Citrus Sinensis ID: 029991

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180----
MKLRPFTLYLLPVLVIAISSSFQVRAANDQRFKTSSPFATALETLQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKALPF
cccccHHHHHHHHHHHHHHccHHHHcccccccccccHHHHHHHHHHHHHccccccHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHcccccEEEEcccccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcccccc
cccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHccccccHHHHHHHHHcHHccccccHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHcccccEEEEcccccccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcHccccccc
mklrpftlYLLPVLVIAISSSFQVRAandqrfktssPFATALETLQKQIGYTFKSIGLLRramthssfseenNRALGILGGYVIDTSVSLRllnkdidispkdlnrrvsetsNVEISCAVDGMHLGLQKVVrvspktnstvpaVVCGAFRAIFGAIavdtgkcddagdvflrvhsgevgkalpf
MKLRPFTLYLLPVLVIAISSSFQVRAANDQRFKTSSPFATALETLQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLnkdidispkdlnrrvsetsNVEISCAVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVhsgevgkalpf
MKLRPFTLYLLPVLVIAISSSFQVRAANDQRFKTSSPFATALETLQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKALPF
****PFTLYLLPVLVIAISSSFQVRAANDQRFKTSSPFATALETLQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHS*********
****PFT*YLLPVLVIA***************************LQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRV*******V*AVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKALPF
MKLRPFTLYLLPVLVIAISSSFQVRAANDQRFKTSSPFATALETLQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKALPF
*KLRPFTLYLLPVLVIAISSSFQVRAANDQRFKTSSPFATALETLQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKAL**
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MKLRPFTLYLLPVLVIAISSSFQVRAANDQRFKTSSPFATALETLQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKALPF
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query184 2.2.26 [Sep-21-2011]
Q8Y691229 Ribonuclease 3 OS=Listeri yes no 0.625 0.502 0.318 1e-08
B8DDU8229 Ribonuclease 3 OS=Listeri yes no 0.625 0.502 0.318 2e-08
Q71YL2229 Ribonuclease 3 OS=Listeri yes no 0.625 0.502 0.318 2e-08
C1KWA4229 Ribonuclease 3 OS=Listeri yes no 0.625 0.502 0.318 2e-08
Q92AK3229 Ribonuclease 3 OS=Listeri yes no 0.625 0.502 0.311 5e-08
Q3SH50226 Ribonuclease 3 OS=Thiobac yes no 0.673 0.548 0.316 5e-08
A0AJR0229 Ribonuclease 3 OS=Listeri yes no 0.625 0.502 0.296 8e-08
B4U7T8232 Ribonuclease 3 OS=Hydroge yes no 0.635 0.504 0.3 1e-07
A6Q1H0226 Ribonuclease 3 OS=Nitrati yes no 0.652 0.530 0.298 2e-07
B4RCU4238 Ribonuclease 3 OS=Phenylo yes no 0.663 0.512 0.295 2e-07
>sp|Q8Y691|RNC_LISMO Ribonuclease 3 OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e) GN=rnc PE=3 SV=1 Back     alignment and function desciption
 Score = 59.3 bits (142), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/135 (31%), Positives = 66/135 (48%), Gaps = 20/135 (14%)

Query: 42  LETLQKQIGYTFKSIGLLRRAMTHSSFSEE-------NNRALGILGGYVIDTSVSLRLLN 94
            E LQ+ +G+ FK++ LL++A THSS+  E       +N  L  LG  V++ +VS  L N
Sbjct: 4   WEELQESVGFDFKNVELLKQAFTHSSYVNEHRRENVKDNERLEFLGDAVLELTVSDYLFN 63

Query: 95  KDIDISPKDLNRR----VSETSNVEISCAVDGMHLGLQKVVRVSPKTNS----TVPAVVC 146
           K  D++   + +     V E S VE + AV        K VR+          T PA++ 
Sbjct: 64  KYPDMAEGHMTKMRAAIVCEPSLVEFAEAVH-----FSKYVRLGKGEEKAGGRTRPALLA 118

