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 Query 100
cd11372 199
cd11372, RNase_PH_RRP46, RRP46 subunit of eukaryot
8e-33 cd11358 218
cd11358, RNase_PH, RNase PH-like 3'-5' exoribonucl
8e-14 pfam01138 129
pfam01138, RNase_PH, 3' exoribonuclease family, do
7e-13 cd11370 226
cd11370, RNase_PH_RRP41, RRP41 subunit of eukaryot
1e-10 PLN00207 891
PLN00207, PLN00207, polyribonucleotide nucleotidyl
8e-10 COG0689 230
COG0689, Rph, RNase PH [Translation, ribosomal str
3e-09 TIGR02065 230
TIGR02065, ECX1, archaeal exosome-like complex exo
1e-08 PRK03983 244
PRK03983, PRK03983, exosome complex exonuclease Rr
7e-08 TIGR03591 684
TIGR03591, polynuc_phos, polyribonucleotide nucleo
1e-07 PRK11824 693
PRK11824, PRK11824, polynucleotide phosphorylase/p
6e-07 TIGR02696 719
TIGR02696, pppGpp_PNP, guanosine pentaphosphate sy
2e-05 COG1185 692
COG1185, Pnp, Polyribonucleotide nucleotidyltransf
2e-05 PRK00173 238
PRK00173, rph, ribonuclease PH; Reviewed
8e-05 cd11367 272
cd11367, RNase_PH_RRP42, RRP42 subunit of eukaryot
2e-04 cd11364 223
cd11364, RNase_PH_PNPase_2, Polyribonucleotide nuc
4e-04 cd11365 256
cd11365, RNase_PH_archRRP42, RRP42 subunit of arch
5e-04 PRK04282 271
PRK04282, PRK04282, exosome complex RNA-binding pr
6e-04 TIGR01966 236
TIGR01966, RNasePH, ribonuclease PH
7e-04 COG2123 272
COG2123, COG2123, RNase PH-related exoribonuclease
0.004 cd11368 259
cd11368, RNase_PH_RRP45, RRP45 subunit of eukaryot
0.004
>gnl|CDD|206777 cd11372, RNase_PH_RRP46, RRP46 subunit of eukaryotic exosome
Back Hide alignment and domain information
Score = 112 bits (282), Expect = 8e-33
Identities = 42/95 (44%), Positives = 62/95 (65%), Gaps = 9/95 (9%)
Query: 14 LRPLACYCSILHRAHGSASWSQGDTKVLAA---------KNENPEKVSIEVIWKSKTGQI 64
LRPL+C +L RA GSA +SQGDT VLAA + E P++ ++EVI + K+G
Sbjct: 1 LRPLSCELGLLSRADGSARFSQGDTSVLAAVYGPIEVKLRKELPDRATLEVIVRPKSGLP 60
Query: 65 GKQEKEYEMILKRTLQSICILTINPNTTTSVIIQV 99
G +EK E++L+ TL+ I +L ++P T SV++QV
Sbjct: 61 GVKEKLLELLLRSTLEPIILLHLHPRTLISVVLQV 95
The RRP46 subunit of eukaryotic exosome is a member of the RNase_PH family, named after the bacterial Ribonuclease PH, a 3'-5' exoribonuclease. Structurally all members of this family form hexameric rings (trimers of Rrp41-Rrp45, Rrp46-Rrp43, and Mtr3-Rrp42 dimers). The eukaryotic exosome core is composed of six individually encoded RNase PH-like subunits and three additional proteins (Rrp4, Csl4 and Rrp40) that form a stable cap and contain RNA-binding domains. The RNase PH-like subunits are no longer phosphorolytic enzymes, the exosome directly associates with Rrp44 and Rrp6, hydrolytic exoribonucleases related to bacterial RNase II/R and RNase D. The exosome plays an important role in RNA turnover. It plays a crucial role in the maturation of stable RNA species such as rRNA, snRNA and snoRNA, quality control of mRNA, and the degradation of RNA processing by-products and non-coding transcripts. Length = 199
>gnl|CDD|206766 cd11358, RNase_PH, RNase PH-like 3'-5' exoribonucleases
Back Show alignment and domain information
Score = 63.5 bits (155), Expect = 8e-14
Identities = 31/106 (29%), Positives = 49/106 (46%), Gaps = 20/106 (18%)
Query: 14 LRPLACYCSILHRAHGSASWSQGDTKVLAA---------KNENPEKVSIEVIWKSKTGQ- 63
RP+ +L++A GSA G+TKV+ A K E P+K ++ V + G
Sbjct: 1 FRPVEIETGVLNQADGSALVKLGNTKVICAVTGPIVEPDKLERPDKGTLYVNVEISPGAV 60
Query: 64 -------IGKQEKEYEMILKRTLQSICILTIN---PNTTTSVIIQV 99
G +E E +L+RT+++ IL + P+ V IQV
Sbjct: 61 GERRQGPPGDEEMEISRLLERTIEASVILDKSTRKPSWVLYVDIQV 106
RNase PH-like 3'-5' exoribonucleases are enzymes that catalyze the 3' to 5' processing and decay of RNA substrates. Evolutionarily related members can be fond in prokaryotes, archaea, and eukaryotes. Bacterial ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain and is involved in mRNA degradation in a 3'-5' direction. Archaeal exosomes contain two individually encoded RNase PH-like 3'-5' exoribonucleases and are required for 3' processing of the 5.8S rRNA. The eukaryotic exosome core is composed of six individually encoded RNase PH-like subunits, but it is not a phosphorolytic enzyme per se; it directly associates with Rrp44 and Rrp6, which are hydrolytic exoribonucleases related to bacterial RNase II/R and RNase D. All members of the RNase PH-like family form ring structures by oligomerization of six domains or subunits, except for a total of 3 subunits with tandem repeats in the case of PNPase, with a central channel through which the RNA substrate must pass to gain access to the phosphorolytic active sites. Length = 218
>gnl|CDD|216323 pfam01138, RNase_PH, 3' exoribonuclease family, domain 1
Back Show alignment and domain information
Score = 59.5 bits (145), Expect = 7e-13
Identities = 25/104 (24%), Positives = 43/104 (41%), Gaps = 17/104 (16%)
Query: 13 QLRPLACYCSILHRAHGSASWSQGDTKVLAA-----------KNENPEKVSIEVIWKS-- 59
+LRP+ +L +A GSA GDTKVLA ++ P ++++E
Sbjct: 1 ELRPIEIETGVLSQADGSALVELGDTKVLATVTGPIEPPQKERDFFPGELTVEYEESPFA 60
Query: 60 ----KTGQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQV 99
G+ ++E E ++ R L+ L P + + V
Sbjct: 61 SGERPEGRPSEREIELSRLIDRALRPSIPLEGYPRWEIRIDVTV 104
This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components contain a copy of this domain. A hypothetical protein from S. pombe appears to belong to an uncharacterized subfamily. This subfamily is found in both eukaryotes and archaebacteria. Length = 129
>gnl|CDD|206775 cd11370, RNase_PH_RRP41, RRP41 subunit of eukaryotic exosome
Back Show alignment and domain information
Score = 55.2 bits (134), Expect = 1e-10
Identities = 27/114 (23%), Positives = 51/114 (44%), Gaps = 19/114 (16%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA----------KNENPEKVSIE 54
R DGR PN+LR + C + A GSA QG+TKVLAA ++ +
Sbjct: 3 RLDGRRPNELRRIRCRIGVFSSADGSAYLEQGNTKVLAAVYGPHEPRNRSQALHDRAVVN 62
Query: 55 V---------IWKSKTGQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQV 99
+ + G+ ++ E + +++T +++ + + P + + +QV
Sbjct: 63 CEYSMATFSTGERKRRGKGDRRSTELSLAIRQTFEAVILTHLYPRSQIDIYVQV 116
The RRP41 subunit of eukaryotic exosome is a member of the RNase_PH family, named after the bacterial Ribonuclease PH, a 3'-5' exoribonuclease. Structurally all members of this family form hexameric rings (trimers of Rrp41-Rrp45, Rrp46-Rrp43, and Mtr3-Rrp42 dimers). The eukaryotic exosome core is composed of six individually encoded RNase PH-like subunits and three additional proteins (Rrp4, Csl4 and Rrp40) that form a stable cap and contain RNA-binding domains. The RNase PH-like subunits are no longer phosphorolytic enzymes, the exosome directly associates with Rrp44 and Rrp6, hydrolytic exoribonucleases related to bacterial RNase II/R and RNase D. The exosome plays an important role in RNA turnover. It plays a crucial role in the maturation of stable RNA species such as rRNA, snRNA and snoRNA, quality control of mRNA, and the degradation of RNA processing by-products and non-coding transcripts. Length = 226
>gnl|CDD|215104 PLN00207, PLN00207, polyribonucleotide nucleotidyltransferase; Provisional
Back Show alignment and domain information
Score = 53.7 bits (129), Expect = 8e-10
Identities = 19/39 (48%), Positives = 30/39 (76%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA 43
R+DGR P+++RP+ C +L RAHGSA +++G+T+ LA
Sbjct: 439 RSDGRTPDEIRPINSSCGLLPRAHGSALFTRGETQALAV 477
>gnl|CDD|223761 COG0689, Rph, RNase PH [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Score = 51.5 bits (124), Expect = 3e-09
Identities = 26/114 (22%), Positives = 47/114 (41%), Gaps = 19/114 (16%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA------------KNENPEKVS 52
R DGR P++LRP+ +L A GS+ G+TKV+ + ++
Sbjct: 9 RPDGRKPDELRPIKITRGVLKHAEGSSLIEFGNTKVICTVSGPREPVPRFLRGTGKGWLT 68
Query: 53 IEVIWKSKTGQIGKQ-------EKEYEMILKRTLQSICILTINPNTTTSVIIQV 99
E ++ K+ KE ++ R L+++ L + P +T + V
Sbjct: 69 AEYGMLPRSTDERKKREADRGRTKEISRLIGRALRAVIDLELLPESTIDIDCDV 122
>gnl|CDD|131120 TIGR02065, ECX1, archaeal exosome-like complex exonuclease 1
Back Show alignment and domain information
Score = 49.7 bits (119), Expect = 1e-08
Identities = 19/39 (48%), Positives = 24/39 (61%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA 43
R DGR P++LRP+ +L A GSA G TK+LAA
Sbjct: 9 RLDGRKPDELRPIKIEAGVLKNADGSAYLEFGGTKILAA 47
This family contains the archaeal protein orthologous to the eukaryotic exosome protein Rrp41. It is somewhat more distantly related to the bacterial protein ribonuclease PH. An exosome-like complex has been demonstrated experimentally for the Archaea in Sulfolobus solfataricus, so members of this family are designated exosome complex exonuclease 1, after usage in SwissProt [Transcription, Degradation of RNA]. Length = 230
>gnl|CDD|235187 PRK03983, PRK03983, exosome complex exonuclease Rrp41; Provisional
Back Show alignment and domain information
Score = 47.7 bits (114), Expect = 7e-08
Identities = 17/39 (43%), Positives = 24/39 (61%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA 43
R DGR P++LRP+ +L A GSA G+ K++AA
Sbjct: 15 RLDGRKPDELRPIKIEVGVLKNADGSAYLEWGNNKIIAA 53
>gnl|CDD|234271 TIGR03591, polynuc_phos, polyribonucleotide nucleotidyltransferase
Back Show alignment and domain information
Score = 47.5 bits (114), Expect = 1e-07
Identities = 15/38 (39%), Positives = 26/38 (68%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLA 42
R DGR+ + +RP++ +L R HGSA +++G+T+ L
Sbjct: 311 RIDGRDLDTIRPISIEVGVLPRTHGSALFTRGETQALV 348
Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family) [Transcription, Degradation of RNA]. Length = 684
>gnl|CDD|236995 PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase; Provisional
Back Show alignment and domain information
Score = 45.4 bits (109), Expect = 6e-07
Identities = 15/38 (39%), Positives = 26/38 (68%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLA 42
R DGR +++RP++ +L R HGSA +++G+T+ L
Sbjct: 315 RIDGRKLDEIRPISIEVGVLPRTHGSALFTRGETQALV 352
>gnl|CDD|131743 TIGR02696, pppGpp_PNP, guanosine pentaphosphate synthetase I/polynucleotide phosphorylase
Back Show alignment and domain information
Score = 41.0 bits (96), Expect = 2e-05
Identities = 15/37 (40%), Positives = 23/37 (62%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVL 41
R DGR +RPL ++ R HGSA + +G+T++L
Sbjct: 336 RIDGRGVTDIRPLDAEVQVIPRVHGSALFERGETQIL 372
Sohlberg, et al present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase. Length = 719
>gnl|CDD|224106 COG1185, Pnp, Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Score = 41.0 bits (97), Expect = 2e-05
Identities = 15/39 (38%), Positives = 25/39 (64%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA 43
R DGR +++RP+ +L R HGSA +++G+T+ L
Sbjct: 313 RIDGRFGDEVRPIGIEVGVLPRTHGSALFTRGETQALVV 351
>gnl|CDD|178914 PRK00173, rph, ribonuclease PH; Reviewed
Back Show alignment and domain information
Score = 39.3 bits (93), Expect = 8e-05
Identities = 17/37 (45%), Positives = 20/37 (54%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVL 41
R DGR +QLRP+ + A GS GDTKVL
Sbjct: 2 RPDGRAADQLRPVTITRNFTKHAEGSVLVEFGDTKVL 38
>gnl|CDD|206772 cd11367, RNase_PH_RRP42, RRP42 subunit of eukaryotic exosome
Back Show alignment and domain information
Score = 38.0 bits (89), Expect = 2e-04
Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 8/59 (13%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLA--------AKNENPEKVSIEV 55
R DGR+ RP+ +L +GSA G+T VL E P K +E
Sbjct: 19 RNDGRSRLDYRPIELETGVLSNTNGSARVRLGNTDVLVGVKAEVGSPDPETPNKGRLEF 77
The RRP42 subunit of eukaryotic exosome is a member of the RNase_PH family, named after the bacterial Ribonuclease PH, a 3'-5' exoribonuclease. Structurally all members of this family form hexameric rings (trimers of Rrp41-Rrp45, Rrp46-Rrp43, and Mtr3-Rrp42 dimers). The eukaryotic exosome core is composed of six individually encoded RNase PH-like subunits and three additional proteins (Rrp4, Csl4 and Rrp40) that form a stable cap and contain RNA-binding domains. The RNase PH-like subunits are no longer phosphorolytic enzymes, the exosome directly associates with Rrp44 and Rrp6, hydrolytic exoribonucleases related to bacterial RNase II/R and RNase D. The exosome plays an important role in RNA turnover. It plays a crucial role in the maturation of stable RNA species such as rRNA, snRNA and snoRNA, quality control of mRNA, and the degradation of RNA processing by-products and non-coding transcripts. Length = 272
>gnl|CDD|206769 cd11364, RNase_PH_PNPase_2, Polyribonucleotide nucleotidyltransferase, repeat 2
Back Show alignment and domain information
Score = 37.1 bits (87), Expect = 4e-04
Identities = 13/30 (43%), Positives = 23/30 (76%)
Query: 13 QLRPLACYCSILHRAHGSASWSQGDTKVLA 42
++RP++C +L R HGSA +++G+T+VL
Sbjct: 1 EIRPISCEVGLLPRTHGSALFTRGETQVLC 30
Polyribonucleotide nucleotidyltransferase (PNPase) is a member of the RNase_PH family, named after the bacterial Ribonuclease PH, a 3'-5' exoribonuclease. Structurally, all members of this family form hexameric rings. In the case of PNPase the complex is a trimer, since each monomer contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction and in quality control of ribosomal RNA precursors, with the second repeat containing the active site. PNPase is part of the RNA degradosome complex and binds to the scaffolding domain of the endoribonuclease RNase E. Length = 223
>gnl|CDD|206770 cd11365, RNase_PH_archRRP42, RRP42 subunit of archaeal exosome
Back Show alignment and domain information
Score = 37.2 bits (87), Expect = 5e-04
Identities = 14/38 (36%), Positives = 22/38 (57%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLA 42
R DGR ++ R + ++ +A GSA G+T+VLA
Sbjct: 17 RIDGRGLDEYRDIEIETGVIPKAEGSALVKLGNTQVLA 54
The RRP42 subunit of the archaeal exosome is a member of the RNase_PH family, named after the bacterial Ribonuclease PH, a 3'-5' exoribonuclease. Structurally all members of this family form hexameric rings (trimers of dimers). In archaea, the ring is formed by three Rrp41:Rrp42 dimers. The central chamber within the ring contains three phosphorolytic active sites located in an Rrp41 pocket at the interface between Rrp42 and Rrp41. The ring is capped by three copies of Rrp4 and/or Csl4 which contain putative RNA interaction domains. The archaeal exosome degrades single-stranded RNA (ssRNA) in the 3'-5' direction, but also can catalyze the reverse reaction of adding nucleoside diphosphates to the 3'-end of RNA which has been shown to lead to the formation of poly-A-rich tails on RNA. It is required for 3' processing of the 5.8S rRNA. Length = 256
>gnl|CDD|235268 PRK04282, PRK04282, exosome complex RNA-binding protein Rrp42; Provisional
Back Show alignment and domain information
Score = 36.8 bits (86), Expect = 6e-04
Identities = 15/38 (39%), Positives = 23/38 (60%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLA 42
R DGR ++ RP+ ++ +A GSA G+T+VLA
Sbjct: 25 RIDGRKLDEYRPIEIETGVIKKAEGSALVKLGNTQVLA 62
>gnl|CDD|131021 TIGR01966, RNasePH, ribonuclease PH
Back Show alignment and domain information
Score = 36.6 bits (85), Expect = 7e-04
Identities = 18/37 (48%), Positives = 22/37 (59%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVL 41
R DGR P+QLRP++ L A GS G+TKVL
Sbjct: 1 RPDGRKPDQLRPVSITRDFLKHAEGSVLIEFGNTKVL 37
This bacterial enzyme, ribonuclease PH, performs the final 3'-trimming and modification of tRNA precursors. This model is restricted absolutely to bacteria. Related families outside the model include proteins described as probable exosome complex exonucleases (rRNA processing) and polyribonucleotide nucleotidyltransferases (mRNA degradation). The most divergent member within the family is RNase PH from Deinococcus radiodurans [Transcription, RNA processing]. Length = 236
>gnl|CDD|225034 COG2123, COG2123, RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Score = 34.6 bits (80), Expect = 0.004
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLA 42
R DGR+ ++ RPL ++ +A+GSA G+T+V+
Sbjct: 24 RIDGRSFDEFRPLEIETGVIPKANGSALVKLGNTQVVV 61
>gnl|CDD|206773 cd11368, RNase_PH_RRP45, RRP45 subunit of eukaryotic exosome
Back Show alignment and domain information
Score = 34.4 bits (80), Expect = 0.004
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 12/53 (22%)
Query: 5 RADGRNPNQLRPLACYCSI-LHRAHGSASWSQGDTKVLAAKNENPEKVSIEVI 56
R DGR ++ RP+ I +G S G T+VLA +VS E++
Sbjct: 18 RLDGRGLDEFRPI----KITFGLEYGCVEVSLGKTRVLA-------QVSCEIV 59
The RRP45 subunit of eukaryotic exosome is a member of the RNase_PH family, named after the bacterial Ribonuclease PH, a 3'-5' exoribonuclease. Structurally all members of this family form hexameric rings (trimers of Rrp41-Rrp45, Rrp46-Rrp43, and Mtr3-Rrp42 dimers). The eukaryotic exosome core is composed of six individually encoded RNase PH-like subunits and three additional proteins (Rrp4, Csl4 and Rrp40) that form a stable cap and contain RNA-binding domains. The RNase PH-like subunits are no longer phosphorolytic enzymes, the exosome directly associates with Rrp44 and Rrp6, hydrolytic exoribonucleases related to bacterial RNase II/R and RNase D. The exosome plays an important role in RNA turnover. It plays a crucial role in the maturation of stable RNA species such as rRNA, snRNA and snoRNA, quality control of mRNA, and the degradation of RNA processing by-products and non-coding transcripts. Length = 259
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
ID Alignment Graph Length
Definition
Probability Query
100
KOG1068 245
consensus Exosomal 3'-5' exoribonuclease complex,
99.96 TIGR02065 230
ECX1 archaeal exosome-like complex exonuclease 1.
