confidence                 12446899999999999999 588998887653

>3n3w_A Ribonuclease III; nuclease domain, ribonuclase III, IDP90862, csgid, structura genomics; 2.21A {Campylobacter jejuni subsp}

Probab=99.06  E-value=1.8e-10  Score=101.11  Aligned_cols=101  Identities=15%  Similarity=0.192  Sum_probs=79.2

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342          118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT  195 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~  195 (254)
                      +=--|+||||||.+++|..+++.  +..+...|++....+|+.++++.+...+-=+++|...+.....+||+.       
T Consensus        59 ~neRLefLGDavL~~~v~~~L~~~~p~~~eg~Ls~~r~~lVs~~~La~~a~~lgL~~~l~~~~~e~~~~g~~~-------  131 (248)
T 3n3w_A           59 NNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVNEKSFAKIANSLNLGDFILMSVAEENNGGKEK-------  131 (248)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHHTTTCSCCCHHHHHHHHHSHHHHHHHHHHTTGGGTCBCCHHHHHTTGGGC-------
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHCHHHHHHHHHHcCcHHHhhcCchhhhcCCCCC-------
Confidence            34679999999999999999984  446788899999999999999999988743346654444445555543       


Q ss_pred             CCCCChhHHhhhhhHHHHHHHHhcC-ChhHHHHHHHHh
Q 025342          196 KRRAGAAVYNRASSLETLAGYLYLT-NANRLEDVMSKL  232 (254)
Q Consensus       196 pKna~v~~YR~ATGFEALIGYLYLt-~~eRL~EL~~~l  232 (254)
                             .-..|++||||||.+||. |.++..+++..+
T Consensus       132 -------~~~lad~fEAliGAiyld~G~~~~~~~i~~~  162 (248)
T 3n3w_A          132 -------PSILSDALEAIIGAIHLEAGFEFAKTIALRL  162 (248)
T ss_dssp             -------HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             -------ccHHHHHHHHHHHHHHHHCChHHHHHHHHHH
Confidence                   225899999999999999 588888877654

>3c4b_A Endoribonuclease dicer; RNAse, dsRNA binding protein, ATP-binding, endonuclease, HEL hydrolase, nucleotide-binding, phosphoprotein, RN binding; HET: MSE; 1.68A {Mus musculus} PDB: 3c4t_A 2eb1_A

Probab=99.04  E-value=5e-10  Score=97.58  Aligned_cols=114  Identities=19%  Similarity=0.216  Sum_probs=80.2

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCC---HH----HHHHHH--hhc
Q 025342          118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLS---AE----ERDVVR--WGK  186 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LT---EE----E~~IvR--RGR  186 (254)
                      +=.-|+||||||++++|..||+.  +..+...|++....+|+.+++|.+...+--+.+|.   ++    +.++++  .|+
T Consensus        49 ~neRLEfLGDaVL~l~v~~~L~~~~p~~~~g~Lt~lrs~lV~~~~La~~a~~lgl~~~l~~~~~~l~~~i~~f~~~~~~~  128 (265)
T 3c4b_A           49 CYQRLEFLGDAILDYLITKHLYEDPRQHSPGVLTDLRSALVNNTIFASLAVKYDYHKYFKAVSPELFHVIDDFVKFQLEK  128 (265)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHSSHHHHHHHHHHTTGGGTCBCCCHHHHHHHHHHHHHHHHH
T ss_pred             chHhHHHHhHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhHHHHHHHHHcChHHHHHhcChhHHHHHHHHHHHHhhh
Confidence            44789999999999999999995  34689999999999999999999988874333443   22    344555  666