Query: 147 GAFRAIFGAIAVDTG 161
             F +  GA+ +D G
Sbjct: 119 DVFESFIGALYLDNG 133
Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Also processes some mRNAs, and tRNAs when they are encoded in the rRNA operon.
Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e) (taxid: 169963)
EC: 3EC: .EC: 1EC: .EC: 2EC: 6EC: .EC: 3
>sp|B8DDU8|RNC_LISMH Ribonuclease 3 OS=Listeria monocytogenes serotype 4a (strain HCC23) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|Q71YL2|RNC_LISMF Ribonuclease 3 OS=Listeria monocytogenes serotype 4b (strain F2365) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|C1KWA4|RNC_LISMC Ribonuclease 3 OS=Listeria monocytogenes serotype 4b (strain CLIP80459) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|Q92AK3|RNC_LISIN Ribonuclease 3 OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|Q3SH50|RNC_THIDA Ribonuclease 3 OS=Thiobacillus denitrificans (strain ATCC 25259) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|A0AJR0|RNC_LISW6 Ribonuclease 3 OS=Listeria welshimeri serovar 6b (strain ATCC 35897 / DSM 20650 / SLCC5334) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|B4U7T8|RNC_HYDS0 Ribonuclease 3 OS=Hydrogenobaculum sp. (strain Y04AAS1) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|A6Q1H0|RNC_NITSB Ribonuclease 3 OS=Nitratiruptor sp. (strain SB155-2) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|B4RCU4|RNC_PHEZH Ribonuclease 3 OS=Phenylobacterium zucineum (strain HLK1) GN=rnc PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query184
225457085183 PREDICTED: ribonuclease 3 [Vitis vinifer 0.934 0.939 0.702 1e-63
388518535179 unknown [Lotus japonicus] 0.891 0.916 0.661 2e-59
255540729185 conserved hypothetical protein [Ricinus 0.972 0.967 0.652 4e-57
351723443188 uncharacterized protein LOC100527745 pre 0.940 0.920 0.634 5e-57
224121666179 predicted protein [Populus trichocarpa] 0.934 0.960 0.638 8e-57
224135779160 predicted protein [Populus trichocarpa] 0.858 0.987 0.689 3e-56
357477313178 Ribonuclease [Medicago truncatula] gi|35 0.782 0.808 0.701 2e-52
297851136190 hypothetical protein ARALYDRAFT_472903 [ 0.945 0.915 0.563 6e-47
15221749191 nuclear fusion defective 2 protein /ribo 0.972 0.937 0.545 2e-46
357519505127 Ribonuclease, partial [Medicago truncatu 0.532 0.771 0.724 2e-33
>gi|225457085|ref|XP_002280078.1| PREDICTED: ribonuclease 3 [Vitis vinifera] gi|297733813|emb|CBI15060.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  247 bits (631), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 123/175 (70%), Positives = 140/175 (80%), Gaps = 3/175 (1%)

Query: 10  LLPVLVIAISSSFQVRAANDQR---FKTSSPFATALETLQKQIGYTFKSIGLLRRAMTHS 66
           +L + ++A  S+FQ  A N+ R    K SSPF+ ALETLQKQIGYTF+SIGLLRRAMTHS
Sbjct: 6   ILTLFLLAKFSAFQAHAGNEVRDPILKPSSPFSLALETLQKQIGYTFQSIGLLRRAMTHS 65

Query: 67  SFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLG 126
           SFSEENN+AL ILG   I+TSVSL+ L KDI+ S KDLNRR+SE S VE SCAVD M LG
Sbjct: 66  SFSEENNKALSILGASTIETSVSLQYLKKDIEASAKDLNRRISEISQVESSCAVDAMRLG 125

Query: 127 LQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKA 181
           LQKV+RVSPKTN++ PAVVCGAFRAIFGAIA+DTGK DDAG VF  VH  EVG A
Sbjct: 126 LQKVIRVSPKTNASTPAVVCGAFRAIFGAIAMDTGKSDDAGKVFWSVHGSEVGGA 180

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|388518535|gb|AFK47329.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|255540729|ref|XP_002511429.1| conserved hypothetical protein [Ricinus communis] gi|223550544|gb|EEF52031.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
>gi|351723443|ref|NP_001236767.1| uncharacterized protein LOC100527745 precursor [Glycine max] gi|255633098|gb|ACU16904.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|224121666|ref|XP_002318642.1| predicted protein [Populus trichocarpa] gi|222859315|gb|EEE96862.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224135779|ref|XP_002322158.1| predicted protein [Populus trichocarpa] gi|222869154|gb|EEF06285.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|357477313|ref|XP_003608942.1| Ribonuclease [Medicago truncatula] gi|355509997|gb|AES91139.1| Ribonuclease [Medicago truncatula] gi|388491248|gb|AFK33690.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|297851136|ref|XP_002893449.1| hypothetical protein ARALYDRAFT_472903 [Arabidopsis lyrata subsp. lyrata] gi|297339291|gb|EFH69708.1| hypothetical protein ARALYDRAFT_472903 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|15221749|ref|NP_173854.1| nuclear fusion defective 2 protein /ribonuclease III [Arabidopsis thaliana] gi|9743333|gb|AAF97957.1|AC000103_7 F21J9.11 [Arabidopsis thaliana] gi|15010594|gb|AAK73956.1| At1g24450/F21J9_210 [Arabidopsis thaliana] gi|20334854|gb|AAM16183.1| At1g24450/F21J9_210 [Arabidopsis thaliana] gi|332192410|gb|AEE30531.1| nuclear fusion defective 2 protein /ribonuclease III [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|357519505|ref|XP_003630041.1| Ribonuclease, partial [Medicago truncatula] gi|355524063|gb|AET04517.1| Ribonuclease, partial [Medicago truncatula] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query184
TAIR|locus:2024011191 NFD2 "NUCLEAR FUSION DEFECTIVE 0.945 0.910 0.554 1.3e-43
TIGR_CMR|CJE_1807224 CJE_1807 "ribonuclease III" [C 0.652 0.535 0.298 3e-07
TIGR_CMR|DET_1025237 DET_1025 "ribonuclease III" [D 0.728 0.565 0.295 1.7e-05
TIGR_CMR|CBU_1503233 CBU_1503 "ribonuclease III" [C 0.652 0.515 0.284 7.8e-05
ASPGD|ASPL0000030048146 AN5408 [Emericella nidulans (t 0.684 0.863 0.251 0.00027
TAIR|locus:2024011 NFD2 "NUCLEAR FUSION DEFECTIVE 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 460 (167.0 bits), Expect = 1.3e-43, P = 1.3e-43
 Identities = 101/182 (55%), Positives = 127/182 (69%)