99.95 PRK03983 244
exosome complex exonuclease Rrp41; Provisional
99.94 COG0689 230
Rph RNase PH [Translation, ribosomal structure and
99.93 PRK00173 238
rph ribonuclease PH; Reviewed
99.92 TIGR01966 236
RNasePH ribonuclease PH. This bacterial enzyme, ri
99.91 KOG1069 217
consensus Exosomal 3'-5' exoribonuclease complex,
99.91 TIGR03591 684
polynuc_phos polyribonucleotide nucleotidyltransfe
99.9 PRK11824 693
polynucleotide phosphorylase/polyadenylase; Provis
99.89 TIGR02696 719
pppGpp_PNP guanosine pentaphosphate synthetase I/p
99.88 PF01138 132
RNase_PH: 3' exoribonuclease family, domain 1 This
99.85 PLN00207 891
polyribonucleotide nucleotidyltransferase; Provisi
99.84 PRK04282 271
exosome complex RNA-binding protein Rrp42; Provisi
99.84 COG2123 272
RNase PH-related exoribonuclease [Translation, rib
99.71 KOG1612 288
consensus Exosomal 3'-5' exoribonuclease complex,
99.62 KOG1067 760
consensus Predicted RNA-binding polyribonucleotide
99.58 TIGR03591 684
polynuc_phos polyribonucleotide nucleotidyltransfe
99.44 COG1185 692
Pnp Polyribonucleotide nucleotidyltransferase (pol
99.4 PRK11824 693
polynucleotide phosphorylase/polyadenylase; Provis
99.38 KOG1614 291
consensus Exosomal 3'-5' exoribonuclease complex,
99.3 KOG1613 298
consensus Exosomal 3'-5' exoribonuclease complex,
99.24 PLN00207 891
polyribonucleotide nucleotidyltransferase; Provisi
98.74 TIGR02696 719
pppGpp_PNP guanosine pentaphosphate synthetase I/p
97.65 COG1185 692
Pnp Polyribonucleotide nucleotidyltransferase (pol
97.03 KOG1067 760
consensus Predicted RNA-binding polyribonucleotide
93.59 PF02962 124
CHMI: 5-carboxymethyl-2-hydroxymuconate isomerase;
92.0 PRK15031 126
5-carboxymethyl-2-hydroxymuconate delta-isomerase;
88.44
>KOG1068 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp41 and related exoribonucleases [Translation, ribosomal structure and biogenesis]
Back Hide alignment and domain information
Probab=99.96 E-value=3.9e-29 Score=172.24 Aligned_cols=99 Identities=31% Similarity=0.518 Sum_probs=89.0
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe----e------CCCCCceEEEEEee--CCC-------C
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA----K------NENPEKVSIEVIWK--SKT-------G 62 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~----~------~~~~~~~~l~v~~~--p~~-------g 62 (100)
++.|.|||+++++|+|.++.|++.+++||||+++|||||+|. + ...++++.++|.|. +|+ .
T Consensus 11 eg~r~dgRr~~elR~i~~~~g~~~~a~GSay~E~GnTKVl~aV~GPre~~~~~~~~~~~a~lnc~~~~a~Fst~~r~~~~ 90 (245)
T KOG1068|consen 11 EGLRTDGRRPNELRRIYARIGVLTQADGSAYMEQGNTKVLCAVYGPREIRGKSARRPDKAVLNCEVSSAQFSTGDRKKRP 90 (245)
T ss_pred cccccCCCChhHhhhhhhhcCccccCCccchhhcCCeEEEEEEeCCcccccccccccccceEEEEEeeeccccchhccCC
Confidence 689999999999999999999999999999999999999999 1 23578899998884 332 2
Q ss_pred CCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 63 QIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 63 ~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
.++++++|++.+|+++|+++|++++|||++|||+|+||
T Consensus 91 ~~~rr~~e~s~~L~~afe~~I~~~lyPrsqIDI~v~Vl 128 (245)
T KOG1068|consen 91 KGDRREKELSLMLQQAFEPVILLELYPRSQIDIYVQVL 128 (245)
T ss_pred CccHHHHHHHHHHHHHHHHHHHhhhCccccceEEEEEE
Confidence 45789999999999999999999999999999999996
>TIGR02065 ECX1 archaeal exosome-like complex exonuclease 1
Back Show alignment and domain information
Probab=99.95 E-value=9.6e-27 Score=161.03 Aligned_cols=99 Identities=29% Similarity=0.461 Sum_probs=87.2
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e---------CCCCCceEEEEEee--CCCC------C
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K---------NENPEKVSIEVIWK--SKTG------Q 63 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~---------~~~~~~~~l~v~~~--p~~g------~ 63 (100)
+++|+|||+++|+|++++++|++++|||||++++|+|+|+|+ . .+.++++.|+|+|. |+++ .
T Consensus 6 ~~~R~DGR~~~e~R~~~~~~g~~~~a~GSa~~~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~a~~~~~~~~ 85 (230)
T TIGR02065 6 DGVRLDGRKPDELRPIKIEAGVLKNADGSAYVEFGGTKIIAAVYGPREMHPRHLQLPDRAVLRVRYHMAPFSTDERKRPG 85 (230)
T ss_pred CCcCCCCCCcccccCeEEEECCCCCCCeEEEEEECCcEEEEEEeCCCccccccccCCCceEEEEEEEeCCcccCCccCCC
Confidence 588999999999999999999999999999999999999999 1 13467888887764 6432 3
Q ss_pred CChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 64 IGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 64 ~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
++.++.+++.+|+++|+++|++++||+++|+|+++||
T Consensus 86 ~~~~~~~~s~~l~~~l~~~i~~~~~p~~~i~i~v~vl 122 (230)
T TIGR02065 86 PSRREIEISKVIREALEPAILLEQFPRTAIDVFIEVL 122 (230)
T ss_pred CCccHHHHHHHHHHHHHHHhChhhcCCeEEEEEEEEE
Confidence 5678899999999999999999999999999999986
This family contains the archaeal protein orthologous to the eukaryotic exosome protein Rrp41. It is somewhat more distantly related to the bacterial protein ribonuclease PH. An exosome-like complex has been demonstrated experimentally for the Archaea in Sulfolobus solfataricus, so members of this family are designated exosome complex exonuclease 1, after usage in SwissProt.
>PRK03983 exosome complex exonuclease Rrp41; Provisional
Back Show alignment and domain information
Probab=99.94 E-value=3.9e-26 Score=159.17 Aligned_cols=99 Identities=27% Similarity=0.452 Sum_probs=86.9
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e---------CCCCCceEEEEEe--eCCCC------C
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K---------NENPEKVSIEVIW--KSKTG------Q 63 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~---------~~~~~~~~l~v~~--~p~~g------~ 63 (100)
+++|+|||+++++|++++++|++++|||||++++|+|+|+|+ . .+.++++.++|++ .|+++ .
T Consensus 12 ~~~R~DGR~~~~~R~i~i~~G~l~~a~GSa~v~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~p~~~~~~~~~~ 91 (244)
T PRK03983 12 DGLRLDGRKPDELRPIKIEVGVLKNADGSAYLEWGNNKIIAAVYGPREMHPRHLQLPDRAVLRVRYNMAPFSVDERKRPG 91 (244)
T ss_pred CCCCCCCCCcCcccceEEEeCCCCCCCeEEEEEECCeEEEEEEecCCccccccccCCCcEEEEEEEEcCCCccccccCCC
Confidence 689999999999999999999999999999999999999999 2 1356778887765 46543 3
Q ss_pred CChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 64 IGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 64 ~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
++.++.+++.+|+++|+++|++++||+++|+|+++||
T Consensus 92 ~~~~~~~~s~~l~~~l~~~i~~~~~p~~~I~I~i~VL 128 (244)
T PRK03983 92 PDRRSIEISKVIREALEPAIMLELFPRTVIDVFIEVL 128 (244)
T ss_pred CChhHHHHHHHHHHHHHHhccHHhCCCeEEEEEEEEE
Confidence 4577889999999999999999999999999999986
>COG0689 Rph RNase PH [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.93 E-value=4.5e-25 Score=152.07 Aligned_cols=99 Identities=25% Similarity=0.410 Sum_probs=87.2
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e---------CCCCCceEEEEEee--CCCC----C--
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K---------NENPEKVSIEVIWK--SKTG----Q-- 63 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~---------~~~~~~~~l~v~~~--p~~g----~-- 63 (100)
++.|+|||.++|+|||+++.|++++|+||+++++|+|||+|+ . ...++++.+.++|. |++. .
T Consensus 6 ~~~R~dgR~~delR~i~~~~~~~~~a~GS~~~~~G~tkVic~vsGp~e~~p~~l~~~~~g~~t~ey~m~p~sT~~R~~~~ 85 (230)
T COG0689 6 DGMRPDGRKPDELRPIKITRGVLKHAEGSSLIEFGNTKVICTVSGPREPVPRFLRGTGKGWLTAEYGMLPRSTDERKKRE 85 (230)
T ss_pred cCcCCCCCCcccccceEEEeccccCCCccEEEEeCCeEEEEEEecCCCCCChhhcCCCceEEEEEEeccccccccccccc
Confidence 578999999999999999999999999999999999999999 2 23467799998885 6654 1
Q ss_pred CCh-hHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 64 IGK-QEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 64 ~~~-~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
+++ +++|++.+|.++|+++|++++||+++|+|.++||
T Consensus 86 ~~~gR~~eisrli~~al~~~i~L~~~p~~~I~i~~dVl 123 (230)
T COG0689 86 ADRGRTKEISRLIGRALRAVIDLELLPESTIDIDCDVL 123 (230)
T ss_pred ccccchhHHHHHHHHHHHHHhhhhhcCccEEEEEEEEE
Confidence 122 7899999999999999999999999999999986
>PRK00173 rph ribonuclease PH; Reviewed
Back Show alignment and domain information
Probab=99.92 E-value=1.7e-24 Score=150.49 Aligned_cols=97 Identities=26% Similarity=0.364 Sum_probs=84.2
Q ss_pred CCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e-------C-CCCCceEEEEEee--CCC-----------
Q 047153 4 DRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K-------N-ENPEKVSIEVIWK--SKT----------- 61 (100)
Q Consensus 4 ~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~-------~-~~~~~~~l~v~~~--p~~----------- 61 (100)
+|+|||+++|+|++++++|++++|||||++++|+|+|+|+ + . ..++++.|+|+|. |++
T Consensus 1 ~R~DGR~~~e~R~i~~~~g~~~~a~GSa~v~~G~T~Vla~V~~~~~~p~~~~~~~~g~l~v~~~~~p~a~~~~~~~~~~~ 80 (238)
T PRK00173 1 MRPDGRAADQLRPVTITRNFTKHAEGSVLVEFGDTKVLCTASVEEGVPRFLKGQGQGWVTAEYGMLPRATHTRNDREAAK 80 (238)
T ss_pred CCCCCCCcccccCeEEEeCCCCCCCeeEEEEecCcEEEEEEEcCCCCCCccCCCCcEEEEEEEecCCCCCcccccccccC
Confidence 5999999999999999999999999999999999999999 2 1 2356788887774 543
Q ss_pred CCCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 62 GQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 62 g~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
|.++.++.+++.+|.++|+++|+++.||++.|+|.++||
T Consensus 81 g~~~~~~~~~sr~i~r~lr~~i~l~~l~~~~i~v~v~VL 119 (238)
T PRK00173 81 GKQGGRTQEIQRLIGRSLRAVVDLKALGERTITIDCDVI 119 (238)
T ss_pred CCCCccHHHHHHHHHHHHHHhcCHHHcCCeEEEEEEEEE
Confidence 234567899999999999999999999999999999986
>TIGR01966 RNasePH ribonuclease PH
Back Show alignment and domain information
Probab=99.91 E-value=7.8e-24 Score=147.02 Aligned_cols=96 Identities=27% Similarity=0.390 Sum_probs=81.5
Q ss_pred CCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e--C------CCCCceEEEEEe--eCCC-----------C
Q 047153 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K--N------ENPEKVSIEVIW--KSKT-----------G 62 (100)
Q Consensus 5 R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~--~------~~~~~~~l~v~~--~p~~-----------g 62 (100)
|+|||+++|+|++++++|++++|||||++++|+|+|+|+ . . ..++++.++|++ .|++ |
T Consensus 1 R~DGR~~~e~R~i~i~~G~~~~A~GSa~v~~G~T~Vla~V~~~~~~p~~~~~~~~g~l~v~~~~~p~a~~~~~~r~~~~g 80 (236)
T TIGR01966 1 RPDGRKPDQLRPVSITRDFLKHAEGSVLIEFGNTKVLCTASVEEKVPPFLRGSGEGWITAEYGMLPRATQTRNRRESAKG 80 (236)
T ss_pred CCCCCCCCCccCeEEEeCCcCCCCceEEEEecCCEEEEEEEccCccCCcccCCCcEEEEEEEecCCCCCCCCccccccCC
Confidence 899999999999999999999999999999999999998 2 1 124677777665 4643 2
Q ss_pred CCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 63 QIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 63 ~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
.++.++.+++.+|+++|+++|+++.||++.|+|.++||
T Consensus 81 ~~~~~~~e~~~~i~r~lr~~i~l~~l~~~~i~I~v~VL 118 (236)
T TIGR01966 81 KQSGRTQEIQRLIGRALRAVVDLEALGERTIWIDCDVI 118 (236)
T ss_pred CCCccHHHHHHHHHHHHHHhcCHhhcCCeEEEEEEEEE
Confidence 23346789999999999999999999999999999986
This bacterial enzyme, ribonuclease PH, performs the final 3'-trimming and modification of tRNA precursors. This model is restricted absolutely to bacteria. Related families outside the model include proteins described as probable exosome complex exonucleases (rRNA processing) and polyribonucleotide nucleotidyltransferases (mRNA degradation). The most divergent member within the family is RNase PH from Deinococcus radiodurans.