Q ss_pred             CCCCCCC--------CCCCCCC-hhHHhhhhhHHHHHHHHhcCC-h--hHHHHHHHH
Q 025342          187 NVGSANT--------RTKRRAG-AAVYNRASSLETLAGYLYLTN-A--NRLEDVMSK  231 (254)
Q Consensus       187 Naks~~t--------~~pKna~-v~~YR~ATGFEALIGYLYLt~-~--eRL~EL~~~  231 (254)
                      |......        ...++.+ ......|++||||||.+||.. .  ++..+++..
T Consensus       129 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~laD~~EAliGAiylD~G~~~~~~~~~i~~  185 (265)
T 3c4b_A          129 NEMQGMDSELRRSEEDEEKEEDIEVPKAMGDIFESLAGAIYMDSGMSLEVVWQVYYP  185 (265)
T ss_dssp             HC------------------CCSCCCHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             hhhcchhHHhhhcchhhhhhcccccchHHHHHHHHHhhheeeecCCCHHHHHHHHHH
Confidence            6431100        0012222 356788999999999999994 5  777776644

>3rv1_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 1.98A {Vanderwaltozyma polyspora}

Probab=97.83  E-value=2.9e-05  Score=69.14  Aligned_cols=102  Identities=11%  Similarity=0.089  Sum_probs=69.4

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342          118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT  195 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~  195 (254)
                      +=--|+|+||||.++.|-.++..  +......|++.-..+|+-+.-+.+...+-    |.    +.+++|......    
T Consensus       128 ~nERLEfLGDaVL~l~vs~~L~~~~P~~~eG~Lt~lRs~lVsn~~La~iA~~lg----L~----~~l~~~~g~~~~----  195 (246)
T 3rv1_A          128 SNERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLN----FT----KRLQGNIATPTR----  195 (246)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHSHHHHHHHHHHTT----SH----HHHCSSCC--------
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhCCCCChhHHHHHHHHHhCHHHHHHHHHHCC----cH----HHHhhcCCHhhh----
Confidence            44789999999999999999884  45678889988888999998888877762    21    233332111000    


Q ss_pred             CCCCChhHHhhhhhHHHHHHHHhcCC----hhHHHHHHHHh
Q 025342          196 KRRAGAAVYNRASSLETLAGYLYLTN----ANRLEDVMSKL  232 (254)
Q Consensus       196 pKna~v~~YR~ATGFEALIGYLYLt~----~eRL~EL~~~l  232 (254)
                       +......=-.|..|||+||-+||..    .+.+++++..|
T Consensus       196 -~~~~~~~~ilAD~fEAlIGAIylD~~g~~l~~v~~~l~~L  235 (246)
T 3rv1_A          196 -VVKDKMSKRYADCVQAYIGALVIDRFGTEFLDIKEWLEEL  235 (246)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHCSSTTHHHHHHHHHH
T ss_pred             -ccCcccccHHHHHHHHHHHHHhHcCCCCCHHHHHHHHHHH
Confidence             0000111235899999999999984    56888877654

>3rv0_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 2.29A {Vanderwaltozyma polyspora}

Probab=97.72  E-value=0.00012  Score=67.63  Aligned_cols=101  Identities=12%  Similarity=0.081  Sum_probs=70.9

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342          118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT  195 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~  195 (254)
                      +=--|+|+||||.+++|-.++..  +......|++....+|+.+.-+.+...+-=..+|        ++|.....     
T Consensus       128 ~nERLEfLGDavL~l~vs~~L~~~~P~~~eG~Lt~lr~~lVs~~~La~iA~~lgL~~~l--------~~~~g~~~-----  194 (341)
T 3rv0_A          128 SNERLEFLGDSWLGALVSYIVYTRFPSANEGMLSQMKESIVNNNNLFDWSTKLNFTKRL--------QGNIATPT-----  194 (341)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHSHHHHHHHHHHTTTTTTT--------CCSSCCC------
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHhCCCCChhHHHHHHHHHhCHHHHHHHHHHcCcHHHh--------hhcCChhh-----
Confidence            44789999999999999999884  4568889999888999999999888876322233        22211000     