Query:     6 FTLYLLPVLVIAISSSFQ----VRAANDQRFKT---SSPFATALETLQKQIGYTFKSIGL 58
             FTL LL V V+ I  SF     VRA ++   +    SSPFAT L  LQ QIGY F +I L
Sbjct:     6 FTLLLL-VFVVGIFFSFSSVSHVRATSEINLRIEPFSSPFATDLAKLQTQIGYKFNNINL 64

Query:    59 LRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISC 118
             LRRAMTH+SFS+ENN+AL I G ++I+T+VSL+ L KDIDIS K L R +SE SNVE SC
Sbjct:    65 LRRAMTHASFSQENNKALSIFGTHIIETAVSLQFLAKDIDISSKALGRLISEVSNVESSC 124

Query:   119 AVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEV 178
             A+DG  LGL K++RVS KT+++  A++C  FRAIFGAIA+D G  D+A  VF +VH    
Sbjct:   125 ALDGDRLGLGKIIRVSTKTDASNSAILCTGFRAIFGAIAIDAGTVDEAIKVFWKVHGARA 184

Query:   179 GK 180
             G+
Sbjct:   185 GR 186
GO:0003723 "RNA binding" evidence=IEA;ISS
GO:0004525 "ribonuclease III activity" evidence=IEA;ISS
GO:0006396 "RNA processing" evidence=IEA;ISS
GO:0009507 "chloroplast" evidence=ISM
GO:0005773 "vacuole" evidence=IDA
GO:0010267 "production of ta-siRNAs involved in RNA interference" evidence=RCA
GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA
GO:0051607 "defense response to virus" evidence=RCA
TIGR_CMR|CJE_1807 CJE_1807 "ribonuclease III" [Campylobacter jejuni RM1221 (taxid:195099)] Back     alignment and assigned GO terms
TIGR_CMR|DET_1025 DET_1025 "ribonuclease III" [Dehalococcoides ethenogenes 195 (taxid:243164)] Back     alignment and assigned GO terms
TIGR_CMR|CBU_1503 CBU_1503 "ribonuclease III" [Coxiella burnetii RSA 493 (taxid:227377)] Back     alignment and assigned GO terms
ASPGD|ASPL0000030048 AN5408 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.1.26LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
estExt_fgenesh4_pg.C_LG_XII0765
hypothetical protein (180 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 ?Alignment Graph ?Length ? Definition ? E-value ?
Query184
smart00535129 smart00535, RIBOc, Ribonuclease III family 4e-15
TIGR02191220 TIGR02191, RNaseIII, ribonuclease III, bacterial 1e-12
COG0571235 COG0571, Rnc, dsRNA-specific ribonuclease [Transcr 1e-11
cd00593133 cd00593, RIBOc, RIBOc 3e-09
PRK14718 467 PRK14718, PRK14718, ribonuclease III; Provisional 1e-08
PRK00102229 PRK00102, rnc, ribonuclease III; Reviewed 8e-08
PRK12372 413 PRK12372, PRK12372, ribonuclease III; Reviewed 9e-07
PRK12371235 PRK12371, PRK12371, ribonuclease III; Reviewed 2e-05
pfam0063691 pfam00636, Ribonuclease_3, Ribonuclease III domain 5e-05
>gnl|CDD|197778 smart00535, RIBOc, Ribonuclease III family Back     alignment and domain information 
 Score = 68.0 bits (167), Expect = 4e-15
 Identities = 37/110 (33%), Positives = 57/110 (51%), Gaps = 7/110 (6%)