>KOG1069 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp46 [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.91 E-value=2.4e-24 Score=144.75 Aligned_cols=88 Identities=49% Similarity=0.771 Sum_probs=85.3
Q ss_pred CCCceEEEeCCcCCCceEEEEEeCCeEEEEe---------eCCCCCceEEEEEeeCCCCCCChhHHHHHHHHHHHHHHHh
Q 047153 13 QLRPLACYCSILHRAHGSASWSQGDTKVLAA---------KNENPEKVSIEVIWKSKTGQIGKQEKEYEMILKRTLQSIC 83 (100)
Q Consensus 13 e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~---------~~~~~~~~~l~v~~~p~~g~~~~~~~e~~~~l~~~l~~~I 83 (100)
.+|++.++.|+++++||||.|++|+|+|+|+ ++|.++++.++|.|+|..|.++..++.+++.|+++|+++|
T Consensus 4 ~lr~~~cei~iLsr~dGSs~fsqgdT~V~c~V~GP~dvk~r~E~~~katleVi~rp~~G~~~~~eK~~e~iI~~tl~~~I 83 (217)
T KOG1069|consen 4 RLRGIACEISILSRPDGSSEFSQGDTKVICSVYGPIDVKARQEDPEKATLEVIWRPKSGVNGTVEKVLERIIRKTLSKAI 83 (217)
T ss_pred hhhhhhhhhceecCCCCccceecCCcEEEEEeeCCcchhhcccCchhceEEEEEecccCcchHHHHHHHHHHHHHHHHhh
Confidence 7899999999999999999999999999999 5789999999999999999999999999999999999999
Q ss_pred ccCCCCCcEEEEEEEEC
Q 047153 84 ILTINPNTTTSVIIQVW 100 (100)
Q Consensus 84 ~~~~~P~~~i~i~v~v~ 100 (100)
.++.||++.|+|++||+
T Consensus 84 ~l~l~Prt~iqVsiqvv 100 (217)
T KOG1069|consen 84 ILELYPRTTIQVSIQVV 100 (217)
T ss_pred eeeecCCceEEEEEEEE
Confidence 99999999999999985
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase
Back Show alignment and domain information
Probab=99.90 E-value=6.3e-23 Score=159.62 Aligned_cols=98 Identities=26% Similarity=0.430 Sum_probs=84.0
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e----C-C-C--------CCceEEEEEeeCCC-----
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K----N-E-N--------PEKVSIEVIWKSKT----- 61 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~----~-~-~--------~~~~~l~v~~~p~~----- 61 (100)
+++|+|||+++|+||++|++|++++|||||+|++|+|+|+|+ . . + . ..+..++++|.|++
T Consensus 308 ~g~R~DGR~~~e~Rpi~~~~g~l~~a~GSa~~~~G~Tqvl~~vt~g~~~~~~~~~~~~~~~~~~~~~~y~~~pfs~~e~~ 387 (684)
T TIGR03591 308 EGKRIDGRDLDTIRPISIEVGVLPRTHGSALFTRGETQALVVTTLGTERDEQIIDDLEGEYRKRFMLHYNFPPYSVGEVG 387 (684)
T ss_pred CCCCCCCCCCCCcCceEEEeCCCCCCCceEEEEeCCeEEEEEEecCCcccccCCcccCCCccEEEEEEEEcCCCCCCCcC
Confidence 679999999999999999999999999999999999999998 1 1 1 0 12456677788864
Q ss_pred --CCCChhHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEEEC
Q 047153 62 --GQIGKQEKEYEMILKRTLQSICIL-TINPNTTTSVIIQVW 100 (100)
Q Consensus 62 --g~~~~~~~e~~~~l~~~l~~~I~~-~~~P~~~i~i~v~v~ 100 (100)
|.+++++.+++.+++++|+++|++ ++||++ |+|.++||
T Consensus 388 ~~g~~~rrei~~~~l~~ral~~~i~~~~~~p~t-I~v~~~VL 428 (684)
T TIGR03591 388 RVGGPGRREIGHGALAERALKAVLPSEEEFPYT-IRVVSEIL 428 (684)
T ss_pred CCCCCChHHHHHHHHHHHHHHHhcCccccCCeE-EEEEEEEE
Confidence 236789999999999999999996 899997 99999986
Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Back Show alignment and domain information
Probab=99.89 E-value=1.4e-22 Score=157.91 Aligned_cols=98 Identities=24% Similarity=0.421 Sum_probs=83.6
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e----CC----------CCCceEEEEEeeCCC-----
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K----NE----------NPEKVSIEVIWKSKT----- 61 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~----~~----------~~~~~~l~v~~~p~~----- 61 (100)
+++|+|||+++|+||++|++|++++|||||+|++|+|+|+|+ . .+ ...+..++++|.|++
T Consensus 312 ~g~R~DGR~~~e~Rpi~~~~g~l~~a~GSal~~~G~T~Vl~~vt~g~~~~~~~~~~~~~~~~~~~~~~y~~~pfs~~e~~ 391 (693)
T PRK11824 312 EGIRIDGRKLDEIRPISIEVGVLPRTHGSALFTRGETQALVVATLGTLRDEQIIDGLEGEYKKRFMLHYNFPPYSVGETG 391 (693)
T ss_pred CCCCCCCCCcCcccceEEEeCCCCCCCceEEEEECCeEEEEEEecCCCcccccccccCCCCcEEEEEEEEcCCCCCCCcC
Confidence 689999999999999999999999999999999999999998 1 11 122345567778864
Q ss_pred --CCCChhHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEEEC
Q 047153 62 --GQIGKQEKEYEMILKRTLQSICIL-TINPNTTTSVIIQVW 100 (100)
Q Consensus 62 --g~~~~~~~e~~~~l~~~l~~~I~~-~~~P~~~i~i~v~v~ 100 (100)
|.+++++.+++.+++++|+++|++ ++||+ .|+|.++||
T Consensus 392 ~~~~~~rre~~~~~li~ral~~vi~~~~~~p~-~I~v~~~VL 432 (693)
T PRK11824 392 RVGSPGRREIGHGALAERALEPVLPSEEEFPY-TIRVVSEIL 432 (693)
T ss_pred CCCCCChhHHHHHHHHHHHHHHhcCcccCCCE-EEEEEEEEE
Confidence 236789999999999999999998 79998 699999986
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase
Back Show alignment and domain information
Probab=99.88 E-value=3.8e-22 Score=154.70 Aligned_cols=98 Identities=21% Similarity=0.308 Sum_probs=83.4
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e-----C---------CCCCceEEEEEeeCCCC----
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K-----N---------ENPEKVSIEVIWKSKTG---- 62 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~-----~---------~~~~~~~l~v~~~p~~g---- 62 (100)
++.|+|||+++++||++|++|+++++||||+|+.|+|+|+|+ . . +...+..++++|.|++.
T Consensus 333 ~g~R~DGR~~~eiR~i~~~~g~l~~a~GSa~~~~G~Tqvl~~~tlG~~~~~q~~~~l~~~~~~~~~~~YnfpPFSt~er~ 412 (719)
T TIGR02696 333 EGVRIDGRGVTDIRPLDAEVQVIPRVHGSALFERGETQILGVTTLNMLKMEQQIDSLSPETSKRYMHHYNFPPYSTGETG 412 (719)
T ss_pred CCCCCCCCCccccccceeecCCCCCCCceEEEEecCcEEEEEEeCCCchhhhhcccccccccceEEEEEeCCCCcccCCC
Confidence 578999999999999999999999999999999999999999 1 0 11234567788888752
Q ss_pred ---CCChhHHHHHHHHHHHHHHHhc-cCCCCCcEEEEEEEEC
Q 047153 63 ---QIGKQEKEYEMILKRTLQSICI-LTINPNTTTSVIIQVW 100 (100)
Q Consensus 63 ---~~~~~~~e~~~~l~~~l~~~I~-~~~~P~~~i~i~v~v~ 100 (100)
.+++++.+++.+++++|+++|+ ++.||++ |.+..+||
T Consensus 413 ~~~~~~RReighg~La~rALe~vI~~~e~fP~T-IrvvseVL 453 (719)
T TIGR02696 413 RVGSPKRREIGHGALAERALVPVLPSREEFPYA-IRQVSEAL 453 (719)
T ss_pred CCCCCCccHHHHHHHHHHHHHHhhCcHhhCCCE-EEEEEEee
Confidence 3578999999999999999998 6999999 77777875
Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
>PF01138 RNase_PH: 3' exoribonuclease family, domain 1 This Prosite family only includes Ribonuclease PH; InterPro: IPR001247 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function
Back Show alignment and domain information
Probab=99.85 E-value=2.9e-20 Score=118.31 Aligned_cols=88 Identities=34% Similarity=0.505 Sum_probs=74.6
Q ss_pred CCCceEEEeCCcCCCceEEEEEeCCeEEEEe------e---CCCCC-c--eEEEEEeeCCC-------CCCChhHHHHHH
Q 047153 13 QLRPLACYCSILHRAHGSASWSQGDTKVLAA------K---NENPE-K--VSIEVIWKSKT-------GQIGKQEKEYEM 73 (100)
Q Consensus 13 e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~------~---~~~~~-~--~~l~v~~~p~~-------g~~~~~~~e~~~ 73 (100)
|+|++.+++|+++++||||+|++|+|+|+|+ . .+.++ . ..++|++.|++ +.++..+.+++.
T Consensus 1 e~R~i~i~~~~~~~a~GSa~v~~G~T~V~~~V~~~~~~~~~~~~~~~~g~~~v~v~~~~~~~~~~~~~~~~~~~~~~l~~ 80 (132)
T PF01138_consen 1 ELRPISIETGVLPRADGSARVSLGNTKVICSVKGPIEPPPSNERDDAEGRLTVEVEFSPFASPSFRRGGRPDEEERELSS 80 (132)
T ss_dssp CBEEEEEEESSSSSSSEEEEEEETTEEEEEEEEEEEEGCSCSTTSSSSEEEEEEEEECCCGSTSSSSSSSTHHHHHHHHH
T ss_pred CCccEEEEeCCCCCCCeEEEEEECCeEEEEEEEecccccchhcccCCCceEEEEEEeccccccccccccccchhHHHHHH
Confidence 7899999999999999999999999999999 1 22122 3 45566667754 345678999999
Q ss_pred HHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 74 ILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 74 ~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
+|+++|+++++++.||+.+|+|.++||
T Consensus 81 ~l~~~l~~~~~~~~~~~~~i~v~v~vl 107 (132)
T PF01138_consen 81 LLERALRSSILLEGYPRWQIHVDVQVL 107 (132)
T ss_dssp HHHHHHHHTBSTTTTSSEEEEEEEEEE
T ss_pred HHhhhccccccccccCceEEEEEEEEE
Confidence 999999999999999999999999986
An active PH domain uses inorganic phosphate as a nucleophile, adding it across the phosphodiester bond between the end two nucleotides in order to release ribonucleoside 5'-diphosphate (rNDP) from the 3' end of the RNA substrate. PH domains can be found in bacterial/organelle RNases and PNPases (polynucleotide phosphorylases) [], as well as in archaeal and eukaryotic RNA exosomes [, ], the later acting as nano-compartments for the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA). Bacterial/organelle PNPases share a common barrel structure with RNA exosomes, consisting of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. This entry represents the phosphorolytic (PH) domain 1, which has a core 2-layer alpha/beta structure with a left-handed crossover, similar to that found in ribosomal protein S5. This domain is found in bacterial/organelle PNPases and in archaeal/eukaryotic exosomes []. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; PDB: 2C38_G 2BR2_O 2C37_M 3L7Z_A 2JEB_A 2C39_A 2JEA_A 2JE6_A 3U1K_A 4AM3_B ....