Q ss_pred             CCCCChhHHhhhhhHHHHHHHHhcC----ChhHHHHHHHH
Q 025342          196 KRRAGAAVYNRASSLETLAGYLYLT----NANRLEDVMSK  231 (254)
Q Consensus       196 pKna~v~~YR~ATGFEALIGYLYLt----~~eRL~EL~~~  231 (254)
                      .+......--.|.+||||||-+||.    |.+...+++..
T Consensus       195 ~~~~~~~~~ilaD~fEAlIGAIylD~~~~G~~~a~~fi~~  234 (341)
T 3rv0_A          195 RVVKDKMSKRYADCVEAYIGALVIDRFGTEFLDIKEWLEE  234 (341)
T ss_dssp             ---CCHHHHHHHHHHHHHHHHHHHHHCSSTTHHHHHHHHH
T ss_pred             hccCCccccHHHHHHHHHHHHHhhcCccCCHHHHHHHHHH
Confidence            0111123334689999999999997    46777777654

>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A

Probab=96.98  E-value=0.0027  Score=64.23  Aligned_cols=98  Identities=10%  Similarity=0.103  Sum_probs=71.7

Q ss_pred             HHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCCC
Q 025342          120 ASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTKR  197 (254)
Q Consensus       120 LaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~pK  197 (254)
                      --|.|+||||-++.|=.++..  +.....+|.+.-..+|+-+.-+.+...+-.  .|  .  ..++.|+.....   .+ 
T Consensus       648 eRLEfLGDaVL~l~vs~~L~~~~p~~~eG~Lt~lrs~lV~~~~La~~a~~lg~--~L--~--~~l~~~~~e~~~---~~-  717 (756)
T 2qvw_A          648 QKLELLGDAFLKCSLALHLHALHPTLTEGALTRMRQSAETNSVLGRLTKRFPS--VV--S--EVIIESHPKIQP---DS-  717 (756)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHTTSHHHHHHHHHTSCT--HH--H--HHHHHHSTTCCT---TC-
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHhCChHHHHHHHHhcc--cH--H--HHHhcCchhhcC---Cc-
Confidence            569999999999999999984  456788899888889999988887766510  01  1  334555432110   11 


Q ss_pred             CCChhHHhhhhhHHHHHHHHhcC-ChhHHHHHHHHhC
Q 025342          198 RAGAAVYNRASSLETLAGYLYLT-NANRLEDVMSKLG  233 (254)
Q Consensus       198 na~v~~YR~ATGFEALIGYLYLt-~~eRL~EL~~~lg  233 (254)
                            =-.|..||||||-+||. |.+...+++..+-
T Consensus       718 ------kilaD~~EAliGAiylD~G~~~a~~~v~~~~  748 (756)
T 2qvw_A          718 ------KVYGDTFEAILAAILLACGEEAAGAFVREHV  748 (756)
T ss_dssp             ------SHHHHHHHHHHHHHHHHHCHHHHHHHHHHHT
T ss_pred             ------cHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence                  13699999999999999 6888888887654

>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A

Probab=96.31  E-value=0.012  Score=59.60  Aligned_cols=96  Identities=21%  Similarity=0.281  Sum_probs=69.0

Q ss_pred             ChHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCC
Q 025342          118 NAASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRT  195 (254)
Q Consensus       118 spLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~  195 (254)
                      |=--|.|+||||-++.|=.+|..  +.....+|.+.-.++|+-+.=+.+-+.+-=..+|        +-|+...      
T Consensus       333 nnERLEfLGDavL~~~vs~~L~~~~P~~~eG~Ls~lRs~lVsn~~La~~A~~lgL~~~l--------~~~~~e~------  398 (756)
T 2qvw_A          333 VFQRLELLGDAVLGFIVTARLLCLFPDASVGTLVELKMELVRNEALNYLVQTLGLPQLA--------EFSNNLV------  398 (756)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHSHHHHHHHHHHTTCTTTC--------BCCSCC-------
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHhCchHHHHHHHHcChHHHh--------ccCCCCC------
Confidence            44679999999999999999884  4567888998888899998888887776422222        2222210      