Query: 58  LLRRAMTHSSFSEE--NNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVE 115
           LL RA+TH+S+S E  +N  L  LG  V++  V+  L  K  D+S  DL+R  S   + E
Sbjct: 2   LLLRALTHASYSNEHEHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNE 61

Query: 116 ISCAVDGMHLGLQKVVRVSPKTNST----VPAVVCGAFRAIFGAIAVDTG 161
            + A     LGL + +R+      +     P ++   F A+ GAI +D+G
Sbjct: 62  -TLARLAKKLGLGEFIRLGRGEAISGGRDKPKILADVFEALIGAIYLDSG 110

Length = 129
>gnl|CDD|233772 TIGR02191, RNaseIII, ribonuclease III, bacterial Back     alignment and domain information
>gnl|CDD|223644 COG0571, Rnc, dsRNA-specific ribonuclease [Transcription] Back     alignment and domain information
>gnl|CDD|238333 cd00593, RIBOc, RIBOc Back     alignment and domain information
>gnl|CDD|173181 PRK14718, PRK14718, ribonuclease III; Provisional Back     alignment and domain information
>gnl|CDD|234633 PRK00102, rnc, ribonuclease III; Reviewed Back     alignment and domain information
>gnl|CDD|237081 PRK12372, PRK12372, ribonuclease III; Reviewed Back     alignment and domain information
>gnl|CDD|171444 PRK12371, PRK12371, ribonuclease III; Reviewed Back     alignment and domain information
>gnl|CDD|216036 pfam00636, Ribonuclease_3, Ribonuclease III domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 184
COG0571235 Rnc dsRNA-specific ribonuclease [Transcription] 100.0
PRK12371235 ribonuclease III; Reviewed 100.0
PRK12372 413 ribonuclease III; Reviewed 100.0
PRK14718 467 ribonuclease III; Provisional 100.0
PRK00102229 rnc ribonuclease III; Reviewed 100.0
TIGR02191220 RNaseIII ribonuclease III, bacterial. This family 100.0
PF14622128 Ribonucleas_3_3: Ribonuclease-III-like; PDB: 1O0W_ 100.0
smart00535129 RIBOc Ribonuclease III family. 99.97
cd00593133 RIBOc RIBOc. Ribonuclease III C terminal domain. T 99.97
KOG1817 533 consensus Ribonuclease [RNA processing and modific 99.96
PF00636114 Ribonuclease_3: Ribonuclease III domain; InterPro: 99.91
KOG1817 533 consensus Ribonuclease [RNA processing and modific 99.71
KOG0701 1606 consensus dsRNA-specific nuclease Dicer and relate 99.56
KOG3769 333 consensus Ribonuclease III domain proteins [Transl 99.32
KOG07011606 consensus dsRNA-specific nuclease Dicer and relate 99.29
COG1939132 Ribonuclease III family protein [Replication, reco 98.25
PF11469120 Ribonucleas_3_2: Ribonuclease III; InterPro: IPR02 90.68
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription] Back     alignment and domain information 
Probab=100.00  E-value=9.4e-40  Score=270.92  Aligned_cols=142  Identities=30%  Similarity=0.458  Sum_probs=134.2

Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHcCCCCCCC-----cchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhc
Q 029991           38 FATALETLQKQIGYTFKSIGLLRRAMTHSSFSEE-----NNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETS  112 (184)
Q Consensus        38 ~~~~l~~le~~lgy~F~~~~LL~~AlTh~S~~~~-----~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lv  112 (184)
                      ..+.+..+++.+||+|+|++||.+||||+||.++     ||||||||||+||+++|+++||++||+.++|+||.+|+.+|
T Consensus         4 ~~~~~~~l~~~lg~~f~~~~lL~~AltH~S~~~e~~~~~~nERLEFLGDavL~l~vae~Lf~~yP~~~EG~Ls~~ra~lV   83 (235)
T COG0571           4 MIKKLEALEKKLGYTFKDKELLEQALTHRSYANEHKAVENNERLEFLGDAVLGLVVAEYLFKKYPNLPEGELSKLRAALV   83 (235)
T ss_pred             chHHHHHHHHHhCCCcCCHHHHHHHhcCcchhccccCCcchHHHHhhHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence            3456889999999999999999999999999875     69999999999999999999999999999999999999999