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Back Show alignment and domain information
Probab=99.84 E-value=2.2e-20 Score=147.46 Aligned_cols=98 Identities=29% Similarity=0.485 Sum_probs=84.4
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e---C------------CCCCceEEEEEeeCCC----
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K---N------------ENPEKVSIEVIWKSKT---- 61 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~---~------------~~~~~~~l~v~~~p~~---- 61 (100)
++.|+|||+++|+||+++++|.+++|||||+|++|+|+|+|+ . . +...+..++++|.|++
T Consensus 436 ~g~R~DGR~~~eiRpI~~e~G~Lp~A~GSAlf~~G~TqVLatVtlGp~~~~q~~d~l~~~~~~~~f~~~y~fPPfs~ge~ 515 (891)
T PLN00207 436 GGKRSDGRTPDEIRPINSSCGLLPRAHGSALFTRGETQALAVVTLGDKQMAQRIDNLVDADEVKRFYLQYSFPPSCVGEV 515 (891)
T ss_pred CCCCCCCCCcCccceEEEEeCCcCCCCceEEEEECCeEEEEEEEecCccccccccccccccceeeEEEEEEcCCCCCccc
Confidence 689999999999999999999999999999999999999998 1 1 1123456788888865
Q ss_pred ---CCCChhHHHHHHHHHHHHHHHhccC-CCCCcEEEEEEEEC
Q 047153 62 ---GQIGKQEKEYEMILKRTLQSICILT-INPNTTTSVIIQVW 100 (100)
Q Consensus 62 ---g~~~~~~~e~~~~l~~~l~~~I~~~-~~P~~~i~i~v~v~ 100 (100)
+.+++++.+++.+++++|+++|..+ .||+ .|+|.++||
T Consensus 516 ~r~g~psrREi~hg~L~eRALrpvip~~~~fP~-tIrV~~~VL 557 (891)
T PLN00207 516 GRIGAPSRREIGHGMLAERALEPILPSEDDFPY-TIRVESTIT 557 (891)
T ss_pred cCCCCCCHHHHHHHHHHHHHHHHhCCcccCCCE-EEEEEEEEE
Confidence 2357889999999999999999985 9997 799999986
>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional
Back Show alignment and domain information
Probab=99.84 E-value=2.9e-20 Score=131.27 Aligned_cols=99 Identities=22% Similarity=0.339 Sum_probs=80.2
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e-------CCCCCceEEE--EEeeCCC------CCCC
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K-------NENPEKVSIE--VIWKSKT------GQIG 65 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~-------~~~~~~~~l~--v~~~p~~------g~~~ 65 (100)
+++|+|||+++|+|++++++|++++++|||++++|+|+|+|+ + .+.++++.++ |++.|++ |.++
T Consensus 22 ~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~vl~~V~~~~~~p~~~~~~~g~i~~~v~~~~~a~~~~~~~~~~ 101 (271)
T PRK04282 22 KGKRIDGRKLDEYRPIEIETGVIKKAEGSALVKLGNTQVLAGVKLEIGEPFPDTPNEGVLIVNAELLPLASPTFEPGPPD 101 (271)
T ss_pred cCCCCCCCCCccccCeEEEeCCccCCCcEEEEEECCCEEEEEEEEEEecCCCCCCCCCEEEEEEEECCCcCccccCCCCC
Confidence 689999999999999999999999999999999999999999 2 1345666665 5556653 3456
Q ss_pred hhHHHHHHHHHHHHHHHhccCC--C---CCc---EEEEEEEEC
Q 047153 66 KQEKEYEMILKRTLQSICILTI--N---PNT---TTSVIIQVW 100 (100)
Q Consensus 66 ~~~~e~~~~l~~~l~~~I~~~~--~---P~~---~i~i~v~v~ 100 (100)
..+.+++.+|+++|++....++ + |+. .|+|.++||
T Consensus 102 ~~~~~l~~~l~r~l~~~~~~dl~~L~I~~g~~~w~i~Vdv~VL 144 (271)
T PRK04282 102 ENAIELARVVDRGIRESKAIDLEKLVIEPGKKVWVVFIDVYVL 144 (271)
T ss_pred HHHHHHHHHHHHHHhccCCccHHHcEEecCcEEEEEEEEEEEE
Confidence 7888999999999988754443 3 766 888888885
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.71 E-value=6.5e-17 Score=113.32 Aligned_cols=83 Identities=25% Similarity=0.361 Sum_probs=69.3
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e-------CCCCCceE--EEEEeeCCC------CCCC
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K-------NENPEKVS--IEVIWKSKT------GQIG 65 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~-------~~~~~~~~--l~v~~~p~~------g~~~ 65 (100)
.+.|+|||.++|+|++++++|+++.|+|||++++|+|+|+|+ + .+.|+++. +++++.|.+ |.++
T Consensus 21 ~g~R~DGR~~~efR~ieI~~~vi~ka~GSa~VklG~Tqvv~gvK~eig~Pf~DtP~eG~~~~n~El~Plas~~fE~Gppd 100 (272)
T COG2123 21 KGIRIDGRSFDEFRPLEIETGVIPKANGSALVKLGNTQVVVGVKAEIGEPFPDTPNEGVLVVNVELSPLASPSFEPGPPD 100 (272)
T ss_pred cCcccCCCCcccccceEEEeCceecCCCcEEEEecCeEEEEEEEcccCCCCCCCCCCceEEeeeeeeccccccccCCCCc
Confidence 478999999999999999999999999999999999999999 2 35566664 567888753 5566
Q ss_pred hhHHHHHHHHHHHHHHHhc
Q 047153 66 KQEKEYEMILKRTLQSICI 84 (100)
Q Consensus 66 ~~~~e~~~~l~~~l~~~I~ 84 (100)
....|+++.+.+.++.+=.
T Consensus 101 e~aielsrvvdr~lr~s~a 119 (272)
T COG2123 101 ELAIELSRVVDRGLRESKA 119 (272)
T ss_pred hhHHHHHHHHHHHHHhccC
Confidence 6778899999999887544
>KOG1612 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp42 [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.62 E-value=9.3e-15 Score=101.69 Aligned_cols=80 Identities=30% Similarity=0.397 Sum_probs=59.6
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCC-eEEEEe-e-------CCCCCceE--EEEEeeCCCC--CCChh-
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGD-TKVLAA-K-------NENPEKVS--IEVIWKSKTG--QIGKQ- 67 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~-T~V~~~-~-------~~~~~~~~--l~v~~~p~~g--~~~~~- 67 (100)
..+|.|||.++++|||.++++++|+++|||++++|+ |.|+++ + .+.|+++. +.|++.|.+. -.++.
T Consensus 19 ~~iR~DGR~~~~~Rpi~vetdVlp~tNGSaRVk~g~~tdiivgVKaEvg~~~~~~p~egk~~~~VD~S~sasp~f~gRgg 98 (288)
T KOG1612|consen 19 PDIRNDGRSCHQFRPIEVETDVLPGTNGSARVKLGDGTDIIVGVKAEVGSPDDETPVEGKYLFFVDCSPSASPQFQGRGG 98 (288)
T ss_pred cccccCCcCccccceEEEEeccccCCCCcEEEEecCCceEEEEEeeeccCccccCCCCCeEEEEEEecCCcCccccCCCh
Confidence 368999999999999999999999999999999999 999999 2 34455544 5678877543 12333
Q ss_pred ---HHHHHHHHHHHHHH
Q 047153 68 ---EKEYEMILKRTLQS 81 (100)
Q Consensus 68 ---~~e~~~~l~~~l~~ 81 (100)
..|+...|+++|.+
T Consensus 99 de~~~eltsaLq~~l~~ 115 (288)
T KOG1612|consen 99 DELVEELTSALQRVLNS 115 (288)
T ss_pred hhHHHHHHHHHHHHHhC
Confidence 44555555555554
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Back Show alignment and domain information
Probab=99.58 E-value=2.4e-15 Score=113.92 Aligned_cols=96 Identities=26% Similarity=0.408 Sum_probs=81.8
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe----e------------CCCCCceEEEEEeeCCC----
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA----K------------NENPEKVSIEVIWKSKT---- 61 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~----~------------~~~~~~~~l~v~~~p~~---- 61 (100)
+++|.|||..+++|+|+|+.+.++..||||.|+-|+|+|+|+ . ..+..+..++++|.|.+
T Consensus 356 ~gkR~DGR~ldelR~I~ce~~m~~~lHGSaLFqRGqTQvlctVtl~s~e~a~klD~l~~~~~~~~FmLhY~FPPyat~Ev 435 (760)
T KOG1067|consen 356 EGKRCDGRDLDELRNISCEVDMLKTLHGSALFQRGQTQVLCTVTLDSLESAQKLDSLIGPDNGINFMLHYEFPPYATNEV 435 (760)
T ss_pred cccccCCcchhhhcccceecCccccccchhhhhcCceeEEEEEEcCCHHHhhhhhhhccCccCceEEEEeccCCcccccc
Confidence 578999999999999999999999999999999999999999 1 12334689999999964
Q ss_pred ---CCCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEE
Q 047153 62 ---GQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQV 99 (100)
Q Consensus 62 ---g~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v 99 (100)
|..+++|..+..+.+++|.+++. +.||.+ |.|+=+|
T Consensus 436 gkig~~nRRE~GhgaLAEkaL~~vlP-~dfPft-IRv~SeV 474 (760)
T KOG1067|consen 436 GKIGGLNRRELGHGALAEKALLPVLP-EDFPFT-IRVTSEV 474 (760)
T ss_pred ccccCCcccccCchhHhhhhhhccCc-ccCceE-EEEeeee
Confidence 34568999999999999999998 999974 5555544
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase
Back Show alignment and domain information
Probab=99.44 E-value=1.6e-12 Score=101.89 Aligned_cols=81 Identities=22% Similarity=0.359 Sum_probs=65.6
Q ss_pred CceEEEeCCc-CCCceEEEEEeCCeEEEEe-e-----CCCCCceEEEEEeeCC--------------CCCCChhHHHHHH
Q 047153 15 RPLACYCSIL-HRAHGSASWSQGDTKVLAA-K-----NENPEKVSIEVIWKSK--------------TGQIGKQEKEYEM 73 (100)
Q Consensus 15 R~i~~~~g~~-~~a~GSa~~~~G~T~V~~~-~-----~~~~~~~~l~v~~~p~--------------~g~~~~~~~e~~~ 73 (100)
|++.+++|.+ ++|||||++++|+|+|+|+ . ++..+.+.|+|+|.+. .|.|+.++.++++
T Consensus 5 R~i~ie~G~la~~AdGSa~v~~G~T~VlatV~~~~~~~~~~df~pL~vey~e~~~A~gkipg~f~kReg~p~~~eil~sr 84 (684)
T TIGR03591 5 RTLTLETGKIARQADGAVVVRYGDTVVLVTVVAAKEAKEGQDFFPLTVNYQEKFYAAGKIPGGFFKREGRPSEKETLTSR 84 (684)
T ss_pred ccEEEEECCcCCCCCeEEEEEECCeEEEEEEEcCCCCCCCCceEeEEEEEEehhhhccCCCCCcccCCCCCCHHHHHHHH
Confidence 7999999999 6799999999999999999 1 1223557788888631 2446778888999
Q ss_pred HHHHHHHHHhccCCCCC---cEEEEEEEEC
Q 047153 74 ILKRTLQSICILTINPN---TTTSVIIQVW 100 (100)
Q Consensus 74 ~l~~~l~~~I~~~~~P~---~~i~i~v~v~ 100 (100)
+|.++|++. ||+ ..|+|.++||
T Consensus 85 lIdR~lrpl-----fp~~~~~~i~V~~~VL 109 (684)
T TIGR03591 85 LIDRPIRPL-----FPKGFRNEVQVVATVL 109 (684)
T ss_pred HHhhHHHHh-----cCCCCCceEEEEEEEE
Confidence 999999874 777 8899999986
Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.40 E-value=2.8e-13 Score=104.52 Aligned_cols=91 Identities=25% Similarity=0.397 Sum_probs=79.9
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe------e---------CCCCCceEEEEEeeCCC-----
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA------K---------NENPEKVSIEVIWKSKT----- 61 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~------~---------~~~~~~~~l~v~~~p~~----- 61 (100)
.+.|+|||..++.||+.++.|+++.+|||+.|..|.|+.++. . .+..++..++.+|.|++
T Consensus 310 ~~vR~DGR~~~~VRpi~~ev~~lpr~HGS~LFtRGeTQal~v~TLG~~~d~Qvid~l~~e~~krfm~hYNFPp~SvGE~g 389 (692)
T COG1185 310 GKVRIDGRFGDEVRPIGIEVGVLPRTHGSALFTRGETQALVVVTLGTPRDAQVIDILEGEYKKRFLLHYNFPPFSVGETG 389 (692)
T ss_pred CCcccCCCCcceeeeeeEEecCCCCccchhhhccCCCcceEEEEcCCcchhhhhhhccchhhhheeeeccCCCCCccccC
Confidence 468999999999999999999999999999999999999887 1 13356788999999986
Q ss_pred --CCCChhHHHHHHHHHHHHHHHhc-cCCCCCcE
Q 047153 62 --GQIGKQEKEYEMILKRTLQSICI-LTINPNTT 92 (100)
Q Consensus 62 --g~~~~~~~e~~~~l~~~l~~~I~-~~~~P~~~ 92 (100)
|.|++++..+..+-++++.+++. .+.||.+-
T Consensus 390 ~~g~p~RREiGHG~LA~Ral~~vlp~~e~fpyti 423 (692)
T COG1185 390 RMGSPGRREIGHGALAERALAPVLPSEEEFPYTI 423 (692)
T ss_pred CCCCCCcccccCchhhHHHHhhhCCchhcCCcee
Confidence 34679999999999999999999 57999864
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Back Show alignment and domain information
Probab=99.38 E-value=5.1e-12 Score=99.13 Aligned_cols=84 Identities=21% Similarity=0.285 Sum_probs=66.2
Q ss_pred CceEEEeCCcC-CCceEEEEEeCCeEEEEe-e-----CCCCCceEEEEEeeCC--------------CCCCChhHHHHHH
Q 047153 15 RPLACYCSILH-RAHGSASWSQGDTKVLAA-K-----NENPEKVSIEVIWKSK--------------TGQIGKQEKEYEM 73 (100)
Q Consensus 15 R~i~~~~g~~~-~a~GSa~~~~G~T~V~~~-~-----~~~~~~~~l~v~~~p~--------------~g~~~~~~~e~~~ 73 (100)
|++++++|.+. +|||||++++|+|+|+|+ . ++..+.+.++|+|.+. .|.|+.++.++++
T Consensus 14 r~i~~e~G~ia~qAdGSa~v~~G~T~VlatV~~~~~~~~~~df~pL~v~y~e~~~A~gkiP~~f~kreg~pse~eil~sr 93 (693)
T PRK11824 14 RTLTLETGKLARQANGAVLVRYGDTVVLVTVVASKEPKEGQDFFPLTVDYEEKTYAAGKIPGGFFKREGRPSEKETLTSR 93 (693)
T ss_pred ccEEEEECCcCCCCCeEEEEEECCeEEEEEEEcCCCCCCCCCeeeeEEEEEehhhhccCCCcccccCCCCCChHHHHHHH
Confidence 79999999995 799999999999999999 1 2233557788888641 2446778889999
Q ss_pred HHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 74 ILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 74 ~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
+|.++|++... ..++..|+|.++||
T Consensus 94 lIdR~lrplfp--~~~~~~i~I~~~VL 118 (693)
T PRK11824 94 LIDRPIRPLFP--KGFRNEVQVVATVL 118 (693)
T ss_pred HHhhhHHHhCC--CCCCeEEEEEEEEE
Confidence 99999999532 23378999999986
>KOG1614 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp45 [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.30 E-value=1.3e-11 Score=85.92 Aligned_cols=78 Identities=26% Similarity=0.291 Sum_probs=62.7
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe--------eCCCCCceE--EEEEeeCCCC------CCC
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA--------KNENPEKVS--IEVIWKSKTG------QIG 65 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~--------~~~~~~~~~--l~v~~~p~~g------~~~ 65 (100)
.|.|.|||...|+|.+++++|- -.||+.+++|+|+|+|. ..++|.++. |.++++|+++ ..+
T Consensus 20 ~g~R~DgR~l~efR~lei~fGk---e~gs~~vt~G~Tkvm~~vt~~ia~Py~dRP~eG~~~I~telsPmA~~sfE~Gr~~ 96 (291)
T KOG1614|consen 20 AGLRFDGRSLEEFRDLEIEFGK---EYGSVLVTMGNTKVMARVTAQIAQPYIDRPHEGSFSIFTELSPMASPSFEPGRKG 96 (291)
T ss_pred hcccccccchhhhhceEEEecc---ccccEEEEecCeeEEEEeehhhcCcccCCCCCCeeeeeeccccccccccCCCCcc
Confidence 4789999999999999999995 79999999999999999 135666664 5578898753 234
Q ss_pred hhHHHHHHHHHHHHHHH
Q 047153 66 KQEKEYEMILKRTLQSI 82 (100)
Q Consensus 66 ~~~~e~~~~l~~~l~~~ 82 (100)
..+.++.++|++++...