Q ss_pred             CCCCChhHHhhhhhHHHHHHHHhcC-C-hhHHHHHHHHh
Q 025342          196 KRRAGAAVYNRASSLETLAGYLYLT-N-ANRLEDVMSKL  232 (254)
Q Consensus       196 pKna~v~~YR~ATGFEALIGYLYLt-~-~eRL~EL~~~l  232 (254)
                       .+    .--.|.+|||+||-+||. . .+...+++..+
T Consensus       399 -~~----~~ilaD~~EAliGAiylD~~G~~~a~~~v~~~  432 (756)
T 2qvw_A          399 -AK----SKTWADMYEEIVGSIFTGPNGIYGCEEFLAKT  432 (756)
T ss_dssp             --C----CCCHHHHHHHHHHHHHHSTTHHHHHHHHHHHH
T ss_pred             -Cc----ccHHHhHHHHHhCcccccccChHHHHHHHHHH
Confidence             00    112588999999999997 5 77777766554

---

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	254
d1u61a_	127	a.149.1.1 (A:) Hypothetical protein BC0111 {Bacill	3e-20

>d1u61a_ a.149.1.1 (A:) Hypothetical protein BC0111 {Bacillus cereus [TaxId: 1396]} Length = 127

class: All alpha proteins
fold: RNase III domain-like
superfamily: RNase III domain-like
family: RNase III catalytic domain-like
domain: Hypothetical protein BC0111
species: Bacillus cereus [TaxId: 1396]

 Score = 81.2 bits (200), Expect = 3e-20
 Identities = 34/117 (29%), Positives = 59/117 (50%), Gaps = 4/117 (3%)

Query: 118 NAASLAYIGDCIYELYARRHFLFP-PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSA 176
           N+ +LAY+GD +YE Y R H L    +   + +    + V  + Q  ++  LL  ++L+ 
Sbjct: 7   NSLALAYMGDAVYEQYIRYHLLQKGKVRPNQLHRLGTSFVSAKAQAKVVYHLLETAFLTE 66

Query: 177 EERDVVRWGKNVGSANTRTKRRAGAAVYNRASSLETLAGYLYLT-NANRLEDVMSKL 232
           EE  V+R G+N  S      +      Y  +++ E L GY +L  N  RL++++ K 
Sbjct: 67  EEEAVLRRGRNANSGTVP--KNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYKA 121

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	254
d1u61a_	127	Hypothetical protein BC0111 {Bacillus cereus [TaxI	99.97
d1o0wa1	169	RNase III endonuclease catalytic domain {Thermotog	98.26
d2nuga1	148	RNase III endonuclease catalytic domain {Aquifex a	97.62

>d1u61a_ a.149.1.1 (A:) Hypothetical protein BC0111 {Bacillus cereus [TaxId: 1396]}

class: All alpha proteins
fold: RNase III domain-like
superfamily: RNase III domain-like
family: RNase III catalytic domain-like
domain: Hypothetical protein BC0111
species: Bacillus cereus [TaxId: 1396]

Probab=99.97  E-value=5.1e-32  Score=217.04  Aligned_cols=116  Identities=29%  Similarity=0.538  Sum_probs=107.3

Q ss_pred             CCcChHHHHHHhhHHHHHHHHHHhhCC-CCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCC
Q 025342          115 SVFNAASLAYIGDCIYELYARRHFLFP-PLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANT  193 (254)
Q Consensus       115 ~~~spLaLAYIGDAVYELyVR~~ll~~-~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t  193 (254)
                      +++||++|+|||||||||+||.|++.+ +.++.+||+...++|++++|+++.+.|..+++|+++|.++++||||.++.+ 
T Consensus         4 ~~~~~~~LefLGDAVl~l~v~~~L~~~~p~~eg~Lt~~r~~lV~~~~la~~a~~l~l~~~l~~~e~~~~~~Grn~~~~~-   82 (127)
T d1u61a_           4 KQLNSLALAYMGDAVYEQYIRYHLLQKGKVRPNQLHRLGTSFVSAKAQAKVVYHLLETAFLTEEEEAVLRRGRNANSGT-   82 (127)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHHHHHHHCCSCGGGHHHHHHHHHSHHHHHHHHHHHHHTTCSCHHHHHHHHHHTCCCSSC-
T ss_pred             hhcChHHHHHHHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHccHHHHHHHHHHhCcHHHhhhccccccccCCcccCCC-
Confidence            589999999999999999999999954 368999999999999999999999999877899999999999999998753 