Q ss_pred             ccchhHHHHHHhhCccchhhcCCCCC----CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhccc
Q 029991          113 NVEISCAVDGMHLGLQKVVRVSPKTN----STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKA  181 (184)
Q Consensus       113 s~n~~La~ia~~lgL~~~i~~~~~~~----~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~~  181 (184)
                      | +.+|+.+|+.+||++++++++++.    +..++++||+|||+|||||+|+| ++.+++|+.++|.+.+..+
T Consensus        84 ~-~~~La~ia~~l~l~~~l~lg~ge~~~gg~~~~silaD~~EAligAiylD~g-~~~~~~~i~~l~~~~~~~~  154 (235)
T COG0571          84 S-EESLAEIARELGLGDYLRLGKGEEKSGGRRRESILADAFEALIGAIYLDSG-LEAARKFILKLFLPRLEEI  154 (235)
T ss_pred             H-HHHHHHHHHHhCccchhhccCChhhcCCCCchhHHHHHHHHHHHHHHHhCC-hHHHHHHHHHHHHHHHhhc
Confidence            9 999999999999999999999864    56789999999999999999999 9999999999999998754

>PRK12371 ribonuclease III; Reviewed Back     alignment and domain information
>PRK12372 ribonuclease III; Reviewed Back     alignment and domain information
>PRK14718 ribonuclease III; Provisional Back     alignment and domain information
>PRK00102 rnc ribonuclease III; Reviewed Back     alignment and domain information
>TIGR02191 RNaseIII ribonuclease III, bacterial Back     alignment and domain information
>PF14622 Ribonucleas_3_3: Ribonuclease-III-like; PDB: 1O0W_A 2A11_A 3N3W_B Back     alignment and domain information
>smart00535 RIBOc Ribonuclease III family Back     alignment and domain information
>cd00593 RIBOc RIBOc Back     alignment and domain information
>KOG1817 consensus Ribonuclease [RNA processing and modification] Back     alignment and domain information
>PF00636 Ribonuclease_3: Ribonuclease III domain; InterPro: IPR000999 Prokaryotic ribonuclease III (3 Back     alignment and domain information
>KOG1817 consensus Ribonuclease [RNA processing and modification] Back     alignment and domain information
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification] Back     alignment and domain information
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification] Back     alignment and domain information
>COG1939 Ribonuclease III family protein [Replication, recombination, and repair] Back     alignment and domain information
>PF11469 Ribonucleas_3_2: Ribonuclease III; InterPro: IPR021568 This archaeal family of proteins has no known function Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query184
1rc7_A220 Crystal Structure Of Rnase Iii Mutant E110k From Aq 6e-08
1yyo_A221 Crystal Structure Of Rnase Iii Mutant E110k From Aq 7e-08
1i4s_A147 Crystal Structure Of Rnase Iii Endonuclease Domain 8e-08
1jfz_A154 Crystal Structure Of Mn(Ii)-Complex Of Rnase Iii En 8e-08
1yz9_A221 Crystal Structure Of Rnase Iii Mutant E110q From Aq 9e-08
3o2r_D144 Structural Flexibility In Region Involved In Dimer 1e-07
1yyk_A221 Crystal Structure Of Rnase Iii From Aquifex Aeolicu 1e-07
3o2r_A170 Structural Flexibility In Region Involved In Dimer 1e-07
3n3w_A248 2.2 Angstrom Resolution Crystal Structure Of Nuclea 1e-07
2ez6_A221 Crystal Structure Of Aquifex Aeolicus Rnase Iii (d4 4e-07
1o0w_A252 Crystal Structure Of Ribonuclease Iii (Tm1102) From 3e-05
>pdb|1RC7|A Chain A, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex Aeolicus Complexed With Ds-Rna At 2.15 Angstrom Resolution Length = 220 Back     alignment and structure 
Iteration: 1