T Consensus 97 ~~~v~l~Rliek~~R~S 113 (291)
T KOG1614|consen 97 ESEVELSRLIEKALRRS 113 (291)
T ss_pred chHHHHHHHHHHHHHhc
Confidence 55678888888888654
>KOG1613 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp43 [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=99.24 E-value=7.2e-12 Score=87.05 Aligned_cols=81 Identities=25% Similarity=0.299 Sum_probs=62.2
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e-------CCCCCceEEEEEe--eCC------CCCCC
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K-------NENPEKVSIEVIW--KSK------TGQIG 65 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~-------~~~~~~~~l~v~~--~p~------~g~~~ 65 (100)
+++|+|||+..|+|.+.+..|.++.|||||.++.|+|.|+|+ + ...|+++.|-.+| .|- .|.++
T Consensus 34 e~~RpdgR~lgefRdt~in~g~IsTangSal~K~G~ttvi~~Ik~ei~epstdapdeg~Iv~n~~lpplcs~r~RpG~p~ 113 (298)
T KOG1613|consen 34 EGIRPDGRKLGEFRDTAINAGNISTANGSALLKSGKTTVICGIKAEIAEPSTDAPDEGDIVPNYALPPLCSSRFRPGPPT 113 (298)
T ss_pred cccCcchhhhhHHhhhheecCceeccCcHHHHhcCCcEEEEEeeeeecccccCCCCCcceeecccCCcccccCCCCCCCc
Confidence 689999999999999999999999999999999999999999 2 3567888876555 342 34444
Q ss_pred hhHHHHHHHHHHHHHHH
Q 047153 66 KQEKEYEMILKRTLQSI 82 (100)
Q Consensus 66 ~~~~e~~~~l~~~l~~~ 82 (100)
..+.-+++.|..++.++
T Consensus 114 dea~viSq~LhdtIl~S 130 (298)
T KOG1613|consen 114 DEAQVISQKLHDTILHS 130 (298)
T ss_pred hHHHHHHHHHHHHHHhc
Confidence 44555555555555443
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Back Show alignment and domain information
Probab=98.74 E-value=3.8e-08 Score=78.97 Aligned_cols=83 Identities=18% Similarity=0.253 Sum_probs=65.3
Q ss_pred CceEEEeCCc-CCCceEEEEEeCCeEEEEe---eC---CCCCceEEEEEee---------C-----CCCCCChhHHHHHH
Q 047153 15 RPLACYCSIL-HRAHGSASWSQGDTKVLAA---KN---ENPEKVSIEVIWK---------S-----KTGQIGKQEKEYEM 73 (100)
Q Consensus 15 R~i~~~~g~~-~~a~GSa~~~~G~T~V~~~---~~---~~~~~~~l~v~~~---------p-----~~g~~~~~~~e~~~ 73 (100)
|.+.+++|-+ .+||||+.+++|+|.|+|+ .+ +..|=.-|.|+|. | ..|.+...+.-+++
T Consensus 89 ~~~~~etG~~a~qA~gav~v~~g~t~vl~t~~~~~~~~~~~dF~PLtV~y~Ek~~AaGkipggf~kREgrp~d~eiL~sR 168 (891)
T PLN00207 89 RHILVETGHIGRQASGSVTVTDGETIVYTSVCLADVPSEPSDFFPLSVHYQERFSAAGRTSGGFFKREGRTKDHEVLICR 168 (891)
T ss_pred EEEEEEhhHHHHhCCCcEEEEECCeEEEEEEEeccCCCCCCCccceeEeeeeehhhcCccCCceeccCCCCChHHHHHHH
Confidence 4688999987 4799999999999999998 22 2223345677774 1 12456677888999
Q ss_pred HHHHHHHHHhccCCCCCcEEEEEE
Q 047153 74 ILKRTLQSICILTINPNTTTSVII 97 (100)
Q Consensus 74 ~l~~~l~~~I~~~~~P~~~i~i~v 97 (100)
+|.|.|++++..+.||+++|.+.|
T Consensus 169 lIdR~lRPlfp~~~~~etQI~i~V 192 (891)
T PLN00207 169 LIDRPLRPTMPKGFYHETQILSWV 192 (891)
T ss_pred HHCccchhhccccCCCCcEEEEEE
Confidence 999999999999999999998843
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase
Back Show alignment and domain information
Probab=97.65 E-value=0.00018 Score=57.22 Aligned_cols=83 Identities=17% Similarity=0.205 Sum_probs=50.6
Q ss_pred CceEEEeCCc-CCCceEEEEEe-CCeEEEEe---eC---CCCCceEEEEEeeC---CC-----------CCCChhHHHHH
Q 047153 15 RPLACYCSIL-HRAHGSASWSQ-GDTKVLAA---KN---ENPEKVSIEVIWKS---KT-----------GQIGKQEKEYE 72 (100)
Q Consensus 15 R~i~~~~g~~-~~a~GSa~~~~-G~T~V~~~---~~---~~~~~~~l~v~~~p---~~-----------g~~~~~~~e~~ 72 (100)
+++.+++|-+ .+||||+.+++ |+|.|+|+ .+ +..|=.-|.|+|.- .+ |.|...+.-.+
T Consensus 17 ~~~~~etG~~A~qA~Gav~v~~~G~t~vl~t~~~~~~~~~~~dF~PLtV~y~Ek~yA~GkiPggf~kREgrps~~eiL~s 96 (719)
T TIGR02696 17 RTIRFETGRLARQAAGSVVAYLDDETMLLSATTASKQPKDQFDFFPLTVDVEERMYAAGRIPGSFFRREGRPSTDAILTC 96 (719)
T ss_pred EEEEEEcchhHhhCCceEEEEecCCeEEEEEEEecCCCCCCCCCcceeEeeeehhhhcCccCCceeccCCCCChhhhHHH
Confidence 4699999988 47999999999 99999998 22 22233556777742 11 33444455555
Q ss_pred HHHHHHHHHHhccCCCCCcEEEEEEEE
Q 047153 73 MILKRTLQSICILTINPNTTTSVIIQV 99 (100)
Q Consensus 73 ~~l~~~l~~~I~~~~~P~~~i~i~v~v 99 (100)
++|.|.++|...-..+ -.+||.++|
T Consensus 97 RliDR~iRPLFp~~~~--~e~qi~~~v 121 (719)
T TIGR02696 97 RLIDRPLRPSFVKGLR--NEVQVVVTV 121 (719)
T ss_pred HhhCCCCccCCCCCCC--cceEEEEEE
Confidence 5555555554432222 344555544
Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Back Show alignment and domain information
Probab=97.03 E-value=0.0024 Score=50.46 Aligned_cols=81 Identities=21% Similarity=0.346 Sum_probs=52.3
Q ss_pred CceEEEeCCcC-CCceEEEEEeCCeEEEEe---eC--CCCCceEEEEEee---------C-----CCCCCChhHHHHHHH
Q 047153 15 RPLACYCSILH-RAHGSASWSQGDTKVLAA---KN--ENPEKVSIEVIWK---------S-----KTGQIGKQEKEYEMI 74 (100)
Q Consensus 15 R~i~~~~g~~~-~a~GSa~~~~G~T~V~~~---~~--~~~~~~~l~v~~~---------p-----~~g~~~~~~~e~~~~ 74 (100)
|++.+++|.+. +|+|++.+++|+|.|+++ .+ +..|=.-|.|+|. | ..|.|...+.-.+++
T Consensus 14 ~~l~~etg~~A~qa~gav~~~~gdt~vl~t~~~~~~~~~~dF~PLtV~y~Ek~yaaGkiPGgf~kREGrpse~e~L~sRL 93 (692)
T COG1185 14 RTLTLETGKIARQANGAVLVRYGDTVVLATVVASKPKEGQDFFPLTVNYEEKTYAAGKIPGGFFKREGRPSEKEILTSRL 93 (692)
T ss_pred eeEEEEcchhhhhcCccEEEEECCeEEEEEEeecCCCCCCCccceeEeeeeehhccCcCCCcccccCCCCCccchhhhhh
Confidence 88999999884 799999999999999999 22 2233345667763 1 123344455555555
Q ss_pred HHHHHHHHhccCCCC---CcEEEEEEEEC
Q 047153 75 LKRTLQSICILTINP---NTTTSVIIQVW 100 (100)
Q Consensus 75 l~~~l~~~I~~~~~P---~~~i~i~v~v~ 100 (100)
|.|-+++ +|| +-.++|..+|+
T Consensus 94 IDRpiRP-----lFp~g~~~evqIv~tvl 117 (692)
T COG1185 94 IDRPIRP-----LFPKGFRNEVQIVNTVL 117 (692)
T ss_pred ccccccc-----ccchhhccceEEEEEEE
Confidence 5555544 455 34556665553
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Back Show alignment and domain information
Probab=93.59 E-value=0.069 Score=41.98 Aligned_cols=31 Identities=26% Similarity=0.249 Sum_probs=27.8
Q ss_pred CCCceEEEeCCcC-CCceEEEEEeCCeEEEEe
Q 047153 13 QLRPLACYCSILH-RAHGSASWSQGDTKVLAA 43 (100)
Q Consensus 13 e~R~i~~~~g~~~-~a~GSa~~~~G~T~V~~~ 43 (100)
--|.+.+++|.+. .|+||+.+..|+|+|+++
T Consensus 54 GnR~i~~etGklaRfAngsvvv~~GeT~Vm~T 85 (760)
T KOG1067|consen 54 GNREILFETGKLARFANGSVVVQMGETAVMTT 85 (760)
T ss_pred CCeEEEEecchhhhhcCCcEEEccCCeEEEEE
Confidence 3588999999886 589999999999999998
>PF02962 CHMI: 5-carboxymethyl-2-hydroxymuconate isomerase; InterPro: IPR004220 5-carboxymethyl-2-hydroxymuconate isomerase transforms 5-carboxymethyl-2-hydroxy-muconic acid into 5-oxo-pent-3-ene-1,2,5-tricarboxylic acid during the third step of the homoprotocatechuate catabolic pathway []
Back Show alignment and domain information
Probab=92.00 E-value=0.71 Score=29.33 Aligned_cols=68 Identities=16% Similarity=0.265 Sum_probs=44.5
Q ss_pred EEEEeCCeEEEEee-------CCCCCceEEEEEeeCCCCCCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEE
Q 047153 31 ASWSQGDTKVLAAK-------NENPEKVSIEVIWKSKTGQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQV 99 (100)
Q Consensus 31 a~~~~G~T~V~~~~-------~~~~~~~~l~v~~~p~~g~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v 99 (100)
..|..|+.|+-+-+ ...++.++|++.++-.+|.....-++++..|-.++..-. ...+++..++++++|
T Consensus 32 glF~~~~IK~Ra~~~~~y~vgdg~~~~~FvHv~l~il~GRs~e~k~~l~~~l~~~l~~~~-~~~~~~~~~~LsvEi 106 (124)
T PF02962_consen 32 GLFPEGGIKVRAIRCDHYRVGDGQPDDAFVHVTLRILAGRSEEQKKALSEALLAVLKAHL-APLFAQRYLQLSVEI 106 (124)
T ss_dssp TSS-GGG-EEEEEEESSEEETTSSS-EEEEEEEEEEETT--HHHHHHHHHHHHHHHHHHC-CCHCCHSEEEEEEEE
T ss_pred CCcChhceeeeeEecccEEEccCCCCCcEEEEEeeecCCCCHHHHHHHHHHHHHHHHHHh-hHhhcCCeeEEEEEE
Confidence 35566777777661 345678999999988788665666677777777777653 456777778887776
Homoprotocatechuate (HPC; 3,4-dihydroxyphenylacetate) is catabolized to Krebs cycle intermediates via extradiol (meta-) cleavage and the necessary enzymes are chromosomally encoded in a variety of bacteria []. 5-carboxymethyl-2-hydroxymuconate isomerase is probably a dimer of two identical subunits []. A comparison of the N-terminal half of the isomerase/decarboxylase sequence from the pathway (both encoded by the gene hpcE), with the second half showed significant similarity. This suggests that a duplication may have occurred to produce a bifunctional gene [].; PDB: 3E6Q_H 1OTG_B.