Q ss_pred             CCCCCCChhHHhhhhhHHHHHHHHhcCC-hhHHHHHHHHh
Q 025342          194 RTKRRAGAAVYNRASSLETLAGYLYLTN-ANRLEDVMSKL  232 (254)
Q Consensus       194 ~~pKna~v~~YR~ATGFEALIGYLYLt~-~eRL~EL~~~l  232 (254)
                       .+||+++.+|+.||+||||||||||.+ .+|++++|.++
T Consensus        83 -~~k~~~~~~y~lad~fEAliGalYLd~~~e~~~~~i~~~  121 (127)
T d1u61a_          83 -VPKNTDVQTYRHSTAFEALIGYHHLLNNRERLDEIVYKA  121 (127)
T ss_dssp             -CCTTCCHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -CCcccchhHHHhhhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence             689999999999999999999999985 89999999774

>d2nuga1 a.149.1.1 (A:3-150) RNase III endonuclease catalytic domain {Aquifex aeolicus [TaxId: 63363]}

class: All alpha proteins
fold: RNase III domain-like
superfamily: RNase III domain-like
family: RNase III catalytic domain-like
domain: RNase III endonuclease catalytic domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.62  E-value=6.6e-05  Score=58.83  Aligned_cols=94  Identities=17%  Similarity=0.211  Sum_probs=65.6

Q ss_pred             hHHHHHHhhHHHHHHHHHHhhC--CCCChhHHhHhhhheeechhHHHHHHHhhcCCCCCHHHHHHHHhhcCCCCCCCCCC
Q 025342          119 AASLAYIGDCIYELYARRHFLF--PPLSIEEYNNRVMAVVRCETQDALLQKLLNDSYLSAEERDVVRWGKNVGSANTRTK  196 (254)
Q Consensus       119 pLaLAYIGDAVYELyVR~~ll~--~~~kv~~Lhk~v~~~VsAkAQA~ll~~Ll~e~~LTEEE~~IvRRGRNaks~~t~~p  196 (254)
                      =-.|+|+||+|.++.|=.|+..  +..+...++..-..+|+.+.-+.+...+-=.+++        +.+++..     .+
T Consensus        34 ~erLeflGDavl~~~v~~~l~~~~p~~~~g~lt~~r~~lvsn~~La~~a~~lgl~~~i--------~~~~~~~-----~~  100 (148)
T d2nuga1          34 YETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLISEEFFNLLAQKLELHKFI--------RIKRGKI-----NE  100 (148)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHTCTTCCHHHHHHHHHHHTSHHHHHHHHHTTTGGGTC--------BSCTTCC-----CH
T ss_pred             hHHHHHHHHHHHhhhhHHHHHhhCCCcchHHHHHHHHHhhhhhHhhhHHHHhhHHHHH--------Hhccccc-----hh
Confidence            3569999999999999999884  3467888998888899998888877766311222        2222211     01


Q ss_pred             CCCChhHHhhhhhHHHHHHHHhcC-Ch--hHHHHHHHHh
Q 025342          197 RRAGAAVYNRASSLETLAGYLYLT-NA--NRLEDVMSKL  232 (254)
Q Consensus       197 Kna~v~~YR~ATGFEALIGYLYLt-~~--eRL~EL~~~l  232 (254)
                      |       -.|+.|||+||-+|+. |.  +..++++..+
T Consensus       101 k-------ilad~~EAiiGAiylD~g~~~~~~~~~i~~l  132 (148)
T d2nuga1         101 T-------IIGDVFEALWAAVYIDSGRDANFTRELFYKL  132 (148)
T ss_dssp             H-------HHHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             h-------hhHHHHHHHHHHhhhccCCCHHHHHHHHHHH
Confidence            1       1589999999999996 33  4456666543