 Score = 53.5 bits (127), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 39/129 (30%), Positives = 67/129 (51%), Gaps = 18/129 (13%)
Query: 42  LETLQKQIGYTFKSIGLLRRAMTHSSFS-EENNRALGILGGYVIDTSVSLRLLNKDIDIS 100
           LE L+K++GYTFK   LL +A+TH S+S +E+   L  LG    D  V+  +++  +  S
Sbjct: 4   LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETLEFLG----DALVNFFIVDLLVQYS 59
Query: 101 PKDLNRRVSETSNVEISCAVD------GMHLGLQKVVRVSP-KTNSTVPAVVCGAFRAIF 153
           P   N+R    S ++     +         L L K +R+   K N T   ++   F+A++
Sbjct: 60  P---NKREGFLSPLKAYLISEEFFNLLAQKLELHKFIRIKRGKINET---IIGDVFKALW 113
Query: 154 GAIAVDTGK 162
            A+ +D+G+
Sbjct: 114 AAVYIDSGR 122
>pdb|1YYO|A Chain A, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex Aeolicus Complexed With Double-stranded Rna At 2.9- Angstrom Resolution Length = 221 Back     alignment and structure
>pdb|1I4S|A Chain A, Crystal Structure Of Rnase Iii Endonuclease Domain From Aquifex Aeolicus At 2.15 Angstrom Resolution Length = 147 Back     alignment and structure
>pdb|1JFZ|A Chain A, Crystal Structure Of Mn(Ii)-Complex Of Rnase Iii Endonuclease Domain From Aquifex Aeolicus At 2.10 Angstrom Resolution Length = 154 Back     alignment and structure
>pdb|1YZ9|A Chain A, Crystal Structure Of Rnase Iii Mutant E110q From Aquifex Aeolicus Complexed With Double Stranded Rna At 2.1- Angstrom Resolution Length = 221 Back     alignment and structure
>pdb|1YYK|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus Complexed With Double-Stranded Rna At 2.5-Angstrom Resolution Length = 221 Back     alignment and structure
>pdb|3O2R|A Chain A, Structural Flexibility In Region Involved In Dimer Formation Of Nuclease Domain Of Ribonuclase Iii (Rnc) From Campylobacter Jejuni Length = 170 Back     alignment and structure
>pdb|3N3W|A Chain A, 2.2 Angstrom Resolution Crystal Structure Of Nuclease Domain Ribonuclase Iii (Rnc) From Campylobacter Jejuni Length = 248 Back     alignment and structure
>pdb|2EZ6|A Chain A, Crystal Structure Of Aquifex Aeolicus Rnase Iii (d44n) Complexed With Product Of Double-stranded Rna Processing Length = 221 Back     alignment and structure
>pdb|1O0W|A Chain A, Crystal Structure Of Ribonuclease Iii (Tm1102) From Thermotoga Maritima At 2.0 A Resolution Length = 252 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query184
2nug_A221 Ribonuclease III, RNAse III; dsRNA, RNA interferen 1e-14
3o2r_A170 Ribonuclease III; structural genomics, center for 1e-14
3n3w_A248 Ribonuclease III; nuclease domain, ribonuclase III 6e-13
3c4b_A265 Endoribonuclease dicer; RNAse, dsRNA binding prote 1e-12
1o0w_A252 Ribonuclease III, RNAse III; TM1102, structural ge 7e-12
2a11_A242 Ribonuclease III, RNAse III; nuclease domain, stru 4e-10
2qvw_A 756 GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral 4e-08
3rv0_A341 K. polysporus DCR1; RNAse III enzyme, RNA binding 2e-07
3rv1_A246 K. polysporus DCR1; RNAse III enzyme, RNA binding 5e-07
>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 Length = 221 Back     alignment and structure
 Score = 68.3 bits (168), Expect = 1e-14
 Identities = 34/137 (24%), Positives = 65/137 (47%), Gaps = 13/137 (9%)

Query: 42  LETLQKQIGYTFKSIGLLRRAMTHSSFS-EENNRALGILGGYVIDTSVSLRLLNKDIDIS 100
           LE L+K++GYTFK   LL +A+TH S+S +E+   L  LG  +++  +   L+    +  
Sbjct: 4   LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETLEFLGDALVNFFIVDLLVQYSPNKR 63

Query: 101 PKDLNRR----VSETSNVEISCAVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAI 156
              L+      +SE         +    L L K +R+     +    ++   F A++ A+
Sbjct: 64  EGFLSPLKAYLISEE-----FFNLLAQKLELHKFIRIKRGKIN--ETIIGDVFEALWAAV 116

Query: 157 AVDTG-KCDDAGDVFLR 172
            +D+G   +   ++F +
Sbjct: 117 YIDSGRDANFTRELFYK 133
>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* Length = 170 Back     alignment and structure
>3n3w_A Ribonuclease III; nuclease domain, ribonuclase III, IDP90862, csgid, structura genomics; 2.21A {Campylobacter jejuni subsp} Length = 248 Back     alignment and structure
>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 Length = 265 Back     alignment and structure
>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 Length = 252 Back     alignment and structure
>2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomic protein structure initiative; 2.10A {Mycobacterium tuberculosis} Length = 242 Back     alignment and structure
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A Length = 756 Back     alignment and structure
>3rv0_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 2.29A {Vanderwaltozyma polyspora} Length = 341 Back     alignment and structure
>3rv1_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 1.98A {Vanderwaltozyma polyspora} Length = 246 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query184
3o2r_A170 Ribonuclease III; structural genomics, center for 100.0
3n3w_A248 Ribonuclease III; nuclease domain, ribonuclase III 100.0
2nug_A221 Ribonuclease III, RNAse III; dsRNA, RNA interferen 100.0
3c4b_A265 Endoribonuclease dicer; RNAse, dsRNA binding prote 100.0
3rv1_A246 K. polysporus DCR1; RNAse III enzyme, RNA binding 100.0
1o0w_A252 Ribonuclease III, RNAse III; TM1102, structural ge 100.0
2a11_A242 Ribonuclease III, RNAse III; nuclease domain, stru 100.0
3rv0_A341 K. polysporus DCR1; RNAse III enzyme, RNA binding 100.0
2qvw_A756 GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral 100.0
2qvw_A 756 GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral 99.94
1u61_A138 Hypothetical protein; structural genomics, PSI, pr 99.9
2gsl_A137 Hypothetical protein; alpha-helical protein, struc 99.86
1ztd_A133 Hypothetical protein PFU-631545-001; structural ge 91.01
>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* Back     alignment and structure
Probab=100.00  E-value=5.9e-41  Score=265.42  Aligned_cols=144  Identities=30%  Similarity=0.380  Sum_probs=131.0