>PRK15031 5-carboxymethyl-2-hydroxymuconate delta-isomerase; Provisional
Back Show alignment and domain information
Probab=88.44 E-value=2.6 Score=26.89 Aligned_cols=68 Identities=9% Similarity=0.114 Sum_probs=44.3
Q ss_pred EEEEEeCCeEEEEe-------eCCCCCceEEEEEeeCCCCCCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEE
Q 047153 30 SASWSQGDTKVLAA-------KNENPEKVSIEVIWKSKTGQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQ 98 (100)
Q Consensus 30 Sa~~~~G~T~V~~~-------~~~~~~~~~l~v~~~p~~g~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~ 98 (100)
|-.|..|+.|+-+- ....++.++|++.++-.+|.....-++++..|-.++..... ..|-+..+.++++
T Consensus 32 sglF~~~~IK~Ra~~~~~y~vgdg~~~~~Fihv~l~i~~GRs~e~k~~l~~~l~~~l~~~~~-~~~~~~~~~LS~E 106 (126)
T PRK15031 32 TGIFPLGGIRSRAHWLDTWQMADGKHDYAFVHMTLKIGAGRSLESRQEVGEMLFALIKAHFA-ALMESRYLALSFE 106 (126)
T ss_pred CCCCCccccEeeeeecCcEEEcCCCCCCcEEEEEeeecCCCCHHHHHHHHHHHHHHHHHHhh-hhhcccceEEEEE
Confidence 45677777777776 13456779999999988887666666777777777655543 3333332444443
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 100
d2nn6d1 122
d.14.1.4 (D:25-146) Exosome complex exonuclease RR
5e-12 d1r6la1 151
d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Pseu
2e-09 d1oysa1 151
d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Baci
3e-09 d2nn6e1 187
d.14.1.4 (E:5-191) Exosome complex exonuclease RRP
4e-09 d2nn6c1 181
d.14.1.4 (C:7-187) Exosome complex exonuclease RRP
6e-09 d2ba0g1 176
d.14.1.4 (G:3-178) Exosome complex exonuclease 2,E
2e-08 d2je6b1 148
d.14.1.4 (B:8-155) Exosome complex exonuclease 1,
4e-08 d1udsa1 149
d.14.1.4 (A:2-150) Ribonuclease PH, domain 1 {Aqui
6e-08 d2nn6b1 145
d.14.1.4 (B:6-150) Exosome complex exonuclease RRP
3e-07 d2nn6f1 147
d.14.1.4 (F:29-175) Exosome complex exonuclease MT
8e-07 d2nn6a1 184
d.14.1.4 (A:1-184) Exosome complex exonuclease RRP
1e-06 d2je6a1 191
d.14.1.4 (A:1-191) Exosome complex exonuclease 2,E
1e-06 d1e3ha3 137
d.14.1.4 (A:346-482) Polynucleotide phosphorylase/
2e-06 d2ba0d1 144
d.14.1.4 (D:10-153) Exosome complex exonuclease 1,
3e-06
>d2nn6d1 d.14.1.4 (D:25-146) Exosome complex exonuclease RRP46 {Human (Homo sapiens) [TaxId: 9606]} Length = 122
Back Hide information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP46
species: Human (Homo sapiens) [TaxId: 9606]
Score = 55.5 bits (133), Expect = 5e-12
Identities = 35/97 (36%), Positives = 54/97 (55%), Gaps = 9/97 (9%)
Query: 13 QLRPLACYCSILHRAHGSASWSQGDTKVLAA---------KNENPEKVSIEVIWKSKTGQ 63
LR AC ++L R GSAS+ QGDT VLA E K ++EVI + K G
Sbjct: 3 SLRHFACEQNLLSRPDGSASFLQGDTSVLAGVYGPAEVKVSKEIFNKATLEVILRPKIGL 62
Query: 64 IGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100
G EK E +++ T +++ + T++P T+ +V++QV
Sbjct: 63 PGVAEKSRERLIRNTCEAVVLGTLHPRTSITVVLQVV 99
>d1r6la1 d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Pseudomonas aeruginosa [TaxId: 287]} Length = 151
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Ribonuclease PH, domain 1
species: Pseudomonas aeruginosa [TaxId: 287]
Score = 49.1 bits (116), Expect = 2e-09
Identities = 24/120 (20%), Positives = 41/120 (34%), Gaps = 22/120 (18%)
Query: 3 IDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA------------------- 43
++R GR +QLRP+ A GS GDTKV+
Sbjct: 1 MNRPSGRAADQLRPIRITRHYTKHAEGSVLVEFGDTKVICTVSAESGVPRFLKGQGQGWL 60
Query: 44 ---KNENPEKVSIEVIWKSKTGQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100
P ++ G+ G + E + ++ R+L++ L+ T + V
Sbjct: 61 TAEYGMLPRSTGERNQREASRGKQGGRTLEIQRLIGRSLRAALDLSKLGENTLYIDCDVI 120
>d1oysa1 d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Bacillus subtilis [TaxId: 1423]} Length = 151
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Ribonuclease PH, domain 1
species: Bacillus subtilis [TaxId: 1423]
Score = 48.7 bits (115), Expect = 3e-09
Identities = 24/117 (20%), Positives = 45/117 (38%), Gaps = 22/117 (18%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA--------------------- 43
R DGR ++LRP+ + GS + G+TKV+
Sbjct: 2 RHDGRQHDELRPITFDLDFISHPEGSVLITAGNTKVICNASVEDRVPPFLRGGGKGWITA 61
Query: 44 -KNENPEKVSIEVIWKSKTGQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQV 99
+ P+ + + I +S G+I + E + ++ R L+++ L T + V
Sbjct: 62 EYSMLPQATNQQTIQESSKGKISGRTMEIQRLIGRALRAVVDLEKLGERTIWIDCDV 118
>d2nn6e1 d.14.1.4 (E:5-191) Exosome complex exonuclease RRP42 {Human (Homo sapiens) [TaxId: 9606]} Length = 187
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP42
species: Human (Homo sapiens) [TaxId: 9606]
Score = 48.9 bits (116), Expect = 4e-09
Identities = 11/39 (28%), Positives = 15/39 (38%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA 43
R DGR R + ++ GSA G T +L
Sbjct: 19 RVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVG 57
>d2nn6c1 d.14.1.4 (C:7-187) Exosome complex exonuclease RRP43 {Human (Homo sapiens) [TaxId: 9606]} Length = 181
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP43
species: Human (Homo sapiens) [TaxId: 9606]
Score = 48.3 bits (114), Expect = 6e-09
Identities = 12/39 (30%), Positives = 16/39 (41%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA 43
R DGR + R + A GSA G+T V+
Sbjct: 17 RPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICG 55
>d2ba0g1 d.14.1.4 (G:3-178) Exosome complex exonuclease 2,ECX2 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 176
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease 2,ECX2
species: Archaeoglobus fulgidus [TaxId: 2234]
Score = 47.0 bits (111), Expect = 2e-08
Identities = 16/70 (22%), Positives = 28/70 (40%), Gaps = 8/70 (11%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAAKNENPEKVSIEVIWKSKTGQI 64
R DGR ++ R + +++ +A GSA GDT+V+ V ++
Sbjct: 21 RIDGRGFDEFRKVEIIPNVIEKAEGSALVKLGDTQVVVG-------VKMQPGEPYPDTPD 73
Query: 65 -GKQEKEYEM 73
G E+
Sbjct: 74 RGVIIVNAEL 83
>d2je6b1 d.14.1.4 (B:8-155) Exosome complex exonuclease 1, ECX1 {Sulfolobus solfataricus [TaxId: 2287]} Length = 148
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease 1, ECX1
species: Sulfolobus solfataricus [TaxId: 2287]
Score = 46.0 bits (108), Expect = 4e-08
Identities = 25/113 (22%), Positives = 47/113 (41%), Gaps = 18/113 (15%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA------------KNENPEKVS 52
R DGR P++LR + +L A GSA + G+TK +AA + +
Sbjct: 12 RTDGRKPDELRSIKIELGVLKNADGSAIFEMGNTKAIAAVYGPKEMHPRHLSLPDRAVLR 71
Query: 53 IEV------IWKSKTGQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQV 99
+ + K ++E E +++ L+S ++ + P T V ++
Sbjct: 72 VRYHMTPFSTDERKNPAPSRREIELSKVIREALESAVLVELFPRTAIDVFTEI 124
>d1udsa1 d.14.1.4 (A:2-150) Ribonuclease PH, domain 1 {Aquifex aeolicus [TaxId: 63363]} Length = 149
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Ribonuclease PH, domain 1
species: Aquifex aeolicus [TaxId: 63363]
Score = 45.3 bits (106), Expect = 6e-08
Identities = 16/39 (41%), Positives = 21/39 (53%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA 43
R+DGR +QLRP++ L GS S G TKV+
Sbjct: 1 RSDGRKEDQLRPVSIQRDFLEYPEGSCLISFGKTKVICT 39
>d2nn6b1 d.14.1.4 (B:6-150) Exosome complex exonuclease RRP41 {Human (Homo sapiens) [TaxId: 9606]} Length = 145
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP41
species: Human (Homo sapiens) [TaxId: 9606]
Score = 43.3 bits (101), Expect = 3e-07
Identities = 16/39 (41%), Positives = 21/39 (53%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA 43
R DGR +LR + + +A GSA QG+TK LA
Sbjct: 7 RVDGRRAGELRKIQARMGVFAQADGSAYIEQGNTKALAV 45
>d2nn6f1 d.14.1.4 (F:29-175) Exosome complex exonuclease MTR3 {Human (Homo sapiens) [TaxId: 9606]} Length = 147
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease MTR3
species: Human (Homo sapiens) [TaxId: 9606]
Score = 42.6 bits (99), Expect = 8e-07
Identities = 16/36 (44%), Positives = 21/36 (58%)
Query: 8 GRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA 43
R+P +LRP+ +L +A GSA G TKVL A
Sbjct: 2 TRDPTRLRPVYARAGLLSQAKGSAYLEAGGTKVLCA 37
>d2nn6a1 d.14.1.4 (A:1-184) Exosome complex exonuclease RRP45 {Human (Homo sapiens) [TaxId: 9606]} Length = 184
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP45
species: Human (Homo sapiens) [TaxId: 9606]
Score = 42.1 bits (98), Expect = 1e-06
Identities = 10/38 (26%), Positives = 13/38 (34%), Gaps = 3/38 (7%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLA 42
R DGR R + +G G T+VL
Sbjct: 23 RLDGRQTYDYRNIRISFG---TDYGCCIVELGKTRVLG 57
>d2je6a1 d.14.1.4 (A:1-191) Exosome complex exonuclease 2,ECX2 {Sulfolobus solfataricus [TaxId: 2287]} Length = 191
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease 2,ECX2
species: Sulfolobus solfataricus [TaxId: 2287]
Score = 42.1 bits (98), Expect = 1e-06
Identities = 16/39 (41%), Positives = 18/39 (46%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA 43
R DGR RPL+ +A GSA G T VLA
Sbjct: 28 RQDGRKLTDYRPLSITLDYAKKADGSALVKLGTTMVLAG 66
>d1e3ha3 d.14.1.4 (A:346-482) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4 {Streptomyces antibioticus [TaxId: 1890]} Length = 137
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4
species: Streptomyces antibioticus [TaxId: 1890]
Score = 41.0 bits (95), Expect = 2e-06
Identities = 16/109 (14%), Positives = 34/109 (31%), Gaps = 22/109 (20%)
Query: 13 QLRPLACYCSILHRAHGSASWSQGDTKVLAAKNENPEK---------------------- 50
+R LA + R HGSA + +G+T++L N +
Sbjct: 2 DIRTLAAEVEAIPRVHGSALFERGETQILGVTTLNMLRMEQQLDTLSPVTRKRYMHNYNF 61
Query: 51 VSIEVIWKSKTGQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQV 99
V + G ++E + + +R + + + +
Sbjct: 62 PPYSVGETGRVGSPKRREIGHGALAERAIVPVLPTREEFPYAIRQVSEA 110
>d2ba0d1 d.14.1.4 (D:10-153) Exosome complex exonuclease 1, ECX1 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 144
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease 1, ECX1
species: Archaeoglobus fulgidus [TaxId: 2234]
Score = 40.6 bits (94), Expect = 3e-06
Identities = 25/113 (22%), Positives = 46/113 (40%), Gaps = 18/113 (15%)
Query: 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA----------KNENPEKVSIE 54
R DGR ++LRP+ S+L RA GS G KV+AA ++P K I
Sbjct: 8 RLDGRKFDELRPIKIEASVLKRADGSCYLEMGKNKVIAAVFGPREVHPRHLQDPSKAIIR 67
Query: 55 VIWKSKTGQIG--------KQEKEYEMILKRTLQSICILTINPNTTTSVIIQV 99
+ + ++ E + K +++ + + P + + ++V
Sbjct: 68 YRYNMAPFSVEERKRPGPDRRSIEISKVSKEAFEAVIMKELFPRSAIDIFVEV 120
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
ID Alignment Graph Length
Definition
Probability Query 100
d2nn6b1 145
Exosome complex exonuclease RRP41 {Human (Homo sap
99.97 d2je6b1 148
Exosome complex exonuclease 1, ECX1 {Sulfolobus so
99.96 d2ba0d1 144
Exosome complex exonuclease 1, ECX1 {Archaeoglobus
99.96 d1oysa1 151
Ribonuclease PH, domain 1 {Bacillus subtilis [TaxI
99.94 d2nn6d1 122
Exosome complex exonuclease RRP46 {Human (Homo sap
99.94 d1udsa1 149
Ribonuclease PH, domain 1 {Aquifex aeolicus [TaxId
99.93 d1r6la1 151
Ribonuclease PH, domain 1 {Pseudomonas aeruginosa
99.92 d1e3ha3 137
Polynucleotide phosphorylase/guanosine pentaphosph
99.88 d2nn6e1 187
Exosome complex exonuclease RRP42 {Human (Homo sap
99.87 d2ba0g1 176
Exosome complex exonuclease 2,ECX2 {Archaeoglobus
99.86 d2nn6c1 181
Exosome complex exonuclease RRP43 {Human (Homo sap
99.86 d2je6a1 191
Exosome complex exonuclease 2,ECX2 {Sulfolobus sol
99.84 d2nn6f1 147
Exosome complex exonuclease MTR3 {Human (Homo sapi
99.84 d2nn6a1 184
Exosome complex exonuclease RRP45 {Human (Homo sap
99.77 d1e3ha2 149
Polynucleotide phosphorylase/guanosine pentaphosph
99.71 d1otga_ 125
5-carboxymethyl-2-hydroxymuconate isomerase (CHMI)
81.46
>d2nn6b1 d.14.1.4 (B:6-150) Exosome complex exonuclease RRP41 {Human (Homo sapiens) [TaxId: 9606]}
Back Hide information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP41
species: Human (Homo sapiens) [TaxId: 9606]
Probab=99.97 E-value=4.7e-30 Score=163.89 Aligned_cols=99 Identities=23% Similarity=0.401 Sum_probs=87.4
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e----------CCCCCceEEEEEee--CCC-------
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K----------NENPEKVSIEVIWK--SKT------- 61 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~----------~~~~~~~~l~v~~~--p~~------- 61 (100)
+|+|+|||+++|+|++++++|+++++||||+|++|+|+|+|+ . .+.++++.++|+|. |++
T Consensus 4 ~g~R~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~~~~~v~v~~~~~~~~~~~~~~~ 83 (145)
T d2nn6b1 4 QGYRVDGRRAGELRKIQARMGVFAQADGSAYIEQGNTKALAVVYGPHEIRGSRARALPDRALVNCQYSSATFSTGERKRR 83 (145)
T ss_dssp TTBCSSSSCTTSCCCEEEEESCSSSSSEEEEEEESSCEEEEEEEEEEECCSSSCCCCCSSCCEEEEEEECTTTSSSCCCT
T ss_pred CCccCCCCCCCCccCeEEEECCCCCCCceEEEEeCCceEEEEEEeccccccchhhccccceeEEEEeeecCccccccccc
Confidence 689999999999999999999999999999999999999999 1 24477888888775 432
Q ss_pred CCCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 62 GQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 62 g~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
+.++.++.+++.+|+++|+++|++++||++.|+|.++||
T Consensus 84 ~~~~~~~~~l~~~l~~~l~~~i~~~~~~~~~I~v~v~VL 122 (145)
T d2nn6b1 84 PHGDRKSCEMGLQLRQTFEAAILTQLHPRSQIDIYVQVL 122 (145)
T ss_dssp TTSTHHHHHHHHHHHHHHHHTTCGGGCTTEEEEEEEEEE
T ss_pred CCCCchhhhHHHHHHHhhhcccchHhhCceeeEEEEEEE
Confidence 234568899999999999999999999999999999986
>d2je6b1 d.14.1.4 (B:8-155) Exosome complex exonuclease 1, ECX1 {Sulfolobus solfataricus [TaxId: 2287]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease 1, ECX1
species: Sulfolobus solfataricus [TaxId: 2287]
Probab=99.96 E-value=3.5e-29 Score=160.39 Aligned_cols=99 Identities=26% Similarity=0.469 Sum_probs=86.9
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e---------CCCCCceEEEEEe--eCCC------CC
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K---------NENPEKVSIEVIW--KSKT------GQ 63 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~---------~~~~~~~~l~v~~--~p~~------g~ 63 (100)
+|+|+|||.++|+|++++++|+++++||||+|++|+|+|+|+ . .+.++++.++|++ .|++ +.
T Consensus 9 ~g~R~DGR~~~e~R~i~i~~g~l~~adGSa~v~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 88 (148)
T d2je6b1 9 DGKRTDGRKPDELRSIKIELGVLKNADGSAIFEMGNTKAIAAVYGPKEMHPRHLSLPDRAVLRVRYHMTPFSTDERKNPA 88 (148)
T ss_dssp TSCBTTSCCTTCCCCEEEEESCCSSSSEEEEEEETTEEEEEEEEEEEECSSGGGSCSSSCEEEEEEEECTTSSSSCCCSS
T ss_pred CCccCCCCCCCCccCeEEEECCCCCCCEEEEEEcCCccEEeecccCccccchhhcCCcceEEEEEEEecccccccccccc
Confidence 689999999999999999999999999999999999999999 1 2456777777655 4653 23
Q ss_pred CChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 64 IGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 64 ~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
++.++.+++.+|+++|+++|+++.||++.|+|+++||
T Consensus 89 ~~~~~~el~~~l~~~l~~~i~~~~~p~~~i~v~v~VL 125 (148)
T d2je6b1 89 PSRREIELSKVIREALESAVLVELFPRTAIDVFTEIL 125 (148)
T ss_dssp CCHHHHHHHHHHHHHHHTTBCGGGSTTEEEEEEEEEE
T ss_pred ccchhHHHHHHHHHHhhccccHHHcCCEEEEEEEEEE
Confidence 5678999999999999999999999999999999986
>d2ba0d1 d.14.1.4 (D:10-153) Exosome complex exonuclease 1, ECX1 {Archaeoglobus fulgidus [TaxId: 2234]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease 1, ECX1
species: Archaeoglobus fulgidus [TaxId: 2234]
Probab=99.96 E-value=7.1e-29 Score=158.02 Aligned_cols=100 Identities=25% Similarity=0.415 Sum_probs=87.2
Q ss_pred CCCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe----------eCCCCCceEEEEEee--CCC------C
Q 047153 1 MEIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA----------KNENPEKVSIEVIWK--SKT------G 62 (100)
Q Consensus 1 m~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~----------~~~~~~~~~l~v~~~--p~~------g 62 (100)
.+|+|+|||+++|+||+++++|+++++||||+|++|+|+|+|+ ..+.++++.+++++. |++ +
T Consensus 4 ~~g~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vl~~V~gp~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~ 83 (144)
T d2ba0d1 4 VDGLRLDGRKFDELRPIKIEASVLKRADGSCYLEMGKNKVIAAVFGPREVHPRHLQDPSKAIIRYRYNMAPFSVEERKRP 83 (144)
T ss_dssp CSSCBTTSCCTTCCCCEEEEECCCSSSSEEEEEEETTEEEEEEEEEEEECCSGGGCCSSSCEEEEEEEECTTSSSSCCCS
T ss_pred cCCcCCCCCCCCCccCeEEEECCCCCCCceEEEEEcccceEEEEeccchhhhhhcccccceEEEEEEecCCccccccccc
Confidence 4799999999999999999999999999999999999999998 124566777776664 543 2
Q ss_pred CCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 63 QIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 63 ~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
.++..+.+++.+|+++|+++|++++||+++|+|.++||
T Consensus 84 ~~~~~~~~l~~~l~~~l~~~i~~~~~~~~~i~v~v~VL 121 (144)
T d2ba0d1 84 GPDRRSIEISKVSKEAFEAVIMKELFPRSAIDIFVEVL 121 (144)
T ss_dssp SCCHHHHHHHHHHHHHHHTTBCGGGCTTEEEEEEEEEE
T ss_pred CCCchhhhhhhhhhhhhccccchhhcCCeEEEEEEEEE
Confidence 35678889999999999999999999999999999986
>d1oysa1 d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Bacillus subtilis [TaxId: 1423]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Ribonuclease PH, domain 1
species: Bacillus subtilis [TaxId: 1423]
Probab=99.94 E-value=2.9e-27 Score=151.44 Aligned_cols=97 Identities=24% Similarity=0.308 Sum_probs=75.5
Q ss_pred CCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe---------eCCCCCceEEEEEe--eCCC-----------
Q 047153 4 DRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA---------KNENPEKVSIEVIW--KSKT----------- 61 (100)
Q Consensus 4 ~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~---------~~~~~~~~~l~v~~--~p~~----------- 61 (100)
+|+|||+++|+|++++++|++++|||||+|++|+|+|+|+ ..+.++++.++++| .|++
T Consensus 1 lR~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~ 80 (151)
T d1oysa1 1 MRHDGRQHDELRPITFDLDFISHPEGSVLITAGNTKVICNASVEDRVPPFLRGGGKGWITAEYSMLPQATNQQTIQESSK 80 (151)
T ss_dssp CCTTSCCTTCCCCEEEECC-----CCCEEEEETTEEEEEEEEEESCCCGGGTTSCCCEEEEEEEC---------------
T ss_pred CCCCCCCCCCccCeEEEeCCCCCCCEEEEEEEcCCEEEEEEEecccccccccccccceeeeeeeeccccccccccccccC
Confidence 6999999999999999999999999999999999999998 12446677776655 4432
Q ss_pred CCCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 62 GQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 62 g~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
+..+..+.+++.+++++|+++++++.||+++|+|.|+||
T Consensus 81 ~~~~~~~~~~~~~l~~~l~~~i~l~~~~~~~i~v~v~VL 119 (151)
T d1oysa1 81 GKISGRTMEIQRLIGRALRAVVDLEKLGERTIWIDCDVI 119 (151)
T ss_dssp ----CHHHHHHHHHHHHHHHTBCHHHHCSCEEEEEEEEE
T ss_pred CcccchhhHHhHHHHHHhhhhhhhhhhccceEEEEEEEE
Confidence 223567889999999999999999999999999999986
>d2nn6d1 d.14.1.4 (D:25-146) Exosome complex exonuclease RRP46 {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP46
species: Human (Homo sapiens) [TaxId: 9606]
Probab=99.94 E-value=3e-26 Score=142.53 Aligned_cols=89 Identities=39% Similarity=0.578 Sum_probs=81.2
Q ss_pred CCCCceEEEeCCcCCCceEEEEEeCCeEEEEe---------eCCCCCceEEEEEeeCCCCCCChhHHHHHHHHHHHHHHH
Q 047153 12 NQLRPLACYCSILHRAHGSASWSQGDTKVLAA---------KNENPEKVSIEVIWKSKTGQIGKQEKEYEMILKRTLQSI 82 (100)
Q Consensus 12 ~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~---------~~~~~~~~~l~v~~~p~~g~~~~~~~e~~~~l~~~l~~~ 82 (100)
.|+|++.+++|++++|||||+|++|+|+|+|+ +.+.++++.++|+++|..+.++..+++++.+|+++|+++
T Consensus 2 ~elR~i~~~~gvl~~adGSa~~~~G~T~Vi~~V~gP~e~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~l~~~l~~~ 81 (122)
T d2nn6d1 2 CSLRHFACEQNLLSRPDGSASFLQGDTSVLAGVYGPAEVKVSKEIFNKATLEVILRPKIGLPGVAEKSRERLIRNTCEAV 81 (122)
T ss_dssp CCCCCEEEEESCCSSSSEEEEEEETTEEEEEEEEEEEECC------CCEEEEEEEECSSSCCCHHHHHHHHHHHHHHHHH
T ss_pred CccceEEEEECCCCCCCeEEEEEECCcEEEEEEEecccccchhhCcCCCceEEEeeeecCCCCchhhHHHHHHHhhhhcc
Confidence 58999999999999999999999999999999 235578899999999999988999999999999999999
Q ss_pred hccCCCCCcEEEEEEEEC
Q 047153 83 CILTINPNTTTSVIIQVW 100 (100)
Q Consensus 83 I~~~~~P~~~i~i~v~v~ 100 (100)
|++++||+++|+|.++|+
T Consensus 82 i~~~~~p~~~i~i~v~Vl 99 (122)
T d2nn6d1 82 VLGTLHPRTSITVVLQVV 99 (122)
T ss_dssp CGGGCSSSEEEEEEEEEE
T ss_pred cchhhcCCeEEEEEEEEE
Confidence 999999999999999985
>d1udsa1 d.14.1.4 (A:2-150) Ribonuclease PH, domain 1 {Aquifex aeolicus [TaxId: 63363]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Ribonuclease PH, domain 1
species: Aquifex aeolicus [TaxId: 63363]
Probab=99.93 E-value=1.1e-25 Score=143.86 Aligned_cols=96 Identities=28% Similarity=0.351 Sum_probs=82.2
Q ss_pred CCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e--------CCCCCceEEEE--EeeCCC-----------C
Q 047153 5 RADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K--------NENPEKVSIEV--IWKSKT-----------G 62 (100)
Q Consensus 5 R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~--------~~~~~~~~l~v--~~~p~~-----------g 62 (100)
|+|||+++|+|++++++|+++++||||++++|+|+|+|+ . .+.++++.+.+ ++.|++ +
T Consensus 1 R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~ 80 (149)
T d1udsa1 1 RSDGRKEDQLRPVSIQRDFLEYPEGSCLISFGKTKVICTASVIENVPNWLKGKGQGWITAEYSMLPRATQQRTIRESVQG 80 (149)
T ss_dssp CTTSCCTTCCCCEEEEECCSSSSSEEEEEEETTEEEEEEEEEESCCCGGGTTSSCCEEEEEEEECSEETTEECCCSSSSC
T ss_pred CCCCCCCCCccCeEEEeCCCCCCCEEEEEEECCCEEEEEEEeeccccccccCCCceeEEeeecchhhccccccccccccc
Confidence 899999999999999999999999999999999999999 1 24456666655 445532 2
Q ss_pred CCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 63 QIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 63 ~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
.....+.+++.+++++++++++++.||+.+|.|.|+||
T Consensus 81 ~~~~~~~~~~~~l~~~l~~~i~l~~~~~~~i~v~v~VL 118 (149)
T d1udsa1 81 RIGGRTHEIQRMIGRAMRTAVELTKIGERTIWVDCDVI 118 (149)
T ss_dssp CCCHHHHHHHHHHHHHHHHHBCGGGSCSCEEEEEEEEE
T ss_pred ccccchhHHHHHHHhhhhheehhhhcCCceEEEEEEEE
Confidence 34567889999999999999999999999999999996
>d1r6la1 d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Pseudomonas aeruginosa [TaxId: 287]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Ribonuclease PH, domain 1
species: Pseudomonas aeruginosa [TaxId: 287]
Probab=99.92 E-value=1.7e-24 Score=138.33 Aligned_cols=97 Identities=23% Similarity=0.283 Sum_probs=79.8
Q ss_pred CCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e--------CCCCCceEEEEEe--eCCCC----------
Q 047153 4 DRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K--------NENPEKVSIEVIW--KSKTG---------- 62 (100)
Q Consensus 4 ~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~--------~~~~~~~~l~v~~--~p~~g---------- 62 (100)
.|+|||+++|+|++++++|+++++||||+|++|+|+|+|+ . .+.++++.+.+++ .|++.
T Consensus 2 ~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~ 81 (151)
T d1r6la1 2 NRPSGRAADQLRPIRITRHYTKHAEGSVLVEFGDTKVICTVSAESGVPRFLKGQGQGWLTAEYGMLPRSTGERNQREASR 81 (151)
T ss_dssp CCTTCCCTTCCCCEEEESSCSSSSSEEEEEEETTEEEEEEEEEEESCSSCCC---CCEEEEEEEECTTSSSSCCCCHHHH
T ss_pred CCCCCCCCCCccCeEEEeCCCCCCCEEEEEEeCCCEEEEEEEecccccccccCCCceeEEEEEEecCccccccccccCCC
Confidence 5999999999999999999999999999999999999999 1 2335566666544 55432
Q ss_pred -CCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 63 -QIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 63 -~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
.....+.+++.++.+++++.++++.||+.+|.|.++||
T Consensus 82 ~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~i~v~v~VL 120 (151)
T d1r6la1 82 GKQGGRTLEIQRLIGRSLRAALDLSKLGENTLYIDCDVI 120 (151)
T ss_dssp TSCCHHHHHHHHHHHHHHHHTBCGGGTCSEEEEEEEEEE
T ss_pred ccccccchhHHHHHHhhhhhccchhhhCceEEEEEEEEE
Confidence 12346668899999999999999999999999999986
>d1e3ha3 d.14.1.4 (A:346-482) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4 {Streptomyces antibioticus [TaxId: 1890]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4
species: Streptomyces antibioticus [TaxId: 1890]
Probab=99.88 E-value=3.7e-22 Score=125.83 Aligned_cols=89 Identities=16% Similarity=0.224 Sum_probs=72.2
Q ss_pred CCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e---------CCC---CCceEEEEEe--eCCC-------CCCChhHH
Q 047153 12 NQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K---------NEN---PEKVSIEVIW--KSKT-------GQIGKQEK 69 (100)
Q Consensus 12 ~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~---------~~~---~~~~~l~v~~--~p~~-------g~~~~~~~ 69 (100)
+|+|++++++|++++|||||+|++|+|+|+|+ . ... .....+.+.+ .|++ +.++.++.
T Consensus 1 tE~R~i~~~~gv~~~adGSa~~~~G~T~Vl~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (137)
T d1e3ha3 1 TDIRTLAAEVEAIPRVHGSALFERGETQILGVTTLNMLRMEQQLDTLSPVTRKRYMHNYNFPPYSVGETGRVGSPKRREI 80 (137)
T ss_dssp TCCCCEEEEECCSSSSSEEEEEEETTEEEEEEEEEEEGGGSEECCSSSSCCEESEEEEEECCGGGGTCCCCCSSCCHHHH
T ss_pred CCcceEEEEeCCCCCCCeeEEEEECCeEEEEEEccCccCccccccccCcceeeeeeeecccccccccccccccccccccc
Confidence 58999999999999999999999999999998 1 011 1223334444 3432 33578999
Q ss_pred HHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 70 EYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 70 e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
+++.++.++|+++|++++||+++|+|.++||
T Consensus 81 ~~~~~i~~~l~~~i~~~~~~~~~I~v~v~vl 111 (137)
T d1e3ha3 81 GHGALAERAIVPVLPTREEFPYAIRQVSEAL 111 (137)
T ss_dssp HHHHHHHHHHGGGCCCTTTSCEEEEEEEEEE
T ss_pred ccchHHHHHHHhccchhhcCcEEEEEEEEEe
Confidence 9999999999999999999999999999986
>d2nn6e1 d.14.1.4 (E:5-191) Exosome complex exonuclease RRP42 {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP42
species: Human (Homo sapiens) [TaxId: 9606]
Probab=99.87 E-value=9.4e-22 Score=129.45 Aligned_cols=99 Identities=20% Similarity=0.149 Sum_probs=78.4
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e-------CCCCCceE--EEEEeeCCCC------CCC
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K-------NENPEKVS--IEVIWKSKTG------QIG 65 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~-------~~~~~~~~--l~v~~~p~~g------~~~ 65 (100)
+++|+|||+++|+|++++++|+++++||||+|++|+|+|+|+ + ...++++. ++|++.|+++ .++
T Consensus 16 ~~iR~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~~~~~~~~~~~~~~g~~~~~v~~~~~~~~~~~~~~~~ 95 (187)
T d2nn6e1 16 EDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAEMGTPKLEKPNEGYLEFFVDCSASATPEFEGRGGD 95 (187)
T ss_dssp TTCCSSSCCSSCCCCCEEEECCCTTSSSEEEEEETTEEEEEECCCCCSCCCSSSCSSCCEEEECCCCTTTCSSCCTTSTH
T ss_pred hCCCCCCcCCCCccCeEEEeCccCCCCceEEEEeCCceEEEEEEeccccccccccccceeeeeeeeccccccCcCCCCcc
Confidence 689999999999999999999999999999999999999999 1 23445444 4556666542 233
Q ss_pred hhHHHHHHHHHHHHHHHhcc--------CCCCCcEEEEEEEEC
Q 047153 66 KQEKEYEMILKRTLQSICIL--------TINPNTTTSVIIQVW 100 (100)
Q Consensus 66 ~~~~e~~~~l~~~l~~~I~~--------~~~P~~~i~i~v~v~ 100 (100)
....+++.+++++|++.... +.++..+|.|.|+||
T Consensus 96 ~~~~~ls~~l~~~l~~~~~~d~~~L~i~~~~~~w~i~v~v~vL 138 (187)
T d2nn6e1 96 DLGTEIANTLYRIFNNKSSVDLKTLCISPREHCWVLYVDVLLL 138 (187)
T ss_dssp HHHHHHHHHHHHHHHHSCCSCSSSSCSSTTTCCCCEEEEEEEC
T ss_pred hHHHHHHHHHHHHhccccccchhhheecCCCccEEEEEEEEEe
Confidence 56778888999999876543 347788999999986
>d2ba0g1 d.14.1.4 (G:3-178) Exosome complex exonuclease 2,ECX2 {Archaeoglobus fulgidus [TaxId: 2234]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease 2,ECX2
species: Archaeoglobus fulgidus [TaxId: 2234]
Probab=99.86 E-value=2.9e-21 Score=126.12 Aligned_cols=100 Identities=22% Similarity=0.284 Sum_probs=76.9
Q ss_pred CCCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e-------CCCCCceEE--EEEeeCCC------CCC
Q 047153 1 MEIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K-------NENPEKVSI--EVIWKSKT------GQI 64 (100)
Q Consensus 1 m~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~-------~~~~~~~~l--~v~~~p~~------g~~ 64 (100)
++++|+|||+++|+|++++++|+++++||||+|++|+|+|+|+ + ...++++.+ +|++.|++ +.+
T Consensus 17 ~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~~~~~~p~~~~~~~g~~~~~v~~~~~~~~~~~~~~~ 96 (176)
T d2ba0g1 17 RDNERIDGRGFDEFRKVEIIPNVIEKAEGSALVKLGDTQVVVGVKMQPGEPYPDTPDRGVIIVNAELVPLASPTFEPGPP 96 (176)
T ss_dssp TTTCCTTCCCTTCCCCEEEEECCCTTSSEEEEEEETTEEEEEEEEEEEECCCTTCTTCCEEEEEEECCTTTCTTSCSSSC
T ss_pred HhCCCCCCCCCCCccCeEEEeCccCCCCeEEEEEeCCcEEEEEEeccccccccccCCCceeeeeeEeccccCccccCCCC
Confidence 4789999999999999999999999999999999999999999 1 344566555 45666643 334
Q ss_pred ChhHHHHHHHHHHHHHHH--hcc------CCCCCcEEEEEEEEC
Q 047153 65 GKQEKEYEMILKRTLQSI--CIL------TINPNTTTSVIIQVW 100 (100)
Q Consensus 65 ~~~~~e~~~~l~~~l~~~--I~~------~~~P~~~i~i~v~v~ 100 (100)
+..+.+++.++++++.+. +.+ ..++..+|+|.|+||
T Consensus 97 ~~~~~~~~~~l~~~~~~~~~i~~e~L~i~~~~~~~~i~i~v~VL 140 (176)
T d2ba0g1 97 DENSIELARVVDRGIRESEAVDLSKLVIEEGEKVWIVFVDIHAL 140 (176)
T ss_dssp CHHHHHHHHHHHHHHHHTTCBCGGGGEEETTTEEEEEEEEEEEE
T ss_pred CchhHHHHHHHHHhhccccccchhhccCCCCCceEEEEEEEEEE
Confidence 567788889999888664 222 223346899988885
>d2nn6c1 d.14.1.4 (C:7-187) Exosome complex exonuclease RRP43 {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP43
species: Human (Homo sapiens) [TaxId: 9606]
Probab=99.86 E-value=6.6e-21 Score=124.04 Aligned_cols=99 Identities=22% Similarity=0.279 Sum_probs=77.7
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e-------CCCCCc--eEEEEEeeCCC------CCCC
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K-------NENPEK--VSIEVIWKSKT------GQIG 65 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~-------~~~~~~--~~l~v~~~p~~------g~~~ 65 (100)
+++|+|||+++|+|++++++|+++++||||++++|+|+|+|+ . ...+++ ..+++++.+.+ +.+.
T Consensus 14 ~giR~DGR~~~e~R~~~i~~g~l~~a~GSa~v~~G~T~v~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (181)
T d2nn6c1 14 ENCRPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICGVKAEFAAPSTDAPDKGYVVPNVDLPPLCSSRFRSGPPG 93 (181)
T ss_dssp TSCCTTSCCSCCCCSCCEEETCCSSSSEEEEEEETTEEEEEEEEEEECCCCSSSTTCCCCEEEEECCSSSCTTSCSSSCC
T ss_pred cCCCCCCcCCCCccCeEEEeCCcCCCCeEEEEEeCCcEEEEEEeccccccccccCCCceeeeeeeeeccccccccccCCC
Confidence 689999999999999999999999999999999999999999 1 223344 44455555432 2334
Q ss_pred hhHHHHHHHHHHHH--------HHHhccCCCCCcEEEEEEEEC
Q 047153 66 KQEKEYEMILKRTL--------QSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 66 ~~~~e~~~~l~~~l--------~~~I~~~~~P~~~i~i~v~v~ 100 (100)
....+++..+.+.+ ++.++++.+|..+|+|.++||
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~l~i~~~~~~~~i~i~v~vl 136 (181)
T d2nn6c1 94 EEAQVASQFIADVIENSQIIQKEDLCISPGKLVWVLYCDLICL 136 (181)
T ss_dssp HHHHHHHHHHHHHHHHHCCSCHHHHCSSBTTBCEEEEEEEEES
T ss_pred chhhhhHHHHHHHHHhhhhhhhhhccccCCcceEEEEEEEEEe
Confidence 66777788887775 555567789999999999986
>d2je6a1 d.14.1.4 (A:1-191) Exosome complex exonuclease 2,ECX2 {Sulfolobus solfataricus [TaxId: 2287]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease 2,ECX2
species: Sulfolobus solfataricus [TaxId: 2287]
Probab=99.84 E-value=3.2e-20 Score=122.36 Aligned_cols=99 Identities=25% Similarity=0.253 Sum_probs=76.7
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe--------eCCCCCceEEEE--EeeCCC------CCCC
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA--------KNENPEKVSIEV--IWKSKT------GQIG 65 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~--------~~~~~~~~~l~v--~~~p~~------g~~~ 65 (100)
+|+|+|||+++|+|++++++|+++++||||++++|+|+|+|+ ....++.+.+.+ ++.+.+ +...
T Consensus 25 ~giR~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~a~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 104 (191)
T d2je6a1 25 KGIRQDGRKLTDYRPLSITLDYAKKADGSALVKLGTTMVLAGTKLEIDKPYEDTPNQGNLIVNVELLPLAYETFEPGPPD 104 (191)
T ss_dssp GTBCTTSCBTTCCCCEEEEETCSTTSSEEEEEEETTEEEEEEEEEEEECCCTTCTTCCEEEEEEEECTTSCTTCCCSSCC
T ss_pred cCCCCCCcCCCCccCeEEEECCccCcCceEEEEcCCceEEEEEEecccCchhccCccCccccccccccccccccccccCC
Confidence 689999999999999999999999999999999999999999 124456665554 444432 2345
Q ss_pred hhHHHHHHHHHHHHHHHhccC--------CCCCcEEEEEEEEC
Q 047153 66 KQEKEYEMILKRTLQSICILT--------INPNTTTSVIIQVW 100 (100)
Q Consensus 66 ~~~~e~~~~l~~~l~~~I~~~--------~~P~~~i~i~v~v~ 100 (100)
....+++.+|++++......+ .++...|+|.++||
T Consensus 105 ~~~~~l~~~l~~~~~~~~~id~~~l~i~~~~~~w~I~v~v~VL 147 (191)
T d2je6a1 105 ENAIELARVVDRSLRDSKALDLTKLVIEPGKSVWTVWLDVYVL 147 (191)
T ss_dssp HHHHHHHHHHHHHHHHTTCSCGGGGEEETTTEEEEEEEEEEEE
T ss_pred cchhHHHHHHHHhhcchhhcccccccccCccccEEEEEEEEEE
Confidence 678888999999887654433 34456788888875
>d2nn6f1 d.14.1.4 (F:29-175) Exosome complex exonuclease MTR3 {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease MTR3
species: Human (Homo sapiens) [TaxId: 9606]
Probab=99.84 E-value=2.7e-21 Score=122.33 Aligned_cols=93 Identities=28% Similarity=0.388 Sum_probs=76.3
Q ss_pred CCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe-e---C----C-------------CCCc--eEEEEEeeCCCC--
Q 047153 8 GRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA-K---N----E-------------NPEK--VSIEVIWKSKTG-- 62 (100)
Q Consensus 8 GR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~-~---~----~-------------~~~~--~~l~v~~~p~~g-- 62 (100)
.|+++|+|++++++|++++|||||+|++|+|+|+|+ + . . .... ..+++++.|+++
T Consensus 2 ~R~~~e~R~i~i~~gvi~~a~GSa~v~~G~T~V~~~V~gp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (147)
T d2nn6f1 2 TRDPTRLRPVYARAGLLSQAKGSAYLEAGGTKVLCAVSGPRQAEGGERGGGPAGAGGEAPAALRGRLLCDFRRAPFAGRR 81 (147)
T ss_dssp CCCSSCCCCCCCCCSCCSSSSEEECCCSSSCEEEEEEEEEECC-------------------CBCEEEEEEEECTTSSSS
T ss_pred CCCCCCccceEEEeCCCCCCCEEEEEEECCeEEEEEEeccccccccccCCccccccccccccccceeEEEEEecCCcccc
Confidence 588999999999999999999999999999999999 1 0 0 0122 334556667543
Q ss_pred ----CCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 63 ----QIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 63 ----~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
.+...+.+++.++...++++++++.||++.|+|.++||
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~v~v~Vl 123 (147)
T d2nn6f1 82 RRAPPGGCEERELALALQEALEPAVRLGRYPRAQLEVSALLL 123 (147)
T ss_dssp CCCSCCHHHHHHHHHHHHHHHTTTBCSTTSBTCEEEEEEEEE
T ss_pred ccccCCccchhhhhhhhhhcccccccccccCCEEEEEEEEEE
Confidence 23467889999999999999999999999999999986
>d2nn6a1 d.14.1.4 (A:1-184) Exosome complex exonuclease RRP45 {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP45
species: Human (Homo sapiens) [TaxId: 9606]
Probab=99.77 E-value=3.8e-18 Score=111.77 Aligned_cols=96 Identities=16% Similarity=0.165 Sum_probs=72.1
Q ss_pred CCCCCCCCCCCCCCceEEEeCCcCCCceEEEEEeCCeEEEEe--------eCCCCCce--EEEEEeeCCCC------CCC
Q 047153 2 EIDRADGRNPNQLRPLACYCSILHRAHGSASWSQGDTKVLAA--------KNENPEKV--SIEVIWKSKTG------QIG 65 (100)
Q Consensus 2 ~~~R~DGR~~~e~R~i~~~~g~~~~a~GSa~~~~G~T~V~~~--------~~~~~~~~--~l~v~~~p~~g------~~~ 65 (100)
+++|+|||+++|+|++.+++|. +||||++++|+|+|+|+ ....++++ .+++++.|.++ .++
T Consensus 20 ~~~R~DGR~~~e~R~~~i~~g~---a~GSa~v~~G~T~V~~~V~~~~~~p~~~~~~~g~~~~~v~~~~~~~~~~~~~~~~ 96 (184)
T d2nn6a1 20 EKKRLDGRQTYDYRNIRISFGT---DYGCCIVELGKTRVLGQVSCELVSPKLNRATEGILFFNLELSQMAAPAFEPGRQS 96 (184)
T ss_dssp TTCCTTSCCTTCCCCCEEEECS---STTEEEEESSSCEEEEEECCEEECCCSTTTTSCCEEEEEEECTTTCSSCCSSSTH
T ss_pred hCcCCCCCCCCCcCCeEEEecC---CCCEEEEEeCCCEEEEEEEeccccccccCCCccceeEEEEeccccCcccccCCCC
Confidence 6899999999999999999984 89999999999999999 12345544 55667776543 233
Q ss_pred hhHHHHHHHHHHHHHHHhccCC--------CCCcEEEEEEEEC
Q 047153 66 KQEKEYEMILKRTLQSICILTI--------NPNTTTSVIIQVW 100 (100)
Q Consensus 66 ~~~~e~~~~l~~~l~~~I~~~~--------~P~~~i~i~v~v~ 100 (100)
..+.+++..|++.+......+. ++.-.|+|.|+||
T Consensus 97 ~~~~~l~~~l~~~~~~~~~~d~~~L~i~~~~~~w~i~i~v~VL 139 (184)
T d2nn6a1 97 DLLVKLNRLMERCLRNSKCIDTESLCVVAGEKVWQIRVDLHLL 139 (184)
T ss_dssp HHHTHHHHHHHHHHHHHTCBCSSSSCSBTTTBEEEEEEEEEEC
T ss_pred chhHHHHHHHHhhhhhhhhhhhhhhccccccCcEEEEEEEEEE
Confidence 4566778888888877644433 3345789999886
>d1e3ha2 d.14.1.4 (A:3-151) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4 {Streptomyces antibioticus [TaxId: 1890]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4
species: Streptomyces antibioticus [TaxId: 1890]
Probab=99.71 E-value=6.7e-17 Score=103.07 Aligned_cols=96 Identities=15% Similarity=0.137 Sum_probs=74.7
Q ss_pred CCCCCCCCCCCCceEEEeCCcC-CCceEEEEEeCCeEEEEe----e-C--CCCC--ceEEEEEee--C---C-------C
Q 047153 4 DRADGRNPNQLRPLACYCSILH-RAHGSASWSQGDTKVLAA----K-N--ENPE--KVSIEVIWK--S---K-------T 61 (100)
Q Consensus 4 ~R~DGR~~~e~R~i~~~~g~~~-~a~GSa~~~~G~T~V~~~----~-~--~~~~--~~~l~v~~~--p---~-------~ 61 (100)
.++|+|...+ |+|++++|+++ +|||||+|++|+|+|+|+ . . ...+ ...+++... + . .
T Consensus 8 ~~~~~~~~~~-R~i~ie~G~lakqA~GSalv~~G~T~vl~ta~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~rre 86 (149)
T d1e3ha2 8 AVIDNGAFGT-RTIRFETGRLARQAAGSAVAYLDDDTMVLSATTASKNPKDQLDFFPLTVDVEERMYAAGKIPGSFFRRE 86 (149)
T ss_dssp EEEECGGGCE-EEEEEEESSSCTTSSEEEEEEETTTEEEEEEEEECSSCCTTCSSCCEEEEEEECGGGGTCCCCSTTSSC
T ss_pred EEEeCCcCCC-cEEEEEeCcccccCCceEEEEECCcEEEEEeeecccccccccccCCceeEEEEeccccccccccccccc
Confidence 3678887666 99999999996 799999999999999988 1 1 1122 334443332 1 1 2
Q ss_pred CCCChhHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEC
Q 047153 62 GQIGKQEKEYEMILKRTLQSICILTINPNTTTSVIIQVW 100 (100)
Q Consensus 62 g~~~~~~~e~~~~l~~~l~~~I~~~~~P~~~i~i~v~v~ 100 (100)
+.+++++.+++.+|.++|++++..+.++..+|.+.|.++
T Consensus 87 ~~~~~reil~~rlidR~Lrpl~p~~~~~~~qI~~~vl~~ 125 (149)
T d1e3ha2 87 GRPSEDAILTCRLIDRPLRPSFKKGLRNEIQVVATIMAL 125 (149)
T ss_dssp CSCCHHHHHHHHHHHHHHHHHBCTTBCSCEEEEEEEEEC
T ss_pred cccchHHHHHHHHHHHHHHhhccccCCCceEEEEEEEEe
Confidence 346789999999999999999999999999999999874
>d1otga_ d.80.1.2 (A:) 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) {Escherichia coli [TaxId: 562]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Tautomerase/MIF
superfamily: Tautomerase/MIF
family: 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI)
domain: 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI)
species: Escherichia coli [TaxId: 562]
Probab=81.46 E-value=1.6 Score=25.25 Aligned_cols=52 Identities=6% Similarity=0.064 Sum_probs=36.3
Q ss_pred EEEeCCeEEEEe-------eCCCCCceEEEEEeeCCCCCCChhHHHHHHHHHHHHHHHh
Q 047153 32 SWSQGDTKVLAA-------KNENPEKVSIEVIWKSKTGQIGKQEKEYEMILKRTLQSIC 83 (100)
Q Consensus 32 ~~~~G~T~V~~~-------~~~~~~~~~l~v~~~p~~g~~~~~~~e~~~~l~~~l~~~I 83 (100)
.|..|+.|+-+- ....++.++|+|.++-.+|.....-++++..|-.+++...
T Consensus 33 ~F~~~~IK~Ra~~~~~~~vadg~~~~~Fvhv~l~il~GRs~e~k~~l~~~l~~~l~~~l 91 (125)
T d1otga_ 33 IFPLAGIRSRVHWVDTWQMADGQHDYAFVHMTLKIGAGRSLESRQQAGEMLFELIKTHF 91 (125)
T ss_dssp SSCGGGCEEEEEEESSEEETTSCSCEEEEEEEEEECTTCCHHHHHHHHHHHHHHHHHHT
T ss_pred CCCccccEEeEEEcceEEECCCCCCCeEEEEEeeecCCCCHHHHHHHHHHHHHHHHHHH
Confidence 344455555554 1356788999999998888766667777777777777654