Q ss_pred             CCchHHHHHHHHHHhCCCCCCHHHHHHHHcCCCCCC-CcchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcc
Q 029991           35 SSPFATALETLQKQIGYTFKSIGLLRRAMTHSSFSE-ENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSN  113 (184)
Q Consensus        35 ~~~~~~~l~~le~~lgy~F~~~~LL~~AlTh~S~~~-~~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs  113 (184)
                      .+|.-+.+.+++++|||+|+|++|+.+||||+||.. .+|||||||||+||++++++++|.+||+.++|.|+.+|+.+||
T Consensus        21 ~~~~m~~l~~le~~lgy~F~d~~LL~~AlTH~S~~~~~~neRLEfLGDaVL~l~vs~~L~~~~P~~~eg~Lt~~r~~lVs  100 (170)
T 3o2r_A           21 QSNAMKNIEKLEQSLTYEFKDKNLLIHALTHKSFKKSYNNERLEFLGDAVLDLVVGEYLFHKFAKDAEGDLSKLRAALVN  100 (170)
T ss_dssp             ------CHHHHHHHHTCCCSSHHHHHHHTBCTTSSTTCCSHHHHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHSS
T ss_pred             CCccHHHHHHHHHHhCCCCCCHHHHHHHhcCCCCCCCcchHHHHHHHHHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHC
Confidence            344445599999999999999999999999999987 5999999999999999999999999999999999999999999


Q ss_pred             cchhHHHHHHhhCccchhhcCCCCC----CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhcc
Q 029991          114 VEISCAVDGMHLGLQKVVRVSPKTN----STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGK  180 (184)
Q Consensus       114 ~n~~La~ia~~lgL~~~i~~~~~~~----~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~  180 (184)
                       |++|+.+|+++||++++++++++.    +..++++||+|||+|||||+|+| +++|++|+.++|.|.+..
T Consensus       101 -~~~La~ia~~lgL~~~l~~~~~~~~~~~~~~~~ilad~fEAliGAiylD~G-~~~a~~~i~~~~~~~~~~  169 (170)
T 3o2r_A          101 -EKSFAKIANSLNLGDFILMSVAEENNGGKEKPSILSDALEAIIGAIHLEAG-FEFAKTIALRLIEKNFPQ  169 (170)
T ss_dssp             -HHHHHHHHHHTTGGGTCBCCHHHHHTTGGGCHHHHHHHHHHHHHHHHHHHC-HHHHHHHHHHHHHHHCTT
T ss_pred             -HHHHHHHHHHcCcHHhhhcCcchhhcCCCCcchHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHhc
Confidence             999999999999999999987542    56789999999999999999999 999999999999998764
>3n3w_A Ribonuclease III; nuclease domain, ribonuclase III, IDP90862, csgid, structura genomics; 2.21A {Campylobacter jejuni subsp} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>3rv1_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 1.98A {Vanderwaltozyma polyspora} Back     alignment and structure
>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 Back     alignment and structure
>2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomic protein structure initiative; 2.10A {Mycobacterium tuberculosis} Back     alignment and structure
>3rv0_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 2.29A {Vanderwaltozyma polyspora} Back     alignment and structure
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A Back     alignment and structure
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A Back     alignment and structure
>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 Back     alignment and structure
>2gsl_A Hypothetical protein; alpha-helical protein, structural genomics, PSI, protein STR initiative; 2.60A {Fusobacterium nucleatum subsp} Back     alignment and structure
>1ztd_A Hypothetical protein PFU-631545-001; structural genomics, southeast collaboratory for structural genomics, secsg; 2.00A {Pyrococcus furiosus} SCOP: a.149.1.2 Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 184
d2nuga1148 a.149.1.1 (A:3-150) RNase III endonuclease catalyt 9e-17
d1o0wa1169 a.149.1.1 (A:-1-167) RNase III endonuclease cataly 6e-14
d1u61a_127 a.149.1.1 (A:) Hypothetical protein BC0111 {Bacill 6e-04
>d2nuga1 a.149.1.1 (A:3-150) RNase III endonuclease catalytic domain {Aquifex aeolicus [TaxId: 63363]} Length = 148 Back     information, alignment and structure

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]

 Score = 71.4 bits (174), Expect = 9e-17
 Identities = 33/133 (24%), Positives = 65/133 (48%), Gaps = 5/133 (3%)

Query: 42  LETLQKQIGYTFKSIGLLRRAMTHSSFS-EENNRALGILGGYVIDTSVSLRLLNKDIDIS 100
           LE L+K++GYTFK   LL +A+TH S+S +E+   L  LG  +++  +   L+    +  
Sbjct: 2   LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETLEFLGDALVNFFIVDLLVQYSPNKR 61

Query: 101 PKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDT 160
              L+   +   + E    +    L L K +R+          ++   F A++ A+ +D+
Sbjct: 62  EGFLSPLKAYLISEEF-FNLLAQKLELHKFIRIKR--GKINETIIGDVFEALWAAVYIDS 118

Query: 161 GK-CDDAGDVFLR 172
           G+  +   ++F +
Sbjct: 119 GRDANFTRELFYK 131
>d1o0wa1 a.149.1.1 (A:-1-167) RNase III endonuclease catalytic domain {Thermotoga maritima [TaxId: 2336]} Length = 169 Back     information, alignment and structure
>d1u61a_ a.149.1.1 (A:) Hypothetical protein BC0111 {Bacillus cereus [TaxId: 1396]} Length = 127 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query184
d2nuga1148 RNase III endonuclease catalytic domain {Aquifex a 100.0
d1o0wa1169 RNase III endonuclease catalytic domain {Thermotog 100.0
d1u61a_127 Hypothetical protein BC0111 {Bacillus cereus [TaxI 99.89
d1ztda1124 Hypothetical protein PF0609 {Pyrococcus furiosus [ 90.31
>d2nuga1 a.149.1.1 (A:3-150) RNase III endonuclease catalytic domain {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
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=100.00  E-value=4.9e-40  Score=252.51  Aligned_cols=137  Identities=25%  Similarity=0.394  Sum_probs=128.3

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHcCCCCCC-CcchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccchhHHH
Q 029991           42 LETLQKQIGYTFKSIGLLRRAMTHSSFSE-ENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAV  120 (184)
Q Consensus        42 l~~le~~lgy~F~~~~LL~~AlTh~S~~~-~~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~~La~  120 (184)
                      ++++|++|||+|+|++||.+||||+||.. .+|||||||||+||++++++|+|.+||+.++|.++.+|+.++| |.+|+.
T Consensus         2 l~~le~~igy~F~n~~LL~~Alth~S~~~~~~~erLeflGDavl~~~v~~~l~~~~p~~~~g~lt~~r~~lvs-n~~La~   80 (148)
T d2nuga1           2 LEQLEKKLGYTFKDKSLLEKALTHVSYSKKEHYETLEFLGDALVNFFIVDLLVQYSPNKREGFLSPLKAYLIS-EEFFNL   80 (148)
T ss_dssp             HHHHHHHHTCCCSSHHHHHHHHBCTTTCSSSCSHHHHHHHHHHHHHHHHHHHHHTCTTCCHHHHHHHHHHHTS-HHHHHH
T ss_pred             HHHHHHHHCCccCCHHHHHHHhcCcCcCCCcchHHHHHHHHHHHhhhhHHHHHhhCCCcchHHHHHHHHHhhh-hhHhhh
Confidence            67899999999999999999999999986 4999999999999999999999999999999999999999999 999999


Q ss_pred             HHHhhCccchhhcCCCCCCCCcchHHhHHHHHHHHHhHhCCC-hHHHHHHHHHhhhhhhccc
Q 029991          121 DGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAIFGAIAVDTGK-CDDAGDVFLRVHSGEVGKA  181 (184)
Q Consensus       121 ia~~lgL~~~i~~~~~~~~~~~kvlad~fEAliGAIylD~G~-~~~a~~~v~~~~~~~l~~~  181 (184)
                      +|.++||+++++.+++  ...++++||+|||+|||||+|+|. .+.+++|+.++|.+.+.++
T Consensus        81 ~a~~lgl~~~i~~~~~--~~~~kilad~~EAiiGAiylD~g~~~~~~~~~i~~l~~~~i~~~  140 (148)
T d2nuga1          81 LAQKLELHKFIRIKRG--KINETIIGDVFEALWAAVYIDSGRDANFTRELFYKLFKEDILSA  140 (148)
T ss_dssp             HHHTTTGGGTCBSCTT--CCCHHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHhccc--cchhhhhHHHHHHHHHHhhhccCCCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998865  457899999999999999999995 6779999999999887654
>d1u61a_ a.149.1.1 (A:) Hypothetical protein BC0111 {Bacillus cereus [TaxId: 1396]} Back     information, alignment and structure
>d1ztda1 a.149.1.2 (A:2-125) Hypothetical protein PF0609 {Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure