Psyllid ID: psy6265

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-
Protein Sequence
MNSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW
Secondary Structure (PSIPRED)
cccEEEEEEEcccEEEEEEEcccccHHHHHccHHHHHHccccEEEEccHHHHHHHHcccccEEEEEEEEcHHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHccccEEEEEEEccccHEEEEEccHEEccccccEEEEccHHHHHHHccccccEEEEEEEccHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
mnstvqgplqrKTIMLCIfagdvtpieimchlpavcedkdipycyvpskkdigealgrkkpciCVIVKSTESVAELYEEVKQEIGALPVTW
Flexible Loop (DISEMBL)
mnstvqgplqrKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDigealgrkkPCICVIVKSTESVAELYEEVkqeigalpvtw
Low Complexity Region (SEG)
MNSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW
Disordered region (IsUnstruct)
**********RKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEI*******
Disordered Region (DISOPRED)
*NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW
Disordered Region (DISEMBL)
********LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW
Disordered Region (DISPRO)
*NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVT*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPVTW
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	91	2.2.26 [Sep-21-2011]
Q9V3U2	160	H/ACA ribonucleoprotein c	yes	N/A	0.934	0.531	0.517	4e-22
Q6XIP0	160	H/ACA ribonucleoprotein c	N/A	N/A	0.934	0.531	0.505	7e-22
Q8I7X7	159	H/ACA ribonucleoprotein c	N/A	N/A	0.923	0.528	0.488	3e-18
Q60YI3	163	Putative H/ACA ribonucleo	N/A	N/A	0.934	0.521	0.423	3e-17
Q9XXD4	163	Putative H/ACA ribonucleo	yes	N/A	0.934	0.521	0.423	5e-17
Q5E950	153	H/ACA ribonucleoprotein c	yes	N/A	0.923	0.549	0.440	6e-16
Q6P8C4	149	H/ACA ribonucleoprotein c	yes	N/A	0.956	0.583	0.413	7e-16
Q9NX24	153	H/ACA ribonucleoprotein c	yes	N/A	0.813	0.483	0.459	8e-16
Q6NTV9	149	H/ACA ribonucleoprotein c	N/A	N/A	0.956	0.583	0.413	8e-16
Q9CRB2	153	H/ACA ribonucleoprotein c	yes	N/A	0.791	0.470	0.472	1e-15

>sp|Q9V3U2|NHP2_DROME H/ACA ribonucleoprotein complex subunit 2-like protein OS=Drosophila melanogaster GN=NHP2 PE=1 SV=1

 Score =  103 bits (256), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 44/85 (51%), Positives = 63/85 (74%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L++    +CIFAGDVTP++IMCHLPAVCE+K IPY Y PS+ D+G A+G K+  + 
Sbjct: 74  VQTRLRKGETGICIFAGDVTPVDIMCHLPAVCEEKGIPYTYTPSRADLGAAMGVKRGTVA 133

Query: 65  VIVKSTESVAELYEEVKQEIGALPV 89
           ++V+  E   +LY+EVK+E+ AL +
Sbjct: 134 LLVRQNEEYKDLYDEVKEELSALNI 158

Required for ribosome biogenesis. Part of a complex which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Pseudouridine ("psi") residues may serve to stabilize the conformation of rRNAs.
Drosophila melanogaster (taxid: 7227)

>sp|Q6XIP0|NHP2_DROYA H/ACA ribonucleoprotein complex subunit 2-like protein OS=Drosophila yakuba GN=NHP2 PE=2 SV=1

 Score =  102 bits (254), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 43/85 (50%), Positives = 63/85 (74%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L++    +CIFAGDVTP++IMCHLPAVCE+K IPY Y PS+ D+G A+G K+  + 
Sbjct: 74  VQTRLRKGETGICIFAGDVTPVDIMCHLPAVCEEKGIPYAYTPSRADLGAAMGVKRGTVA 133

Query: 65  VIVKSTESVAELYEEVKQEIGALPV 89
           ++V+  +   +LY+EVK+E+ AL +
Sbjct: 134 LLVRQNDEYKDLYDEVKEELSALNI 158

Required for ribosome biogenesis. Part of a complex which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Pseudouridine ("psi") residues may serve to stabilize the conformation of rRNAs.

Drosophila yakuba (taxid: 7245)

>sp|Q8I7X7|NHP2_BRABE H/ACA ribonucleoprotein complex subunit 2-like protein OS=Branchiostoma belcheri PE=2 SV=1

 Score = 90.1 bits (222), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 41/84 (48%), Positives = 56/84 (66%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  +++    + + AGD TPIE+ CHLP VCED  IPYCYVP+K+D+GEA G K+P  C
Sbjct: 73  VQKFIKKGERGIVLIAGDTTPIEVYCHLPVVCEDAKIPYCYVPAKQDLGEAAGSKRPTCC 132

Query: 65  VIVKSTESVAELYEEVKQEIGALP 88
           V++K  ES    Y+E   ++  LP
Sbjct: 133 VLLKPNESYQSSYDECLTDVTTLP 156

Required for ribosome biogenesis. Part of a complex which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Pseudouridine ("psi") residues may serve to stabilize the conformation of rRNAs.

Branchiostoma belcheri (taxid: 7741)

>sp|Q60YI3|NHP2_CAEBR Putative H/ACA ribonucleoprotein complex subunit 2-like protein OS=Caenorhabditis briggsae GN=CBG18231 PE=3 SV=1

 Score = 87.0 bits (214), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 36/85 (42%), Positives = 59/85 (69%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L++    +CI AG+V+PI++  H+PA+CE+K+IPY Y+PS++ +G A+G ++P I 
Sbjct: 76  VQKELRKNEKGICILAGNVSPIDVYSHIPAICEEKEIPYVYIPSREQLGLAVGHRRPSIL 135

Query: 65  VIVKSTESVAELYEEVKQEIGALPV 89
           + VK +    ELY+EV + +  L V
Sbjct: 136 IFVKPSADFQELYDEVAETLHHLTV 160

Required for ribosome biogenesis. Part of a complex which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Pseudouridine ("psi") residues may serve to stabilize the conformation of rRNAs.

Caenorhabditis briggsae (taxid: 6238)

>sp|Q9XXD4|NHP2_CAEEL Putative H/ACA ribonucleoprotein complex subunit 2-like protein OS=Caenorhabditis elegans GN=Y48A6B.3 PE=3 SV=1

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 36/85 (42%), Positives = 58/85 (68%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L+R    +CI AG+V+PI++  H+P +CE+K+IPY Y+PS++ +G A+G ++P I 
Sbjct: 76  VQKELRRNEKGICILAGNVSPIDVYSHIPGICEEKEIPYVYIPSREQLGLAVGHRRPSIL 135

Query: 65  VIVKSTESVAELYEEVKQEIGALPV 89
           + VK +    ELY+EV + +  L V
Sbjct: 136 IFVKPSGDFKELYDEVAEALRHLTV 160

Required for ribosome biogenesis. Part of a complex which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Pseudouridine ("psi") residues may serve to stabilize the conformation of rRNAs.

Caenorhabditis elegans (taxid: 6239)

>sp|Q5E950|NHP2_BOVIN H/ACA ribonucleoprotein complex subunit 2 OS=Bos taurus GN=NHP2 PE=2 SV=1

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 37/84 (44%), Positives = 54/84 (64%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  + +    + + AGD  PIE+ CHLP +CED+++PY Y+PSK D+G A G K+P   
Sbjct: 67  VQKFINKGEKGIMVLAGDTLPIEVYCHLPVMCEDRNLPYVYIPSKTDLGAAAGSKRPTCV 126

Query: 65  VIVKSTESVAELYEEVKQEIGALP 88
           ++VK  E   E Y+E  +E+ ALP
Sbjct: 127 IMVKPHEEYQEAYDECLEEVQALP 150

Required for ribosome biogenesis and telomere maintenance. Part of the H/ACA small nucleolar ribonucleoprotein (H/ACA snoRNP) complex, which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Each rRNA can contain up to 100 pseudouridine ("psi") residues, which may serve to stabilize the conformation of rRNAs. May also be required for correct processing or intranuclear trafficking of TERC, the RNA component of the telomerase reverse transcriptase (TERT) holoenzyme.

Bos taurus (taxid: 9913)

>sp|Q6P8C4|NHP2_XENTR H/ACA ribonucleoprotein complex subunit 2-like protein OS=Xenopus tropicalis GN=nhp2 PE=2 SV=1

 Score = 82.4 bits (202), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 36/87 (41%), Positives = 55/87 (63%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  + +    + + AGD  PIE+ CH+P +CED+ IPY YVPSK D+G A G K+P   
Sbjct: 63  VQKFINKGEKGIVVMAGDTLPIEVYCHIPVMCEDRGIPYSYVPSKSDLGAAAGSKRPTCV 122

Query: 65  VIVKSTESVAELYEEVKQEIGALPVTW 91
           +++K  E   E Y+E  +++ ALP+ +
Sbjct: 123 ILIKPHEDYQEAYDECLEDVQALPLPY 149

Required for ribosome biogenesis. Part of a complex which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Pseudouridine ("psi") residues may serve to stabilize the conformation of rRNAs.

Xenopus tropicalis (taxid: 8364)

>sp|Q9NX24|NHP2_HUMAN H/ACA ribonucleoprotein complex subunit 2 OS=Homo sapiens GN=NHP2 PE=1 SV=1

 Score = 82.4 bits (202), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 34/74 (45%), Positives = 51/74 (68%)

Query: 16  LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75
           + + AGD  PIE+ CHLP +CED+++PY Y+PSK D+G A G K+P   ++VK  E   E
Sbjct: 78  IMVLAGDTLPIEVYCHLPVMCEDRNLPYVYIPSKTDLGAAAGSKRPTCVIMVKPHEEYQE 137

Query: 76  LYEEVKQEIGALPV 89
            Y+E  +E+ +LP+
Sbjct: 138 AYDECLEEVQSLPL 151

Required for ribosome biogenesis and telomere maintenance. Part of the H/ACA small nucleolar ribonucleoprotein (H/ACA snoRNP) complex, which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Each rRNA can contain up to 100 pseudouridine ("psi") residues, which may serve to stabilize the conformation of rRNAs. May also be required for correct processing or intranuclear trafficking of TERC, the RNA component of the telomerase reverse transcriptase (TERT) holoenzyme.

Homo sapiens (taxid: 9606)

>sp|Q6NTV9|NHP2_XENLA H/ACA ribonucleoprotein complex subunit 2-like protein OS=Xenopus laevis GN=nhp2 PE=2 SV=1

 Score = 82.4 bits (202), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 36/87 (41%), Positives = 55/87 (63%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  + +    + + AGD  PIE+ CH+P +CED+ IPY YVPSK D+G A G K+P   
Sbjct: 63  VQKFINKGEKGIVVMAGDTLPIEVYCHIPVMCEDRGIPYSYVPSKSDLGAAAGSKRPTCV 122

Query: 65  VIVKSTESVAELYEEVKQEIGALPVTW 91
           +++K  E   E Y+E  +++ ALP+ +
Sbjct: 123 ILIKPHEDYQEAYDECLEDVQALPLPY 149

Required for ribosome biogenesis. Part of a complex which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Pseudouridine ("psi") residues may serve to stabilize the conformation of rRNAs.

Xenopus laevis (taxid: 8355)

>sp|Q9CRB2|NHP2_MOUSE H/ACA ribonucleoprotein complex subunit 2 OS=Mus musculus GN=Nhp2 PE=2 SV=1

 Score = 81.6 bits (200), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 34/72 (47%), Positives = 49/72 (68%)

Query: 18  IFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELY 77
           + AGD  PIE+ CHLP +CED+++PY Y+PSK D+G A G K+P   ++VK  E   E Y
Sbjct: 80  VLAGDTLPIEVYCHLPVLCEDQNLPYVYIPSKTDLGAATGSKRPTCVIMVKPHEEYQETY 139

Query: 78  EEVKQEIGALPV 89
           ++  +E+ ALP 
Sbjct: 140 DKCLEEVQALPT 151

Required for ribosome biogenesis and telomere maintenance. Part of the H/ACA small nucleolar ribonucleoprotein (H/ACA snoRNP) complex, which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Each rRNA can contain up to 100 pseudouridine ("psi") residues, which may serve to stabilize the conformation of rRNAs. May also be required for correct processing or intranuclear trafficking of TERC, the RNA component of the telomerase reverse transcriptase (TERT) holoenzyme.

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	91
357623621	156	nucleolar protein family A member 2 [Dan	0.912	0.532	0.590	4e-21
312379270	155	hypothetical protein AND_08934 [Anophele	0.934	0.548	0.541	6e-21
194870978	160	GG13705 [Drosophila erecta] gi|190654543	0.934	0.531	0.517	8e-21
21356151	160	NHP2, isoform A [Drosophila melanogaster	0.934	0.531	0.517	1e-20
195378462	160	GJ11595 [Drosophila virilis] gi|19415516	0.934	0.531	0.517	2e-20
240848641	150	H/ACA ribonucleoprotein complex subunit	0.956	0.58	0.494	3e-20
195494390	160	NHP2 [Drosophila yakuba] gi|68565896|sp|	0.934	0.531	0.505	3e-20
225708982	155	H/ACA ribonucleoprotein complex subunit	0.945	0.554	0.488	4e-20
114051934	156	nucleolar protein family A member 2 [Bom	0.912	0.532	0.578	4e-20
225709836	155	H/ACA ribonucleoprotein complex subunit	0.945	0.554	0.488	5e-20

>gi|357623621|gb|EHJ74705.1| nucleolar protein family A member 2 [Danaus plexippus]

 Score =  105 bits (261), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 49/83 (59%), Positives = 61/83 (73%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L+     + +FAGD++PIEIMCHLPAVCE+KD+PYCY PS+KDIG A+G  + CI 
Sbjct: 70  VQKQLRLGEKGIVVFAGDISPIEIMCHLPAVCEEKDVPYCYTPSRKDIGSAMGTMRGCIM 129

Query: 65  VIVKSTESVAELYEEVKQEIGAL 87
           V+VK  E   +LYEEVK EI  L
Sbjct: 130 VLVKEHEEYKDLYEEVKSEIKLL 152

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312379270|gb|EFR25596.1| hypothetical protein AND_08934 [Anopheles darlingi]

 Score =  104 bits (260), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 46/85 (54%), Positives = 64/85 (75%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L++    L IFAGDVTPIEIMCHLPAVCE+K+IPYCY PS+KD+G+A+G K+  + 
Sbjct: 69  VQVHLRKGETGLVIFAGDVTPIEIMCHLPAVCEEKNIPYCYTPSRKDLGKAMGVKRGTVA 128

Query: 65  VIVKSTESVAELYEEVKQEIGALPV 89
           ++++      ELY+++K E+  LPV
Sbjct: 129 MMIREHPEYQELYDKLKSELSTLPV 153

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194870978|ref|XP_001972760.1| GG13705 [Drosophila erecta] gi|190654543|gb|EDV51786.1| GG13705 [Drosophila erecta]

 Score =  104 bits (259), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 44/85 (51%), Positives = 63/85 (74%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L++    LCIFAGDVTP++IMCHLPAVCE+K IPY Y PS+ D+G A+G K+  + 
Sbjct: 74  VQTRLRKGETGLCIFAGDVTPVDIMCHLPAVCEEKGIPYAYTPSRADLGAAMGVKRGTVA 133

Query: 65  VIVKSTESVAELYEEVKQEIGALPV 89
           ++++  E   +LY+EVK+E+ AL +
Sbjct: 134 LLIRQNEEYKDLYDEVKEELSALNI 158

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|21356151|ref|NP_651965.1| NHP2, isoform A [Drosophila melanogaster] gi|442632373|ref|NP_001261849.1| NHP2, isoform B [Drosophila melanogaster] gi|195327622|ref|XP_002030517.1| GM24527 [Drosophila sechellia] gi|68565951|sp|Q9V3U2.1|NHP2_DROME RecName: Full=H/ACA ribonucleoprotein complex subunit 2-like protein; AltName: Full=H/ACA snoRNP protein NHP2; AltName: Full=Nucleolar protein family A member 2-like protein gi|6746575|gb|AAF27630.1|AF217228_1 nucleolar protein NHP2 [Drosophila melanogaster] gi|7294353|gb|AAF49701.1| NHP2, isoform A [Drosophila melanogaster] gi|71834176|gb|AAZ41760.1| RH66170p [Drosophila melanogaster] gi|194119460|gb|EDW41503.1| GM24527 [Drosophila sechellia] gi|440215792|gb|AGB94542.1| NHP2, isoform B [Drosophila melanogaster]

 Score =  103 bits (256), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 44/85 (51%), Positives = 63/85 (74%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L++    +CIFAGDVTP++IMCHLPAVCE+K IPY Y PS+ D+G A+G K+  + 
Sbjct: 74  VQTRLRKGETGICIFAGDVTPVDIMCHLPAVCEEKGIPYTYTPSRADLGAAMGVKRGTVA 133

Query: 65  VIVKSTESVAELYEEVKQEIGALPV 89
           ++V+  E   +LY+EVK+E+ AL +
Sbjct: 134 LLVRQNEEYKDLYDEVKEELSALNI 158

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195378462|ref|XP_002048003.1| GJ11595 [Drosophila virilis] gi|194155161|gb|EDW70345.1| GJ11595 [Drosophila virilis]

 Score =  102 bits (255), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 44/85 (51%), Positives = 62/85 (72%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L++    +CIFAGDVTP++IMCHLPAVCE+K IPY Y PS+ D+G A+G K+  + 
Sbjct: 74  VQTRLRKGETGICIFAGDVTPVDIMCHLPAVCEEKGIPYAYTPSRADLGAAMGVKRGTVA 133

Query: 65  VIVKSTESVAELYEEVKQEIGALPV 89
           ++V+  E   +LY+EVK+E+  L V
Sbjct: 134 LLVRQNEDYKDLYDEVKEELANLNV 158

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|240848641|ref|NP_001155412.1| H/ACA ribonucleoprotein complex subunit 2-like [Acyrthosiphon pisum] gi|239790480|dbj|BAH71799.1| ACYPI001121 [Acyrthosiphon pisum]

 Score =  102 bits (254), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 43/87 (49%), Positives = 64/87 (73%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  ++R+   L IFAGDV+PI+IM H+P VCE K++PYCYVPS+ D+G ++G K+  + 
Sbjct: 64  VQRRVRREETGLVIFAGDVSPIDIMSHMPGVCETKNLPYCYVPSRDDLGSSMGVKRSAVM 123

Query: 65  VIVKSTESVAELYEEVKQEIGALPVTW 91
           V+++  ES A+LY+E + EI ALP  +
Sbjct: 124 VLIRKHESYADLYDECQSEIKALPYDF 150

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195494390|ref|XP_002094819.1| NHP2 [Drosophila yakuba] gi|68565896|sp|Q6XIP0.1|NHP2_DROYA RecName: Full=H/ACA ribonucleoprotein complex subunit 2-like protein; AltName: Full=H/ACA snoRNP protein NHP2 gi|38047819|gb|AAR09812.1| similar to Drosophila melanogaster NHP2, partial [Drosophila yakuba] gi|194180920|gb|EDW94531.1| NHP2 [Drosophila yakuba]

 Score =  102 bits (254), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 43/85 (50%), Positives = 63/85 (74%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L++    +CIFAGDVTP++IMCHLPAVCE+K IPY Y PS+ D+G A+G K+  + 
Sbjct: 74  VQTRLRKGETGICIFAGDVTPVDIMCHLPAVCEEKGIPYAYTPSRADLGAAMGVKRGTVA 133

Query: 65  VIVKSTESVAELYEEVKQEIGALPV 89
           ++V+  +   +LY+EVK+E+ AL +
Sbjct: 134 LLVRQNDEYKDLYDEVKEELSALNI 158

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|225708982|gb|ACO10337.1| H/ACA ribonucleoprotein complex subunit 2-like protein [Caligus rogercresseyi]

 Score =  102 bits (253), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 42/86 (48%), Positives = 64/86 (74%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
           +VQ  +++    L +FAGDVTPI++MCHLPAV EDKDIPYC+ PS+ D+G A+G K+  +
Sbjct: 67  SVQLHIRKGERGLLVFAGDVTPIDVMCHLPAVAEDKDIPYCFTPSRADLGTAMGVKRGTL 126

Query: 64  CVIVKSTESVAELYEEVKQEIGALPV 89
            ++++  E   EL++E+K+EI  LP+
Sbjct: 127 TLLIREHEDYQELFDEIKEEIHTLPI 152

Source: Caligus rogercresseyi

Species: Caligus rogercresseyi

Genus: Caligus

Family: Caligidae

Order: Siphonostomatoida

Class: Maxillopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|114051934|ref|NP_001040438.1| nucleolar protein family A member 2 [Bombyx mori] gi|95102892|gb|ABF51387.1| nucleolar protein family A member 2 [Bombyx mori]

 Score =  102 bits (253), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 48/83 (57%), Positives = 59/83 (71%)

Query: 5   VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           VQ  L+     +  FAGD++PIEIMCHLPAVCE+KD+ YCY PS+KDIG A+G  + CI 
Sbjct: 70  VQKQLRLGEKGMVFFAGDISPIEIMCHLPAVCEEKDVQYCYTPSRKDIGAAMGTMRGCIM 129

Query: 65  VIVKSTESVAELYEEVKQEIGAL 87
           V+VK  E   +LYEEVK EI  L
Sbjct: 130 VLVKEHEDYKDLYEEVKSEIKLL 152

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|225709836|gb|ACO10764.1| H/ACA ribonucleoprotein complex subunit 2-like protein [Caligus rogercresseyi]

 Score =  101 bits (252), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 42/86 (48%), Positives = 64/86 (74%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
           +VQ  +++    L +FAGDVTPI++MCHLPAV EDKDIPYC+ PS+ D+G A+G K+  +
Sbjct: 67  SVQLHIRKGERGLLVFAGDVTPIDVMCHLPAVVEDKDIPYCFTPSRADLGTAMGVKRGTL 126

Query: 64  CVIVKSTESVAELYEEVKQEIGALPV 89
            ++++  E   EL++E+K+EI  LP+
Sbjct: 127 TLLIREHEDYQELFDEIKEEIHTLPI 152

Source: Caligus rogercresseyi

Species: Caligus rogercresseyi

Genus: Caligus

Family: Caligidae

Order: Siphonostomatoida

Class: Maxillopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	91
FB|FBgn0029148	160	NHP2 "NHP2" [Drosophila melano	0.934	0.531	0.517	1.5e-21
UNIPROTKB|Q6XIP0	160	NHP2 "H/ACA ribonucleoprotein	0.934	0.531	0.505	2.4e-21
UNIPROTKB|Q8I7X7	159	Q8I7X7 "H/ACA ribonucleoprotei	0.802	0.459	0.534	1.9e-19
UNIPROTKB|Q5E950	153	NHP2 "H/ACA ribonucleoprotein	0.802	0.477	0.479	2.5e-17
UNIPROTKB|E2QYZ9	153	NHP2 "Uncharacterized protein"	0.802	0.477	0.479	2.5e-17
UNIPROTKB|F1S3E3	153	NHP2 "Uncharacterized protein"	0.802	0.477	0.465	3.2e-17
UNIPROTKB|Q6NTV9	149	nhp2 "H/ACA ribonucleoprotein	0.835	0.510	0.447	3.2e-17
UNIPROTKB|Q6P8C4	149	nhp2 "H/ACA ribonucleoprotein	0.835	0.510	0.447	3.2e-17
UNIPROTKB|Q9NX24	153	NHP2 "H/ACA ribonucleoprotein	0.813	0.483	0.459	4.1e-17
UNIPROTKB|Q60YI3	163	CBG18231 "Putative H/ACA ribon	0.934	0.521	0.423	5.3e-17

FB|FBgn0029148 NHP2 "NHP2" [Drosophila melanogaster (taxid:7227)]

 Score = 252 (93.8 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 44/85 (51%), Positives = 63/85 (74%)

Query:     5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
             VQ  L++    +CIFAGDVTP++IMCHLPAVCE+K IPY Y PS+ D+G A+G K+  + 
Sbjct:    74 VQTRLRKGETGICIFAGDVTPVDIMCHLPAVCEEKGIPYTYTPSRADLGAAMGVKRGTVA 133

Query:    65 VIVKSTESVAELYEEVKQEIGALPV 89
             ++V+  E   +LY+EVK+E+ AL +
Sbjct:   134 LLVRQNEEYKDLYDEVKEELSALNI 158

GO:0005730 "nucleolus" evidence=NAS

GO:0031118 "rRNA pseudouridine synthesis" evidence=ISS

GO:0030559 "rRNA pseudouridylation guide activity" evidence=ISS

GO:0005732 "small nucleolar ribonucleoprotein complex" evidence=ISS

GO:0006364 "rRNA processing" evidence=ISS

GO:0030515 "snoRNA binding" evidence=ISS

UNIPROTKB|Q6XIP0 NHP2 "H/ACA ribonucleoprotein complex subunit 2-like protein" [Drosophila yakuba (taxid:7245)]

 Score = 250 (93.1 bits), Expect = 2.4e-21, P = 2.4e-21
 Identities = 43/85 (50%), Positives = 63/85 (74%)

Query:     5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
             VQ  L++    +CIFAGDVTP++IMCHLPAVCE+K IPY Y PS+ D+G A+G K+  + 
Sbjct:    74 VQTRLRKGETGICIFAGDVTPVDIMCHLPAVCEEKGIPYAYTPSRADLGAAMGVKRGTVA 133

Query:    65 VIVKSTESVAELYEEVKQEIGALPV 89
             ++V+  +   +LY+EVK+E+ AL +
Sbjct:   134 LLVRQNDEYKDLYDEVKEELSALNI 158

GO:0005732 "small nucleolar ribonucleoprotein complex" evidence=ISS

GO:0030515 "snoRNA binding" evidence=ISS

GO:0031118 "rRNA pseudouridine synthesis" evidence=ISS

UNIPROTKB|Q8I7X7 Q8I7X7 "H/ACA ribonucleoprotein complex subunit 2-like protein" [Branchiostoma belcheri (taxid:7741)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 39/73 (53%), Positives = 51/73 (69%)

Query:    16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75
             + + AGD TPIE+ CHLP VCED  IPYCYVP+K+D+GEA G K+P  CV++K  ES   
Sbjct:    84 IVLIAGDTTPIEVYCHLPVVCEDAKIPYCYVPAKQDLGEAAGSKRPTCCVLLKPNESYQS 143

Query:    76 LYEEVKQEIGALP 88
              Y+E   ++  LP
Sbjct:   144 SYDECLTDVTTLP 156

GO:0005732 "small nucleolar ribonucleoprotein complex" evidence=ISS

GO:0030515 "snoRNA binding" evidence=ISS

GO:0031118 "rRNA pseudouridine synthesis" evidence=ISS

UNIPROTKB|Q5E950 NHP2 "H/ACA ribonucleoprotein complex subunit 2" [Bos taurus (taxid:9913)]

 Score = 212 (79.7 bits), Expect = 2.5e-17, P = 2.5e-17
 Identities = 35/73 (47%), Positives = 50/73 (68%)

Query:    16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75
             + + AGD  PIE+ CHLP +CED+++PY Y+PSK D+G A G K+P   ++VK  E   E
Sbjct:    78 IMVLAGDTLPIEVYCHLPVMCEDRNLPYVYIPSKTDLGAAAGSKRPTCVIMVKPHEEYQE 137

Query:    76 LYEEVKQEIGALP 88
              Y+E  +E+ ALP
Sbjct:   138 AYDECLEEVQALP 150

GO:0015030 "Cajal body" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|E2QYZ9 NHP2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 212 (79.7 bits), Expect = 2.5e-17, P = 2.5e-17
 Identities = 35/73 (47%), Positives = 50/73 (68%)

Query:    16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75
             + + AGD  PIE+ CHLP +CED+++PY Y+PSK D+G A G K+P   ++VK  E   E
Sbjct:    78 IMVLAGDTLPIEVYCHLPVMCEDRNLPYVYIPSKTDLGAAAGSKRPTCVIMVKPHEEYQE 137

Query:    76 LYEEVKQEIGALP 88
              Y+E  +E+ ALP
Sbjct:   138 AYDECLEEVQALP 150

GO:0005730 "nucleolus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|F1S3E3 NHP2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 34/73 (46%), Positives = 50/73 (68%)

Query:    16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75
             + + AGD  P+E+ CHLP +CED+++PY Y+PSK D+G A G K+P   ++VK  E   E
Sbjct:    78 IMVLAGDTLPVEVYCHLPVMCEDRNLPYVYIPSKTDLGAAAGSKRPTCVIMVKPHEEYQE 137

Query:    76 LYEEVKQEIGALP 88
              Y+E  +E+ ALP
Sbjct:   138 AYDECLEEVQALP 150

GO:0005730 "nucleolus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|Q6NTV9 nhp2 "H/ACA ribonucleoprotein complex subunit 2-like protein" [Xenopus laevis (taxid:8355)]

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 34/76 (44%), Positives = 51/76 (67%)

Query:    16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75
             + + AGD  PIE+ CH+P +CED+ IPY YVPSK D+G A G K+P   +++K  E   E
Sbjct:    74 IVVMAGDTLPIEVYCHIPVMCEDRGIPYSYVPSKSDLGAAAGSKRPTCVILIKPHEDYQE 133

Query:    76 LYEEVKQEIGALPVTW 91
              Y+E  +++ ALP+ +
Sbjct:   134 AYDECLEDVQALPLPY 149

GO:0005732 "small nucleolar ribonucleoprotein complex" evidence=ISS

GO:0030515 "snoRNA binding" evidence=ISS

GO:0031118 "rRNA pseudouridine synthesis" evidence=ISS

UNIPROTKB|Q6P8C4 nhp2 "H/ACA ribonucleoprotein complex subunit 2-like protein" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 34/76 (44%), Positives = 51/76 (67%)

Query:    16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75
             + + AGD  PIE+ CH+P +CED+ IPY YVPSK D+G A G K+P   +++K  E   E
Sbjct:    74 IVVMAGDTLPIEVYCHIPVMCEDRGIPYSYVPSKSDLGAAAGSKRPTCVILIKPHEDYQE 133

Query:    76 LYEEVKQEIGALPVTW 91
              Y+E  +++ ALP+ +
Sbjct:   134 AYDECLEDVQALPLPY 149

GO:0005732 "small nucleolar ribonucleoprotein complex" evidence=ISS

GO:0030515 "snoRNA binding" evidence=ISS

GO:0031118 "rRNA pseudouridine synthesis" evidence=ISS

UNIPROTKB|Q9NX24 NHP2 "H/ACA ribonucleoprotein complex subunit 2" [Homo sapiens (taxid:9606)]

 Score = 210 (79.0 bits), Expect = 4.1e-17, P = 4.1e-17
 Identities = 34/74 (45%), Positives = 51/74 (68%)

Query:    16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75
             + + AGD  PIE+ CHLP +CED+++PY Y+PSK D+G A G K+P   ++VK  E   E
Sbjct:    78 IMVLAGDTLPIEVYCHLPVMCEDRNLPYVYIPSKTDLGAAAGSKRPTCVIMVKPHEEYQE 137

Query:    76 LYEEVKQEIGALPV 89
              Y+E  +E+ +LP+
Sbjct:   138 AYDECLEEVQSLPL 151

GO:0005730 "nucleolus" evidence=IEA

GO:0015030 "Cajal body" evidence=IEA

GO:0005732 "small nucleolar ribonucleoprotein complex" evidence=ISS

GO:0030515 "snoRNA binding" evidence=ISS

GO:0031118 "rRNA pseudouridine synthesis" evidence=ISS

UNIPROTKB|Q60YI3 CBG18231 "Putative H/ACA ribonucleoprotein complex subunit 2-like protein" [Caenorhabditis briggsae (taxid:6238)]

 Score = 209 (78.6 bits), Expect = 5.3e-17, P = 5.3e-17
 Identities = 36/85 (42%), Positives = 59/85 (69%)

Query:     5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
             VQ  L++    +CI AG+V+PI++  H+PA+CE+K+IPY Y+PS++ +G A+G ++P I 
Sbjct:    76 VQKELRKNEKGICILAGNVSPIDVYSHIPAICEEKEIPYVYIPSREQLGLAVGHRRPSIL 135

Query:    65 VIVKSTESVAELYEEVKQEIGALPV 89
             + VK +    ELY+EV + +  L V
Sbjct:   136 IFVKPSADFQELYDEVAETLHHLTV 160

GO:0005732 "small nucleolar ribonucleoprotein complex" evidence=ISS

GO:0030515 "snoRNA binding" evidence=ISS

GO:0031118 "rRNA pseudouridine synthesis" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P0CQ52	SNU13_CRYNJ	No assigned EC number	0.3950	0.8681	0.6220	yes	N/A
Q5JGR3	RL7A_PYRKO	No assigned EC number	0.4069	0.9340	0.6910	yes	N/A
Q4J8P1	RL7A_SULAC	No assigned EC number	0.3720	0.9340	0.6746	yes	N/A
Q54ST0	NH2L1_DICDI	No assigned EC number	0.3132	0.9010	0.6356	yes	N/A
Q8U160	RL7A_PYRFU	No assigned EC number	0.5192	0.5604	0.4146	yes	N/A
B8D6E8	RL7A_DESK1	No assigned EC number	0.3797	0.8571	0.6141	yes	N/A
C5A1V9	RL7A_THEGJ	No assigned EC number	0.5192	0.5604	0.4146	yes	N/A
A3DMR6	RL7A_STAMF	No assigned EC number	0.3837	0.9340	0.6640	yes	N/A
A6UT51	RL7A_META3	No assigned EC number	0.3456	0.8571	0.6666	yes	N/A
P62008	RL7A_PYRAB	No assigned EC number	0.5192	0.5604	0.4146	yes	N/A
P62009	RL7A_PYRHO	No assigned EC number	0.5192	0.5604	0.4146	yes	N/A
A2BK92	RL7A_HYPBU	No assigned EC number	0.5510	0.5384	0.3858	yes	N/A
Q9V3U2	NHP2_DROME	No assigned EC number	0.5176	0.9340	0.5312	yes	N/A
A4YIL9	RL7A_METS5	No assigned EC number	0.5510	0.5384	0.392	yes	N/A
O29494	RL7A_ARCFU	No assigned EC number	0.3720	0.8571	0.6554	yes	N/A
Q971C9	RL7A_SULTO	No assigned EC number	0.5178	0.6043	0.4365	yes	N/A
Q2NGM2	RL7A_METST	No assigned EC number	0.3571	0.8791	0.6504	yes	N/A
B6YWH9	RL7A_THEON	No assigned EC number	0.4186	0.9340	0.6910	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	91
pfam01248	95	pfam01248, Ribosomal_L7Ae, Ribosomal protein L7Ae/	1e-18
PRK04175	122	PRK04175, rpl7ae, 50S ribosomal protein L7Ae; Vali	2e-16
TIGR03677	117	TIGR03677, rpl7ae, 50S ribosomal protein L7Ae	5e-16
COG1358	116	COG1358, RPL8A, Ribosomal protein HS6-type (S12/L3	4e-13
PTZ00365	266	PTZ00365, PTZ00365, 60S ribosomal protein L7Ae-lik	2e-10
PTZ00222	263	PTZ00222, PTZ00222, 60S ribosomal protein L7a; Pro	9e-08

>gnl|CDD|216387 pfam01248, Ribosomal_L7Ae, Ribosomal protein L7Ae/L30e/S12e/Gadd45 family

 Score = 72.6 bits (179), Expect = 1e-18
 Identities = 27/60 (45%), Positives = 40/60 (66%)

Query: 9  LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
          L+R    L I A D  P E +  LPA+C++K++PY YVPSKK++GEA G+ +P   + +K
Sbjct: 27 LRRGKAKLVIIAEDCDPEEKVKLLPALCKEKNVPYVYVPSKKELGEACGKPRPVSALAIK 86

This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118. Length = 95

>gnl|CDD|179766 PRK04175, rpl7ae, 50S ribosomal protein L7Ae; Validated

 Score = 67.6 bits (166), Expect = 2e-16
 Identities = 31/78 (39%), Positives = 45/78 (57%)

Query: 10  QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKS 69
           +R    L + A DV P EI+ HLP +CE+K IPY YVPSKKD+G+A G +       +  
Sbjct: 43  ERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKKDLGKAAGLEVGAAAAAIVD 102

Query: 70  TESVAELYEEVKQEIGAL 87
                EL E++ +++  L
Sbjct: 103 AGKAKELVEDIVEKVNEL 120

Length = 122

>gnl|CDD|188367 TIGR03677, rpl7ae, 50S ribosomal protein L7Ae

 Score = 67.1 bits (164), Expect = 5e-16
 Identities = 29/72 (40%), Positives = 43/72 (59%)

Query: 16  LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE 75
           L + A DV P EI+ HLPA+CE+K IPY YV +K+D+G A G +       +       E
Sbjct: 45  LVVIAEDVEPPEIVAHLPALCEEKGIPYIYVKTKEDLGAAAGLEVGAAAAAIVDAGKAEE 104

Query: 76  LYEEVKQEIGAL 87
           L +E+ +++ AL
Sbjct: 105 LLKEIVEKVEAL 116

This model specifically identifies the archaeal version of the large ribosomal complex L7 protein. The family is a narrower version of the pfam01248 model which also recognizes the L30 protein. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e. Length = 117

>gnl|CDD|224277 COG1358, RPL8A, Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]

 Score = 59.6 bits (145), Expect = 4e-13
 Identities = 29/79 (36%), Positives = 51/79 (64%), Gaps = 2/79 (2%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           ++R    L + A DV+P E++ HLPA+CE+K++PY YV SKK++G+A+G  K    V+  
Sbjct: 39  IERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSKKELGKAVG--KEVRKVVAI 96

Query: 69  STESVAELYEEVKQEIGAL 87
             +  A+  E++ +++  L
Sbjct: 97  VDKGFAKKLEDLVEKVEEL 115

Length = 116

>gnl|CDD|240382 PTZ00365, PTZ00365, 60S ribosomal protein L7Ae-like; Provisional

 Score = 54.5 bits (131), Expect = 2e-10
 Identities = 20/48 (41%), Positives = 31/48 (64%)

Query: 12  KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRK 59
           K   L + A DV PIE++C LPA+C  K++PYC +  K  +G+ + +K
Sbjct: 147 KKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQK 194

Length = 266

>gnl|CDD|140249 PTZ00222, PTZ00222, 60S ribosomal protein L7a; Provisional

 Score = 47.4 bits (112), Expect = 9e-08
 Identities = 20/69 (28%), Positives = 37/69 (53%), Gaps = 1/69 (1%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP-CICVIV 67
           +++K   + + A +V P+E++  +P +C    IPY  V     +G+A+GRK   C+ +  
Sbjct: 144 IEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRKTATCVAITD 203

Query: 68  KSTESVAEL 76
            + E  A L
Sbjct: 204 VNAEDEAAL 212

Length = 263

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	91
TIGR03677	117	rpl7ae 50S ribosomal protein L7Ae. Multifunctional	99.92
KOG3167|consensus	153		99.92
PRK04175	122	rpl7ae 50S ribosomal protein L7Ae; Validated	99.91
PTZ00222	263	60S ribosomal protein L7a; Provisional	99.9
COG1358	116	RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Tr	99.9
PRK13600	84	putative ribosomal protein L7Ae-like; Provisional	99.89
PTZ00365	266	60S ribosomal protein L7Ae-like; Provisional	99.89
PRK13602	82	putative ribosomal protein L7Ae-like; Provisional	99.88
PRK13601	82	putative L7Ae-like ribosomal protein; Provisional	99.88
PRK06683	82	hypothetical protein; Provisional	99.87
PRK01018	99	50S ribosomal protein L30e; Reviewed	99.84
PF01248	95	Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/G	99.82
PTZ00106	108	60S ribosomal protein L30; Provisional	99.82
PRK07714	100	hypothetical protein; Provisional	99.81
PRK07283	98	hypothetical protein; Provisional	99.78
PRK05583	104	ribosomal protein L7Ae family protein; Provisional	99.73
KOG3387|consensus	131		99.67
KOG3406|consensus	134		99.64
PRK09190	220	hypothetical protein; Provisional	99.59
COG1911	100	RPL30 Ribosomal protein L30E [Translation, ribosom	99.52
PF08228	158	RNase_P_pop3: RNase P subunit Pop3; InterPro: IPR0	98.64
KOG2988|consensus	112		98.55
KOG3166|consensus	209		98.19
PF15608	100	PELOTA_1: PELOTA RNA binding domain	96.47
PF08032	76	SpoU_sub_bind: RNA 2'-O ribose methyltransferase s	95.32
PF03465	113	eRF1_3: eRF1 domain 3; InterPro: IPR005142 This do	94.41
PF07997	120	DUF1694: Protein of unknown function (DUF1694); In	93.89
PF10087	97	DUF2325: Uncharacterized protein conserved in bact	93.43
TIGR00111	351	pelota probable translation factor pelota. This mo	92.26
KOG2486|consensus	320		91.91
PRK04011	411	peptide chain release factor 1; Provisional	91.75
TIGR03676	403	aRF1/eRF1 peptide chain release factor 1, archaeal	91.65
PF02142	95	MGS: MGS-like domain This is a subfamily of this f	90.14
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	90.08
TIGR00108	409	eRF peptide chain release factor eRF/aRF, subunit	90.06
PF02603	127	Hpr_kinase_N: HPr Serine kinase N terminus; InterP	90.04
cd01422	115	MGS Methylglyoxal synthase catalyzes the enolizati	89.86
PLN02821	460	1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate red	89.7
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	89.64
PF13727	175	CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.	89.62
cd01020	264	TroA_b Metal binding protein TroA_b. These protein	89.15
cd00532	112	MGS-like MGS-like domain. This domain composes the	86.52
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	86.47
PRK05234	142	mgsA methylglyoxal synthase; Validated	86.13
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	85.9
PF08534	146	Redoxin: Redoxin; InterPro: IPR013740 This redoxin	85.44
cd03420	69	SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like	85.16
COG1648	210	CysG Siroheme synthase (precorrin-2 oxidase/ferroc	84.48
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	84.05
PRK00299	81	sulfur transfer protein SirA; Reviewed	83.13
PF11823	73	DUF3343: Protein of unknown function (DUF3343); In	82.88
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	82.65
PRK01045	298	ispH 4-hydroxy-3-methylbut-2-enyl diphosphate redu	82.57
PRK03147	173	thiol-disulfide oxidoreductase; Provisional	82.56
PF03618	255	Kinase-PPPase: Kinase/pyrophosphorylase; InterPro:	82.55
cd01483	143	E1_enzyme_family Superfamily of activating enzymes	82.47
TIGR00679	304	hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene	82.37
PF02401	281	LYTB: LytB protein; InterPro: IPR003451 Terpenes a	82.25
PF07085	105	DRTGG: DRTGG domain; InterPro: IPR010766 This pres	82.13
PF13611	121	Peptidase_S76: Serine peptidase of plant viral pol	81.44
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	80.77
TIGR00216	280	ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyroph	80.36
cd03017	140	PRX_BCP Peroxiredoxin (PRX) family, Bacterioferrit	80.21
PRK13371	387	4-hydroxy-3-methylbut-2-enyl diphosphate reductase	80.07
smart00851	90	MGS MGS-like domain. This domain composes the whol	80.04

>TIGR03677 rpl7ae 50S ribosomal protein L7Ae

Probab=99.92  E-value=2.1e-24  Score=142.08  Aligned_cols=87  Identities=36%  Similarity=0.615  Sum_probs=79.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      +++|+++|++|+++|||||+|++|.+++++++.+|++++|||++++|+++||++||++++.+++.+.+.|..+..+++|.
T Consensus        31 ~~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~~sk~eLG~a~Gk~~~~svvaI~d~g~a~~~~~~~~  110 (117)
T TIGR03677        31 TNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYVKKKEDLGAAAGLEVGAASAAIVDEGKAEELLKEII  110 (117)
T ss_pred             HHHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCCCeEEEEEEchhhhHHHHHHHH
Confidence            58999999999999999999999977889999999999999999999999999999986666666667788899999999


Q ss_pred             HHhhcCC
Q psy6265          82 QEIGALP   88 (91)
Q Consensus        82 ~~~~~~~   88 (91)
                      ++|++|.
T Consensus       111 ~~i~~~~  117 (117)
T TIGR03677       111 EKVEALK  117 (117)
T ss_pred             HHHHhcC
Confidence            9998863

Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.

>KOG3167|consensus

Probab=99.92  E-value=1e-24  Score=146.77  Aligned_cols=89  Identities=46%  Similarity=0.867  Sum_probs=87.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      +|+|.|.+++|+-+++|||+|++|.++.+|||.+|++++|||+|+.|+++||.|.|.+++++|+++..+++|++.||++.
T Consensus        64 vKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~psk~dlg~A~~~krpt~~v~v~p~~eyke~ydev~  143 (153)
T KOG3167|consen   64 VKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYVYTPSKEDLGAAGGTKRPTCCVFVKPGGEYKELYDEVL  143 (153)
T ss_pred             HHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCccccccHHHHHHhcCCCCCceEEEEeeChhHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcCCCC
Q psy6265          82 QEIGALPVT   90 (91)
Q Consensus        82 ~~~~~~~~~   90 (91)
                      ++++.|+++
T Consensus       144 eel~~l~~~  152 (153)
T KOG3167|consen  144 EELEALAVE  152 (153)
T ss_pred             HHHHhhccC
Confidence            999999876

>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated

Probab=99.91  E-value=9.1e-24  Score=140.00  Aligned_cols=86  Identities=36%  Similarity=0.652  Sum_probs=78.4

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      ++||+++|++|+++|||||+|++|.+++++++.+|++++|||++++|+++||+|||++++.+++.+.+.|..+..++.|.
T Consensus        35 ~~~v~kaikkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk~eLG~a~Gk~~~~svvaI~d~g~a~~~~~~~~  114 (122)
T PRK04175         35 TNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKKDLGKAAGLEVGAAAAAIVDAGKAKELVEDIV  114 (122)
T ss_pred             HHHHHHHHHcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCeEEEEEechhhhHHHHHHHH
Confidence            58999999999999999999999977889999999999999999999999999999997666666667788899999999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      +.++.+
T Consensus       115 ~~i~~~  120 (122)
T PRK04175        115 EKVNEL  120 (122)
T ss_pred             HHHHHh
Confidence            988765

>PTZ00222 60S ribosomal protein L7a; Provisional

Probab=99.90  E-value=1.3e-23  Score=153.36  Aligned_cols=86  Identities=22%  Similarity=0.476  Sum_probs=82.3

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      .++|+++|++|+++|||||+|+||++++.+|+.+|++++|||++++||++||+++|+++++++++++.++|++.+|++++
T Consensus       137 ~n~VtkaIekkKAkLVIIA~DVsPie~vk~LpaLCrk~~VPY~iVktKaeLG~AIGkKtravVAItD~g~ed~~~l~~lv  216 (263)
T PTZ00222        137 LQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRKTATCVAITDVNAEDEAALKNLI  216 (263)
T ss_pred             HHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHHCCCCCeEEEEeeCCcccHHHHHHHH
Confidence            47899999999999999999999999989999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      +.++..
T Consensus       217 ~~~~~~  222 (263)
T PTZ00222        217 RSVNAR  222 (263)
T ss_pred             HHHHHh
Confidence            988753

>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]

Probab=99.90  E-value=5.1e-23  Score=135.58  Aligned_cols=71  Identities=38%  Similarity=0.709  Sum_probs=66.6

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTES   72 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~   72 (91)
                      +|+|+|+|++|+++|||||+|++|.+++.|++.+|++++|||++++|+.+||+|+|++.+.++++++.+-.
T Consensus        32 ~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V~sk~~LG~a~g~~~~~vv~i~~~~~~  102 (116)
T COG1358          32 TNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSKKELGKAVGKEVRKVVAIVDKGFA  102 (116)
T ss_pred             HHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCcceeEEEeehhhh
Confidence            58999999999999999999999889999999999999999999999999999999998887888877654

>PRK13600 putative ribosomal protein L7Ae-like; Provisional

Probab=99.89  E-value=4.7e-23  Score=129.05  Aligned_cols=66  Identities=21%  Similarity=0.308  Sum_probs=62.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      +|||+|+|++|++++||||.|++| .++.|++.+|+++||||+|++||.+||+|||+++.++++.+.
T Consensus        18 ~kqt~Kai~kg~~~~v~iA~Da~~-~vv~~l~~lceek~Ip~v~V~s~~~LGkAcgi~V~aa~aai~   83 (84)
T PRK13600         18 LKETLKALKKDQVTSLIIAEDVEV-YLMTRVLSQINQKNIPVSFFKSKHALGKHVGINVNATIVALI   83 (84)
T ss_pred             HHHHHHHHhcCCceEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCcCeEEEEEe
Confidence            589999999999999999999999 688999999999999999999999999999999998877654

>PTZ00365 60S ribosomal protein L7Ae-like; Provisional

Probab=99.89  E-value=7.6e-23  Score=149.57  Aligned_cols=86  Identities=27%  Similarity=0.579  Sum_probs=82.7

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      +|+|+++|++|+++|||||+|+||++++.+++++|++++|||++++|+++||+++|++.++++++++...|++.+|++++
T Consensus       137 in~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~~VPY~iv~sK~eLG~AIGkktraVVAItdV~~EDk~~l~~lv  216 (266)
T PTZ00365        137 LNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQKTAAVVAIDNVRKEDQAEFDNLC  216 (266)
T ss_pred             hHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhccCCCEEEECCHHHHHHHhCCCCceEEEecccCHHHHHHHHHHH
Confidence            58999999999999999999999999999899999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      +.+++.
T Consensus       217 ~~~~~~  222 (266)
T PTZ00365        217 KNFRAM  222 (266)
T ss_pred             HHHHHh
Confidence            998764

>PRK13602 putative ribosomal protein L7Ae-like; Provisional

Probab=99.88  E-value=2.7e-22  Score=124.91  Aligned_cols=66  Identities=23%  Similarity=0.356  Sum_probs=62.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      .+||+|+|++|++++||||+|++| +++++++.+|++++||+++++|++|||+|||+++.++++.+.
T Consensus        16 ~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~Vp~~~~~s~~eLG~a~G~~~~~a~~ai~   81 (82)
T PRK13602         16 TKQTVKALKRGSVKEVVVAEDADP-RLTEKVEALANEKGVPVSKVDSMKKLGKACGIEVGAAAVAII   81 (82)
T ss_pred             HHHHHHHHHcCCeeEEEEECCCCH-HHHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCcCEEEEEEe
Confidence            589999999999999999999999 689999999999999999999999999999999998877664

>PRK13601 putative L7Ae-like ribosomal protein; Provisional

Probab=99.88  E-value=3.4e-22  Score=124.68  Aligned_cols=68  Identities=15%  Similarity=0.255  Sum_probs=63.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~   70 (91)
                      .++|+++|++|+++|||||+|+++ ++++++.++|++++||+++++|+.|||+|||++++++++.+.-+
T Consensus        13 ~~~vlkaIk~gkakLViiA~Da~~-~~~k~i~~~c~~~~Vpv~~~~t~~eLG~A~G~~v~aa~~~~~~~   80 (82)
T PRK13601         13 AKQTLKAITNCNVLQVYIAKDAEE-HVTKKIKELCEEKSIKIVYIDTMKELGVMCGIDVGAAAAADIIG   80 (82)
T ss_pred             hHHHHHHHHcCCeeEEEEeCCCCH-HHHHHHHHHHHhCCCCEEEeCCHHHHHHHHCCccCeeeEEEeec
Confidence            489999999999999999999998 78999999999999999999999999999999999888777544

>PRK06683 hypothetical protein; Provisional

Probab=99.87  E-value=9.7e-22  Score=122.50  Aligned_cols=66  Identities=12%  Similarity=0.178  Sum_probs=61.9

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      .+||+|+|++|++++||||+|++| ++.+++.++|++++||+++++|+.|||+|||+++.++++.+.
T Consensus        16 ~~~v~kaik~gkaklViiA~Da~~-~~~~~i~~~~~~~~Vpv~~~~t~~eLG~A~G~~~~~a~~ai~   81 (82)
T PRK06683         16 HKRTLEAIKNGIVKEVVIAEDADM-RLTHVIIRTALQHNIPITKVESVRKLGKVAGIQVGASAIGII   81 (82)
T ss_pred             HHHHHHHHHcCCeeEEEEECCCCH-HHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCcccEEEEEEe
Confidence            479999999999999999999999 688999999999999999999999999999999998877764

>PRK01018 50S ribosomal protein L30e; Reviewed

Probab=99.84  E-value=1.6e-20  Score=120.45  Aligned_cols=70  Identities=13%  Similarity=0.143  Sum_probs=60.0

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPCICVIVKSTES   72 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~v~~i~~~~~   72 (91)
                      .++|+++|++|++++||||+|+++ +++++++.+|++++||++. .+|++|||+|||++++++++.+.+.|.
T Consensus        21 ~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~~~vaI~D~G~   91 (99)
T PRK01018         21 SKRTIKAIKLGKAKLVIVASNCPK-DIKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTVSALAIVDPGE   91 (99)
T ss_pred             HHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCEEEEEEecCCH
Confidence            579999999999999999999988 7899999999999999866 489999999999997644444444443

>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.82  E-value=3.6e-20  Score=116.51  Aligned_cols=74  Identities=38%  Similarity=0.684  Sum_probs=67.0

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAE   75 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~   75 (91)
                      ++||.++|++|++++||+|+|++|.....|++.+|++++|||++++|+.+||+++|+++.++++++.++++...
T Consensus        20 ~~~v~k~l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~s~~eLG~~~g~~~~~~~~~i~d~~~a~~   93 (95)
T PF01248_consen   20 IKEVLKALKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVPSKEELGRACGKKRPVSALAIKDAGDAKI   93 (95)
T ss_dssp             HHHHHHHHHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEESHHHHHHHHTTSSSTSSEEEEEESTTHHH
T ss_pred             hHHHHHHHHcCCCcEEEEcCCCChhhhcccchhheeccceeEEEECCHHHHHHHHCCCCcEEEEEEECcccchh
Confidence            58999999999999999999999987777799999999999999999999999999998777777777776543

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....

>PTZ00106 60S ribosomal protein L30; Provisional

Probab=99.82  E-value=8.7e-20  Score=118.84  Aligned_cols=70  Identities=13%  Similarity=0.142  Sum_probs=62.1

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPCICVIVKSTES   72 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~v~~i~~~~~   72 (91)
                      .++|+++|++|++++||||+|+++ +.++++..+|+.++||++. .+|++|||+|||++++++++.+.+.|.
T Consensus        30 ~~~vlkalk~gkaklViiA~D~~~-~~kkki~~~~~~~~Vpv~~~~~t~~eLG~A~Gk~~r~svvaI~D~G~  100 (108)
T PTZ00106         30 TKSTLKALRNGKAKLVIISNNCPP-IRRSEIEYYAMLSKTGVHHYAGNNNDLGTACGRHFRVSVMSITDAGD  100 (108)
T ss_pred             HHHHHHHHHcCCeeEEEEeCCCCH-HHHHHHHHHHhhcCCCEEEeCCCHHHHHHHhCCccCeEEEEEeCcch
Confidence            479999999999999999999999 6789999999999999974 699999999999999886555555554

>PRK07714 hypothetical protein; Provisional

Probab=99.81  E-value=1.5e-19  Score=115.76  Aligned_cols=67  Identities=13%  Similarity=0.348  Sum_probs=60.9

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEec
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKS   69 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~   69 (91)
                      .++|.++|++|++++||+|+|++| +.++++..+|+.++||+++++|++|||+|||++.++++++++.
T Consensus        23 ~~~v~~al~~g~~~lViiA~D~s~-~~~~ki~~~~~~~~vp~~~~~sk~eLG~a~Gk~~~~~vai~d~   89 (100)
T PRK07714         23 EELVLKEVRSGKAKLVLLSEDASV-NTTKKITDKCTYYNVPMRKVENRQQLGHAIGKDERVVVAVLDE   89 (100)
T ss_pred             HHHHHHHHHhCCceEEEEeCCCCH-HHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCcceEEEEeCc
Confidence            478999999999999999999999 6889999999999999999999999999999998886665443

>PRK07283 hypothetical protein; Provisional

Probab=99.78  E-value=1.2e-18  Score=111.40  Aligned_cols=66  Identities=15%  Similarity=0.218  Sum_probs=59.3

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEec
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKS   69 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~   69 (91)
                      .++|.++|++|++++||+|+|+++ +.++++.+.|++++||++.++|++|||+|||++ +++++++|.
T Consensus        23 ~~~v~~aik~gk~~lVi~A~Das~-~~~kk~~~~~~~~~Vp~~~~~t~~eLG~a~Gk~-~~vvai~d~   88 (98)
T PRK07283         23 EELVVKAIQSGQAKLVFLANDAGP-NLTKKVTDKSNYYQVEVSTVFSTLELSAAVGKP-RKVLAVTDA   88 (98)
T ss_pred             HHHHHHHHHcCCccEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCC-ceEEEEeCh
Confidence            468999999999999999999999 688999999999999999999999999999996 565665443

>PRK05583 ribosomal protein L7Ae family protein; Provisional

Probab=99.73  E-value=4.2e-17  Score=105.50  Aligned_cols=68  Identities=22%  Similarity=0.418  Sum_probs=60.6

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~   70 (91)
                      ..+|.++|++|++++||+|+|+++ +.++++..+|+.++||++..+|++|||+|||++.++++++++.+
T Consensus        22 ~~~v~~aik~gk~~lVI~A~D~s~-~~kkki~~~~~~~~vp~~~~~t~~eLg~a~Gk~~~~~iai~d~g   89 (104)
T PRK05583         22 YNKCEEAIKKKKVYLIIISNDISE-NSKNKFKNYCNKYNIPYIEGYSKEELGNAIGRDEIKILGVKDKN   89 (104)
T ss_pred             HHHHHHHHHcCCceEEEEeCCCCH-hHHHHHHHHHHHcCCCEEEecCHHHHHHHhCCCCeEEEEEeChH
Confidence            368999999999999999999999 67899999999999999988999999999999986666655543

>KOG3387|consensus

Probab=99.67  E-value=3.1e-16  Score=104.17  Aligned_cols=71  Identities=38%  Similarity=0.726  Sum_probs=64.9

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhC---CCCceEEEEEecCch
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG---RKKPCICVIVKSTES   72 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G---~~~~~~v~~i~~~~~   72 (91)
                      .||++|.+.+|...+|++|.|+.|.++..|++.+|+.+||||+||.|+..||.+||   ..+++....++..+.
T Consensus        39 ~NEaTk~Lnrgi~~~Vv~aaD~kP~eIt~HLp~LcedknVp~v~Vpsk~alG~~cg~~~~~r~~~a~~i~~~~~  112 (131)
T KOG3387|consen   39 ANEATKTLNRGISEFVVMAADVKPLEITLHLPLLCEDKNVPYVFVPSKQALGLACGELVVLRPVIACSITTNEA  112 (131)
T ss_pred             cchHhhhhccCceeEEEEEccCCHHHHHHHhHHHhhccCCceEEeeccHHhhhhhhhHhhcCcceeEEEEeccc
Confidence            58999999999999999999999999999999999999999999999999999999   777777666666543

>KOG3406|consensus

Probab=99.64  E-value=1.4e-15  Score=101.16  Aligned_cols=84  Identities=25%  Similarity=0.443  Sum_probs=76.3

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC----------C-CceEEEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR----------K-KPCICVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~----------~-~~~~v~~i~~~   70 (91)
                      ++|+.|+|.+.+++|+++|+||+++.+++.+..||.+++||++.++|..+||+|+|.          + ...+++++.+.
T Consensus        39 i~Ea~KaldkrqA~lcvLaencdep~yvKLVeALcaeh~iplikV~d~k~LGew~Glckid~eGnarKvvGcs~vvVkd~  118 (134)
T KOG3406|consen   39 IHEAAKALDKRQAHLCVLAENCDEPMYVKLVEALCAEHQIPLIKVGDAKELGEWAGLCKIDSEGNARKVVGCSCVVVKDY  118 (134)
T ss_pred             HHHHHHHHhhCceeEEEEeccCCchHHHHHHHHHHhhcCCCeEEeccchhhhhhhceeeecCCCCeeEeecceEEEEeec
Confidence            589999999999999999999998899999999999999999999999999999994          2 34668888888


Q ss_pred             chHHHHHHHHHHHhh
Q psy6265          71 ESVAELYEEVKQEIG   85 (91)
Q Consensus        71 ~~~~~~~~~~~~~~~   85 (91)
                      |+.+.+.+.+.+++.
T Consensus       119 geet~a~~~v~~~~~  133 (134)
T KOG3406|consen  119 GEETQALDIVKEHFA  133 (134)
T ss_pred             ccccHHHHHHHHHhh
Confidence            888999999998875

>PRK09190 hypothetical protein; Provisional

Probab=99.59  E-value=1.5e-14  Score=104.24  Aligned_cols=88  Identities=17%  Similarity=0.181  Sum_probs=70.1

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhc------CCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc--hHH
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCED------KDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE--SVA   74 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~------~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~--~~~   74 (91)
                      .+|.++|++|+++|||+|+|+|+ +.+++|..+|+.      ++||++..+|++|||+|+|++.++++++.+.+-  ...
T Consensus       117 ~~V~~alk~gk~~Lvi~A~DaS~-~t~kKl~~~~~~~~~~~~~~Vp~v~~~tk~eLg~AlGr~~~~~vav~d~gfA~~l~  195 (220)
T PRK09190        117 EKVDAALRSGEAAALIHASDGAA-DGKRKLDQARRALVHETGREIPVIGLFTAAELGLAFGRENVIHAALLAGGAAERVV  195 (220)
T ss_pred             HHHHHHHHcCCceEEEEeccCCh-hHHHHHHHHHHhhcccccCCccEEEecCHHHHHHHhCCCceeEEEEcChHHHHHHH
Confidence            57899999999999999999999 568899999999      999999999999999999999888777776542  234


Q ss_pred             HHHHHHHHHhhcCCCCC
Q psy6265          75 ELYEEVKQEIGALPVTW   91 (91)
Q Consensus        75 ~~~~~~~~~~~~~~~~~   91 (91)
                      ++++.+...-..-+.+|
T Consensus       196 ~~~~rl~~~~~~~~~~~  212 (220)
T PRK09190        196 KRAQRLAGYRGGDPGRA  212 (220)
T ss_pred             HHHHHHHhhhcCCCCcc
Confidence            44555444444444433

>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]

Probab=99.52  E-value=5.9e-14  Score=89.63  Aligned_cols=70  Identities=16%  Similarity=0.219  Sum_probs=61.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE-EeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCICVIVKSTES   72 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~v~~i~~~~~   72 (91)
                      +|+++|+++.|++++||||+|+.+ ++++.+..++.-.+||++ |-+|..|||.+||+.++.++..+.+.|+
T Consensus        24 ~k~tiK~lk~gkaKliiiAsN~P~-~~k~~ieyYAkLs~ipV~~y~Gt~~eLG~~cgkpf~v~~laIiD~G~   94 (100)
T COG1911          24 SKRTIKSLKLGKAKLIIIASNCPK-ELKEDIEYYAKLSDIPVYVYEGTSVELGTVCGKPFRVAALAIIDEGD   94 (100)
T ss_pred             hHHHHHHHHcCCCcEEEEecCCCH-HHHHHHHHHHHHcCCcEEEecCCceeHHhhhCCCceEEEEEEecCch
Confidence            589999999999999999999955 899999999999999975 5679999999999999977666555554

>PF08228 RNase_P_pop3: RNase P subunit Pop3; InterPro: IPR013241 This family of fungal proteins form a subunit of RNase P, the ribonucleoprotein enzyme that cleaves the leader sequence of precursor tRNAs to generate mature tRNAs

Probab=98.64  E-value=3.9e-07  Score=62.96  Aligned_cols=90  Identities=14%  Similarity=0.317  Sum_probs=76.9

Q ss_pred             hhHHHHHHHhCCc--eEEEEeCCCCchhHHhhHHHHHhcCC--CCEEEeC--CHhHHhhHhCCCCceEEEEEecCchHHH
Q psy6265           2 NSTVQGPLQRKTI--MLCIFAGDVTPIEIMCHLPAVCEDKD--IPYCYVP--SKKDIGEALGRKKPCICVIVKSTESVAE   75 (91)
Q Consensus         2 ~kev~kai~~gka--~lViiA~D~sp~~~~~~l~~lc~~~~--IP~~~~~--sk~eLG~a~G~~~~~~v~~i~~~~~~~~   75 (91)
                      +|++.+.|+....  .+||++..-.|.-+..|++.+|.-.+  |.++..+  +.+.|+.++|..+.+++++..+.+..+.
T Consensus        60 fNsi~~~Le~~~~~~~~vFVcr~D~ps~L~~h~P~Lva~as~~vrLV~Lpkgs~~rLs~aLgi~r~g~l~v~~~~~~~~~  139 (158)
T PF08228_consen   60 FNSIVRYLECQASDNVYVFVCRSDQPSILTSHFPQLVATASKSVRLVQLPKGSEARLSEALGIPRVGILAVRADAPGAKS  139 (158)
T ss_pred             hHHHHHHHhcccCCCeEEEEECCCCcHHHHHHHHHHHHhccCcceEEeCChhHHHHHHHHhCCCCccEEEEecCCcccHH
Confidence            5899999994333  47888876578789999999999888  8888765  7789999999999998999888888889


Q ss_pred             HHHHHHHHhhcCCCCC
Q psy6265          76 LYEEVKQEIGALPVTW   91 (91)
Q Consensus        76 ~~~~~~~~~~~~~~~~   91 (91)
                      .++.+.+.|..+..||
T Consensus       140 L~~~i~~~V~~ve~PW  155 (158)
T PF08228_consen  140 LVDLIRSHVPPVEIPW  155 (158)
T ss_pred             HHHHHHhcCCccCCCC
Confidence            9999999999999999

The structure of Pop3 has been assigned the L7Ae/L30e fold []. This RNA-binding fold is also present in human RNase P subunit Rpp38, raising the possibility that Pop3p and Rpp38 are functional homologues.

>KOG2988|consensus

Probab=98.55  E-value=2.4e-07  Score=60.39  Aligned_cols=70  Identities=11%  Similarity=0.144  Sum_probs=56.7

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE-EeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCICVIVKSTES   72 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~v~~i~~~~~   72 (91)
                      +|+++|.++.|+++|+++|+++.|. -++.+..++=-...+|. +-++..+||.+||+-++.+|..+.+.++
T Consensus        31 yK~T~k~~r~gkakL~~is~n~p~l-rks~ieyyamlak~~v~~~sg~n~~lgt~~g~~fRv~v~~ivd~gd  101 (112)
T KOG2988|consen   31 YKQTLKSLRQGKAKLIIISSNCPPL-RKSEIEYYAMLAKTGVHHYSGNNVELGTACGKTFRVSVLSIVDLGD  101 (112)
T ss_pred             hHHHHHHHHhccceEEEeecCCCCc-chhHHHHHHHHhcCceeeecCCcEeHHHHhcCeeEeeEEEEEeccc
Confidence            5899999999999999999999764 35556666655556664 5678899999999999988777777766

>KOG3166|consensus

Probab=98.19  E-value=1.4e-06  Score=62.46  Aligned_cols=72  Identities=26%  Similarity=0.345  Sum_probs=58.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      .+.|+..+++.+++||++|.|++|.+++-.+|.+|...     .+..+       ..++++++++  -+.+++.++.+++
T Consensus       114 vnTVttLVenKKAQLVV~ahDvDPIELVvFLPaLC~km-----ivk~~-------~~kT~t~~a~--v~~edk~~l~kl~  179 (209)
T KOG3166|consen  114 VNTVTTLVENKKAQLVVTAHDVDPIELVVFLPALCRKM-----IVKGK-------HRKTCTTVAF--VNSEDKGALAKLV  179 (209)
T ss_pred             cceEeehhhccccceeEEecccCchhheeecHHhhhhh-----ccccc-------ccceeeeeee--echhhHHHHHHHH
Confidence            35677789999999999999999999999999999998     22323       5566676777  6677788899999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      +.+++.
T Consensus       180 e~i~tn  185 (209)
T KOG3166|consen  180 EAIRTN  185 (209)
T ss_pred             HHHhcc
Confidence            988764

>PF15608 PELOTA_1: PELOTA RNA binding domain

Probab=96.47  E-value=0.017  Score=37.29  Aligned_cols=45  Identities=20%  Similarity=0.319  Sum_probs=38.6

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK   49 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk   49 (91)
                      -|+++.|.+..--.|++-+..+| + ..||..||+++|||+...++.
T Consensus        45 gEaTRvLLRRvP~~vLVr~~~~p-d-~~Hl~~LA~ekgVpVe~~~d~   89 (100)
T PF15608_consen   45 GEATRVLLRRVPWKVLVRDPDDP-D-LAHLLLLAEEKGVPVEVYPDL   89 (100)
T ss_pred             hHHHHHHHhcCCCEEEECCCCCc-c-HHHHHHHHHHcCCcEEEeCCC
Confidence            48899999998888888877777 5 589999999999999988765

>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications

Probab=95.32  E-value=0.069  Score=31.30  Aligned_cols=65  Identities=18%  Similarity=0.233  Sum_probs=44.5

Q ss_pred             hhHHHHHHHhCC-ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCc-eEEEEEe
Q psy6265           2 NSTVQGPLQRKT-IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP-CICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gk-a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~-~~v~~i~   68 (91)
                      .|-|..+|+++. +.-|++..+..... ...+..+|+..+||+..+ |++.|.+.++...+ ..++.+.
T Consensus         5 ~~~V~eaL~~~~~i~~l~~~~~~~~~~-~~~i~~~~~~~~i~v~~v-~~~~l~~ls~~~~hQGv~a~v~   71 (76)
T PF08032_consen    5 RHAVEEALKSGPRIKKLFVTEEKADKR-IKEILKLAKKKGIPVYEV-SKKVLDKLSDTENHQGVVAVVK   71 (76)
T ss_dssp             HHHHHHHHHCTGGEEEEEEETT---CC-THHHHHHHHHCT-EEEEE--HHHHHHCTTTSS-TTEEEEEE
T ss_pred             HHHHHHHHcCCCCccEEEEEcCccchh-HHHHHHHHHHcCCeEEEe-CHHHHHHHcCCCCCCeEEEEEe
Confidence            366888898876 88899999943323 456889999999998777 66679999976554 4455444

While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.

>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre

Probab=94.41  E-value=0.045  Score=35.51  Aligned_cols=66  Identities=17%  Similarity=0.190  Sum_probs=50.3

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchh------------------HHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceE
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIE------------------IMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI   63 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~------------------~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~   63 (91)
                      .++|.++++.|.+..++|..|..-..                  +...+...+++.|.-+.++.+..+-|.-+=+.....
T Consensus        26 ~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~~~a~~~g~~v~iis~~~e~G~~L~~~~gGI  105 (113)
T PF03465_consen   26 IEEVKKALEMGAVETLLISDDLFRSRDVERCKCPECGGELEVVELIEELIELAEQSGAKVEIISSEHEEGEQLLKGFGGI  105 (113)
T ss_dssp             HHHHHHHHHTT-EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHHHHHHHTTSEEEEE-TTSHHHHHHHHCTTTE
T ss_pred             HHHHHHHHHhCCCcEEEEecccccccceeccccccccchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHHHhcCCcE
Confidence            47899999999999999999875321                  357789999999999999999998888773344444


Q ss_pred             EEEE
Q psy6265          64 CVIV   67 (91)
Q Consensus        64 v~~i   67 (91)
                      +|++
T Consensus       106 aaiL  109 (113)
T PF03465_consen  106 AAIL  109 (113)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            5554

The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....

>PF07997 DUF1694: Protein of unknown function (DUF1694); InterPro: IPR012543 This family contains many hypothetical proteins

Probab=93.89  E-value=0.24  Score=32.70  Aligned_cols=51  Identities=10%  Similarity=0.130  Sum_probs=37.1

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG   53 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG   53 (91)
                      +.++.+.|++...-.++|.++.+. +....+..+|+++|+|+..+.+...=|
T Consensus        51 ~~~~~~~l~~~~~~~l~ing~l~~-~~~~~YiklA~~~~~~fTiv~~~~~~~  101 (120)
T PF07997_consen   51 YPEFEQALKDYPNYKLKINGNLDY-SFQSKYIKLANKHGIPFTIVNDPEYHS  101 (120)
T ss_dssp             -HHHHHHHHC-SSEEEEEETTS-H-HHHHHHHHHHHHTT--EEEE---SS--
T ss_pred             HHHHHHHHhhCCCeEEEEcCCCCH-HHHHHHHHHHHHcCCCEEEeCCCCccC
Confidence            467889999999999999999988 678899999999999999988766433

; PDB: 2OHW_A.

>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=93.43  E-value=0.36  Score=30.04  Aligned_cols=44  Identities=20%  Similarity=0.236  Sum_probs=33.3

Q ss_pred             CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC--CHhHHhhH
Q psy6265          12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP--SKKDIGEA   55 (91)
Q Consensus        12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~--sk~eLG~a   55 (91)
                      +++.+||+-.|+-.=+....+...|+++++|+++..  +...|=++
T Consensus        47 ~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~~~~~~l~~~   92 (97)
T PF10087_consen   47 KKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRSRGVSSLERA   92 (97)
T ss_pred             CCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECCCCHHHHHHH
Confidence            456888888887654677889999999999999987  44444333

>TIGR00111 pelota probable translation factor pelota

Probab=92.26  E-value=0.6  Score=35.74  Aligned_cols=66  Identities=15%  Similarity=0.152  Sum_probs=52.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCC-CchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      .++|.+|++.|.+.-++|+.+. ....-...+...+++.|..+..+.|..+-|+-+ ......+|++.
T Consensus       282 ~~eV~~Ale~GAVetLLIsD~l~~~r~~~~~l~~~v~~~gg~V~i~Ss~~e~G~qL-~~lgGiaAiLR  348 (351)
T TIGR00111       282 EDEVVKAAEYGAIEYLLVTDKVLVQREEIEKLLDSVESMGGKVVILSTEHELGKQL-DSLGGIAGILR  348 (351)
T ss_pred             HHHHHHHHHcCCceEEEEecchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHH-hhCCCEEEEEe
Confidence            4799999999999999999988 322224568888999999999999999999888 45556566554

This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.

>KOG2486|consensus

Probab=91.91  E-value=0.17  Score=38.44  Aligned_cols=74  Identities=12%  Similarity=0.111  Sum_probs=43.6

Q ss_pred             CCceEEEEeCCCC--chhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhhcCCC
Q psy6265          12 KTIMLCIFAGDVT--PIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIGALPV   89 (91)
Q Consensus        12 gka~lViiA~D~s--p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~   89 (91)
                      ....-+|++-|++  ...+=-....+|.+++||+..++||-+=-...-+.      ..+....-+.-|..+.+.+-...+
T Consensus       218 ~nLv~~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~DK~k~~~~~------~kKp~~~i~~~f~~l~~~~f~~~~  291 (320)
T KOG2486|consen  218 ENLVRVFLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKCDKQKKVKRT------GKKPGLNIKINFQGLIRGVFLVDL  291 (320)
T ss_pred             hhhheeeeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehhhhhhhcccc------ccCccccceeehhhccccceeccC
Confidence            3344455555554  22223346899999999999999987633322210      111112223347777888888888


Q ss_pred             CC
Q psy6265          90 TW   91 (91)
Q Consensus        90 ~~   91 (91)
                      ||
T Consensus       292 Pw  293 (320)
T KOG2486|consen  292 PW  293 (320)
T ss_pred             Cc
Confidence            87

>PRK04011 peptide chain release factor 1; Provisional

Probab=91.75  E-value=0.73  Score=36.08  Aligned_cols=67  Identities=16%  Similarity=0.243  Sum_probs=51.7

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCC-----------------------------------------chhHHhhHHHHHhcCC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVT-----------------------------------------PIEIMCHLPAVCEDKD   40 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~s-----------------------------------------p~~~~~~l~~lc~~~~   40 (91)
                      .++|.+|++.|.+.-++|..|..                                         ..+....+...++++|
T Consensus       301 ~~~V~~Ale~GAVetLLV~d~l~~~r~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~v~~l~e~a~~~g  380 (411)
T PRK04011        301 EEEVRKALEMGAVDTLLISEDLRKDRVTYKCPNCGYEEEKTVKRREELPEKTCPKCGSELEIVEEEDIIEELSELAEQSG  380 (411)
T ss_pred             HHHHHHHHHcCCceEEEEeccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHHHHHHHHHcC
Confidence            37899999999999999987641                                         1135677889999999


Q ss_pred             CCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265          41 IPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus        41 IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      ..+.++.+..+-|.-+-+.....+|++.
T Consensus       381 ~~v~iis~~~e~G~qL~~~fGGIaAiLR  408 (411)
T PRK04011        381 TKVEVISTDTEEGEQLLKAFGGIAAILR  408 (411)
T ss_pred             CEEEEECCCChhHHHHHHcCCCEEEEEe
Confidence            9999999998888777555555555553

>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms

Probab=91.65  E-value=0.83  Score=35.74  Aligned_cols=67  Identities=16%  Similarity=0.252  Sum_probs=53.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCC-----------------------------------------chhHHhhHHHHHhcCC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVT-----------------------------------------PIEIMCHLPAVCEDKD   40 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~s-----------------------------------------p~~~~~~l~~lc~~~~   40 (91)
                      .++|.+|++.|.+.-++|..|..                                         ..+....+...++++|
T Consensus       293 ~~eV~~ALe~GAVetLLV~d~l~~~r~~~rc~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ve~L~e~a~~~G  372 (403)
T TIGR03676       293 EEEVRKALEMGAVDTLLISEDLRKIRVTFKCPNCGYEEEKTVKPEEGDKSEACPKCGSELEIVEEEDIIEELSELAEESG  372 (403)
T ss_pred             HHHHHHHHHhCCCcEEEEEccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHHHHHHHHHcC
Confidence            36899999999999999988762                                         1135667888999999


Q ss_pred             CCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265          41 IPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus        41 IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      --+.++.+..+-|.-+-+.....+|++.
T Consensus       373 a~V~~iS~~~eeG~ql~~~fGGIaAiLR  400 (403)
T TIGR03676       373 AKVEIISTDTEEGEQLLKAFGGIAAILR  400 (403)
T ss_pred             CEEEEECCCChhHHHHHHcCCcEEEEEe
Confidence            9999999999888777666666666654

Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.

>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine

Probab=90.14  E-value=0.56  Score=28.97  Aligned_cols=42  Identities=12%  Similarity=0.046  Sum_probs=31.6

Q ss_pred             HHHHHHHhCCceEEEEeCCCCchhH---HhhHHHHHhcCCCCEEE
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVTPIEI---MCHLPAVCEDKDIPYCY   45 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~sp~~~---~~~l~~lc~~~~IP~~~   45 (91)
                      +..+.|++|++.+||.-.+-.....   -..+..+|.+++||+.+
T Consensus        51 ~i~~~i~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~~T   95 (95)
T PF02142_consen   51 QIMDLIKNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPLFT   95 (95)
T ss_dssp             HHHHHHHTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHEEC
T ss_pred             HHHHHHHcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCCcC
Confidence            4788999999999999888654322   34579999999999863

The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=90.08  E-value=2.3  Score=33.13  Aligned_cols=75  Identities=20%  Similarity=0.154  Sum_probs=56.3

Q ss_pred             CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchH---HHHHHHHHHHhhcC
Q psy6265          13 TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESV---AELYEEVKQEIGAL   87 (91)
Q Consensus        13 ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~---~~~~~~~~~~~~~~   87 (91)
                      ..+..+++.|+.-..-...+..+|+..++|+....+..+|..++......-++++|..|-.   ...++++.+.+...
T Consensus       206 g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~  283 (388)
T PRK12723        206 SLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSKDFDLVLVDTIGKSPKDFMKLAEMKELLNAC  283 (388)
T ss_pred             CCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhCCCCEEEEcCCCCCccCHHHHHHHHHHHHhc
Confidence            4688899999864444566899999999999999998999988877666679999987643   22355666655544

>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1

Probab=90.06  E-value=1.4  Score=34.55  Aligned_cols=68  Identities=15%  Similarity=0.177  Sum_probs=52.4

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCc-----------------------------------------hhHHhhHHHHHhcCC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTP-----------------------------------------IEIMCHLPAVCEDKD   40 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp-----------------------------------------~~~~~~l~~lc~~~~   40 (91)
                      .++|.++++.|.+..++|..|..-                                         .+++..+...|+++|
T Consensus       297 ~~eV~~ALe~GAVetLLV~d~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~ve~L~e~a~~~G  376 (409)
T TIGR00108       297 EDEVLKALDLGAVETLIVSEDLEYIRVTYKCAECGEVIEKTVRELKDKKFAICPACGQEMDVVEERDLIEWLSELAENFG  376 (409)
T ss_pred             HHHHHHHHHhCCCcEEEEeccccceeEEEEcCCCCceeecccccccccccccCcccCccccchhhhhHHHHHHHHHHHcC
Confidence            478999999999999999998620                                         134566888999999


Q ss_pred             CCEEEeCCHhHHhhHhCCCCceEEEEEec
Q psy6265          41 IPYCYVPSKKDIGEALGRKKPCICVIVKS   69 (91)
Q Consensus        41 IP~~~~~sk~eLG~a~G~~~~~~v~~i~~   69 (91)
                      -.+.++.++.+=|.-+-+.....+|++.-
T Consensus       377 a~V~iiS~~~eeG~ql~~~fGGIaAiLRy  405 (409)
T TIGR00108       377 AKLEFISTESEEGAQLLTAFGGIGAILRY  405 (409)
T ss_pred             CEEEEECCCChhHHHHHHhCCCEEEEEec
Confidence            99999999988887664455555666543

Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.

>PF02603 Hpr_kinase_N: HPr Serine kinase N terminus; InterPro: IPR011126 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []

Probab=90.04  E-value=0.53  Score=30.93  Aligned_cols=42  Identities=19%  Similarity=0.150  Sum_probs=28.9

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP   47 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~   47 (91)
                      ++..+.+-+.+.-.+|++.|..|.   ..+.+.|++++||+....
T Consensus        71 ~~~l~~l~~~~~P~iIvt~~~~~p---~~l~e~a~~~~ipll~t~  112 (127)
T PF02603_consen   71 KERLEKLFSYNPPCIIVTRGLEPP---PELIELAEKYNIPLLRTP  112 (127)
T ss_dssp             CCHHHHHCTTT-S-EEEETTT------HHHHHHHHHCT--EEEES
T ss_pred             HHHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHhCCcEEEcC
Confidence            456777888889999999999764   458889999999998655

Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the N-terminal region of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller. The blades are formed by two N-terminal domains each, and the compact central hub assembles the C-terminal kinase domains []. ; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 1KNX_B 1KO7_A.

>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal

Probab=89.86  E-value=0.95  Score=29.24  Aligned_cols=44  Identities=20%  Similarity=0.248  Sum_probs=33.8

Q ss_pred             HHHHHHHhCCceEEEEeCCC---Cc-hhHHhhHHHHHhcCCCCEEEeC
Q psy6265           4 TVQGPLQRKTIMLCIFAGDV---TP-IEIMCHLPAVCEDKDIPYCYVP   47 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~---sp-~~~~~~l~~lc~~~~IP~~~~~   47 (91)
                      ++...|++|++.+||--.|-   .+ ..--..+...|-+++|||++.-
T Consensus        61 ~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~Ttl  108 (115)
T cd01422          61 QIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLATNR  108 (115)
T ss_pred             HHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEEcH
Confidence            57889999999999988772   12 1224568999999999997643

The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.

>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase

Probab=89.70  E-value=3  Score=33.45  Aligned_cols=47  Identities=26%  Similarity=0.426  Sum_probs=35.0

Q ss_pred             HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhh
Q psy6265           7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE   54 (91)
Q Consensus         7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~   54 (91)
                      ..|-..++-++|+-++-...+ ..||-.+|+.+++|-.++.+.++|+.
T Consensus       356 ~~L~~~~vDlmiVVGG~NSSN-T~~L~eIa~~~g~~sy~Ie~~~eI~~  402 (460)
T PLN02821        356 YKLVEEKLDLMLVVGGWNSSN-TSHLQEIAEHKGIPSYWIDSEERIGP  402 (460)
T ss_pred             HHHhhcCCCEEEEECCCCCcc-HHHHHHHHHHhCCCEEEECCHHHcCc
Confidence            344334566666666554433 57999999999999999999999985

>cd04168 TetM_like Tet(M)-like subfamily

Probab=89.64  E-value=1.7  Score=31.21  Aligned_cols=50  Identities=14%  Similarity=0.010  Sum_probs=32.6

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHH
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDI   52 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eL   52 (91)
                      .++..+++...+-++++...-....-...+..+++.+++|++.+.+|.++
T Consensus        79 ~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P~iivvNK~D~  128 (237)
T cd04168          79 AEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIPTIIFVNKIDR  128 (237)
T ss_pred             HHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccc
Confidence            45677777776655555433222223455677788889999888888775

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B

Probab=89.62  E-value=0.75  Score=30.08  Aligned_cols=45  Identities=16%  Similarity=0.103  Sum_probs=32.2

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP   47 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~   47 (91)
                      .+..+.++++.+.-|++|-+-++.+...++...|++.+|.+..++
T Consensus       131 ~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v~~vP  175 (175)
T PF13727_consen  131 DDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRVRVVP  175 (175)
T ss_dssp             GGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EEEE--
T ss_pred             HHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEEEEeC
Confidence            567888999999999999877766778899999999999887653

>cd01020 TroA_b Metal binding protein TroA_b

Probab=89.15  E-value=2.7  Score=30.49  Aligned_cols=65  Identities=8%  Similarity=0.148  Sum_probs=35.6

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHH
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQ   82 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~   82 (91)
                      .++.+.+++++++.||.....++ ...+.+..++++.++|++.+.+                 -...+++|.+.++...+
T Consensus       196 ~~l~~~ik~~~v~~if~e~~~~~-k~~~~l~~la~~~~~~v~~l~~-----------------~~~~~~~y~~~m~~n~~  257 (264)
T cd01020         196 AAFQNAIKNRQIDALIVNPQQAS-SATTNITGLAKRSGVPVVEVTE-----------------TMPNGTTYLTWMLKQVD  257 (264)
T ss_pred             HHHHHHHHhCCCCEEEeCCCCCc-HHHHHHHHHHHHcCCCEEeecC-----------------CCCCCCCHHHHHHHHHH
Confidence            45556666666666666655544 4445555566666666644311                 00123567776666666


Q ss_pred             Hhh
Q psy6265          83 EIG   85 (91)
Q Consensus        83 ~~~   85 (91)
                      .+.
T Consensus       258 ~i~  260 (264)
T cd01020         258 QLE  260 (264)
T ss_pred             HHH
Confidence            654

These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).

>cd00532 MGS-like MGS-like domain

Probab=86.52  E-value=1.9  Score=27.39  Aligned_cols=43  Identities=19%  Similarity=0.046  Sum_probs=31.8

Q ss_pred             HHHHHHHh-CCceEEEEeCCCCc----hhHHhhHHHHHhcCCCCEEEe
Q psy6265           4 TVQGPLQR-KTIMLCIFAGDVTP----IEIMCHLPAVCEDKDIPYCYV   46 (91)
Q Consensus         4 ev~kai~~-gka~lViiA~D~sp----~~~~~~l~~lc~~~~IP~~~~   46 (91)
                      ++...|++ |++.+||--.|-..    ..--..+...|-+++||+++-
T Consensus        58 ~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T~  105 (112)
T cd00532          58 TVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTTP  105 (112)
T ss_pred             HHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEEC
Confidence            57888999 99999998665211    111345889999999999764

This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=86.47  E-value=1.2  Score=30.27  Aligned_cols=50  Identities=14%  Similarity=0.084  Sum_probs=36.1

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKD   51 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~e   51 (91)
                      .+++..+++.-.+-++++..+..+......+...|...++|++.+-+|.+
T Consensus        84 ~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~ivvlNK~D  133 (188)
T PF00009_consen   84 IKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPIIVVLNKMD  133 (188)
T ss_dssp             HHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEEEEEETCT
T ss_pred             eecccceecccccceeeeecccccccccccccccccccccceEEeeeecc
Confidence            46777888777777788877654444456678899999999988777654

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>PRK05234 mgsA methylglyoxal synthase; Validated

Probab=86.13  E-value=2.1  Score=28.79  Aligned_cols=53  Identities=17%  Similarity=0.137  Sum_probs=37.5

Q ss_pred             HHHHHHHhCCceEEEEeCC-CCc---hhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHh
Q psy6265           4 TVQGPLQRKTIMLCIFAGD-VTP---IEIMCHLPAVCEDKDIPYCY-VPSKKDIGEAL   56 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D-~sp---~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~   56 (91)
                      +....|++|++.+||--.| .++   ..-...+...|-.++|||++ ..+-..+=+++
T Consensus        66 ~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T~l~tA~a~~~al  123 (142)
T PRK05234         66 QIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVATNRATADFLISSL  123 (142)
T ss_pred             hHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEcCHHHHHHHHHHH
Confidence            4788999999999998764 122   11134689999999999976 33555555554

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=85.90  E-value=4.6  Score=34.33  Aligned_cols=62  Identities=16%  Similarity=0.114  Sum_probs=49.7

Q ss_pred             HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265          10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE   71 (91)
Q Consensus        10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~   71 (91)
                      +.|+.+..+++.|..-......+..+++..+||+..+.+..+|-.++..-...-+++||.+|
T Consensus       212 ~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D~VLIDTAG  273 (767)
T PRK14723        212 REGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKHLVLIDTVG  273 (767)
T ss_pred             HcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCCEEEEeCCC
Confidence            45556888999998655566789999999999998888988988888754444589999987

>PF08534 Redoxin: Redoxin; InterPro: IPR013740 This redoxin domain is found in peroxiredoxin, thioredoxin and glutaredoxin proteins

Probab=85.44  E-value=5.2  Score=25.67  Aligned_cols=63  Identities=13%  Similarity=0.163  Sum_probs=42.5

Q ss_pred             HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHhCCC---------CceEEEEEecCc
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-SKKDIGEALGRK---------KPCICVIVKSTE   71 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~~---------~~~~v~~i~~~~   71 (91)
                      +..+..+.+.+.++.++.|-++.     +..+++++++++.... ...++.+++|..         ..=...+++.+|
T Consensus        53 ~l~~~~~~~~v~~v~v~~~~~~~-----~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~~P~~~lId~~G  125 (146)
T PF08534_consen   53 ELQEKYKDKGVDVVGVSSDDDPP-----VREFLKKYGINFPVLSDPDGALAKALGVTIMEDPGNGFGIPTTFLIDKDG  125 (146)
T ss_dssp             HHHHHHHTTTCEEEEEEESSSHH-----HHHHHHHTTTTSEEEEETTSHHHHHTTCEEECCTTTTSSSSEEEEEETTS
T ss_pred             hhhhhhccCceEEEEecccCCHH-----HHHHHHhhCCCceEEechHHHHHHHhCCccccccccCCeecEEEEEECCC
Confidence            33344466668999999887773     4456666877775554 667999999966         343466666654

Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine []. Chloroplast thioredoxin systems in plants regulate the enzymes involved in photosynthetic carbon assimilation []. It is thought that redoxins have a large role to play in anti-oxidant defence. Cadmium-sensitive proteins are also regulated via thioredoxin and glutaredoxin thiol redox systems [].; GO: 0016491 oxidoreductase activity; PDB: 2H30_A 1TP9_A 1Y25_A 1XVQ_A 2B1K_A 2G0F_A 2B1L_B 3K8N_A 1Z5Y_E 3OR5_A ....

>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox

Probab=85.16  E-value=1.7  Score=25.44  Aligned_cols=40  Identities=18%  Similarity=0.101  Sum_probs=27.5

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV   46 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~   46 (91)
                      +..++.+..|+ .|.+++.|-.   ....++.+|++.|-.+...
T Consensus        17 kkal~~l~~G~-~l~V~~d~~~---a~~di~~~~~~~G~~~~~~   56 (69)
T cd03420          17 KKEIDKLQDGE-QLEVKASDPG---FARDAQAWCKSTGNTLISL   56 (69)
T ss_pred             HHHHHcCCCCC-EEEEEECCcc---HHHHHHHHHHHcCCEEEEE
Confidence            44444444555 5888888743   3567999999999887643

SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.

>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]

Probab=84.48  E-value=4.4  Score=28.97  Aligned_cols=68  Identities=19%  Similarity=0.198  Sum_probs=42.9

Q ss_pred             ceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh----HHhhHhCCCCceEEEEEecCch--H-HHHHHHHHHHh
Q psy6265          14 IMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK----DIGEALGRKKPCICVIVKSTES--V-AELYEEVKQEI   84 (91)
Q Consensus        14 a~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~----eLG~a~G~~~~~~v~~i~~~~~--~-~~~~~~~~~~~   84 (91)
                      +-|||+|.|= + .+-..+-..|++++||+..+....    -....+.+. +..+++-..+..  . +...++|.+.+
T Consensus        73 ~~lviaAt~d-~-~ln~~i~~~a~~~~i~vNv~D~p~~~~f~~Pa~~~r~-~l~iaIsT~G~sP~la~~ir~~Ie~~l  147 (210)
T COG1648          73 AFLVIAATDD-E-ELNERIAKAARERRILVNVVDDPELCDFIFPAIVDRG-PLQIAISTGGKSPVLARLLREKIEALL  147 (210)
T ss_pred             ceEEEEeCCC-H-HHHHHHHHHHHHhCCceeccCCcccCceecceeeccC-CeEEEEECCCCChHHHHHHHHHHHHHc
Confidence            8899999994 4 567889999999999987766544    234444444 354555554422  2 34444444444

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=84.05  E-value=6.1  Score=31.27  Aligned_cols=62  Identities=21%  Similarity=0.306  Sum_probs=52.5

Q ss_pred             HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265          10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE   71 (91)
Q Consensus        10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~   71 (91)
                      ..++-+.-||.-|+--.--...|..+|+-.|+|+.-+.|.+||-.++.--...=+.++|..|
T Consensus       230 ~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~d~ILVDTaG  291 (407)
T COG1419         230 LKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDCDVILVDTAG  291 (407)
T ss_pred             hccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcCCEEEEeCCC
Confidence            67888999999998765556779999999999999999999999999865455688888765

>PRK00299 sulfur transfer protein SirA; Reviewed

Probab=83.13  E-value=2.2  Score=25.87  Aligned_cols=41  Identities=20%  Similarity=0.181  Sum_probs=28.1

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV   46 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~   46 (91)
                      ++..++.+..|+ .+.+++.|-.   ....++.+|++.+-.+...
T Consensus        26 ~kk~l~~l~~G~-~l~V~~dd~~---~~~di~~~~~~~G~~~~~~   66 (81)
T PRK00299         26 VRKTVRNMQPGE-TLLIIADDPA---TTRDIPSFCRFMDHELLAQ   66 (81)
T ss_pred             HHHHHHcCCCCC-EEEEEeCCcc---HHHHHHHHHHHcCCEEEEE
Confidence            455566666665 3556777742   3567999999999988653

>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised

Probab=82.88  E-value=6.8  Score=23.01  Aligned_cols=40  Identities=15%  Similarity=0.242  Sum_probs=30.5

Q ss_pred             EEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC
Q psy6265          16 LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR   58 (91)
Q Consensus        16 lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~   58 (91)
                      .+|+-...+.   .-+...+++++||++..+++-.+++.-||.
T Consensus         4 ~~i~F~st~~---a~~~ek~lk~~gi~~~liP~P~~i~~~CG~   43 (73)
T PF11823_consen    4 YLITFPSTHD---AMKAEKLLKKNGIPVRLIPTPREISAGCGL   43 (73)
T ss_pred             EEEEECCHHH---HHHHHHHHHHCCCcEEEeCCChhccCCCCE
Confidence            4455555433   345788999999999999999999988883

This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=82.65  E-value=3.2  Score=26.91  Aligned_cols=51  Identities=12%  Similarity=0.042  Sum_probs=33.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcC--CCCEEEeCCHhHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDK--DIPYCYVPSKKDI   52 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~--~IP~~~~~sk~eL   52 (91)
                      .+++.+++++-.+-++++.....+.+.-..+..+.+..  +.|++.+.+|.+|
T Consensus         2 ~~~~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~iivlNK~DL   54 (141)
T cd01857           2 WRQLWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNILLLNKADL   54 (141)
T ss_pred             HHHHHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEEEEechhc
Confidence            57889999888866666654322211222444444444  8999999999887

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed

Probab=82.57  E-value=15  Score=27.77  Aligned_cols=76  Identities=14%  Similarity=0.127  Sum_probs=43.6

Q ss_pred             HHHHhCCceEEEE-eCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhh
Q psy6265           7 GPLQRKTIMLCIF-AGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIG   85 (91)
Q Consensus         7 kai~~gka~lVii-A~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~   85 (91)
                      +.|-+ ++.++|+ ++--|. + ..+|-+.|++.+.|..++.+.+||-...=.. ...++++--..--....+++...++
T Consensus       205 ~~La~-~vD~miVVGg~~Ss-N-T~kL~~i~~~~~~~t~~Ie~~~el~~~~l~~-~~~VGitaGASTP~~li~eV~~~l~  280 (298)
T PRK01045        205 KELAP-QADLVIVVGSKNSS-N-SNRLREVAEEAGAPAYLIDDASEIDPEWFKG-VKTVGVTAGASAPEWLVQEVIARLK  280 (298)
T ss_pred             HHHHh-hCCEEEEECCCCCc-c-HHHHHHHHHHHCCCEEEECChHHCcHHHhcC-CCEEEEEecCCCCHHHHHHHHHHHH
Confidence            34433 3444444 444455 3 4689999999999999999999997432121 2234444333322334455554444


Q ss_pred             c
Q psy6265          86 A   86 (91)
Q Consensus        86 ~   86 (91)
                      .
T Consensus       281 ~  281 (298)
T PRK01045        281 E  281 (298)
T ss_pred             H
Confidence            4

>PRK03147 thiol-disulfide oxidoreductase; Provisional

Probab=82.56  E-value=11  Score=24.68  Aligned_cols=65  Identities=8%  Similarity=0.116  Sum_probs=41.9

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPCICVIVKSTE   71 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~v~~i~~~~   71 (91)
                      ++..+........++.+..|-++.    .+..+.+++++|+-. .....++.+..|....-+..+++.+|
T Consensus        84 ~~~~~~~~~~~~~vi~i~~d~~~~----~~~~~~~~~~~~~~~~~d~~~~~~~~~~v~~~P~~~lid~~g  149 (173)
T PRK03147         84 NELYPKYKEKGVEIIAVNVDETEL----AVKNFVNRYGLTFPVAIDKGRQVIDAYGVGPLPTTFLIDKDG  149 (173)
T ss_pred             HHHHHHhhcCCeEEEEEEcCCCHH----HHHHHHHHhCCCceEEECCcchHHHHcCCCCcCeEEEECCCC
Confidence            345555566667888888876542    344556777887754 34557899999976554555666544

>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases

Probab=82.55  E-value=9.9  Score=28.20  Aligned_cols=62  Identities=19%  Similarity=0.290  Sum_probs=47.5

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH--hHHhhHhCCCCceEEEEE
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK--KDIGEALGRKKPCICVIV   67 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk--~eLG~a~G~~~~~~v~~i   67 (91)
                      .+++..++...+  +|+..=+++ ++...+...|++++||++.+.+.  ..|.+.+|.+.....+..
T Consensus        43 ~~il~~i~~~~~--iV~~Tlv~~-~lr~~l~~~~~~~~i~~~Dll~~~l~~l~~~lg~~p~~~pg~~  106 (255)
T PF03618_consen   43 DEILEEIKEENA--IVFYTLVDP-ELREYLEEFCREHGIPCVDLLGPLLSALEEFLGQKPSRKPGLQ  106 (255)
T ss_pred             HHHHHHHhccCC--EEEEeCCCH-HHHHHHHHHHHhcCCCEEeccHHHHHHHHHHHCcCcccccCcc
Confidence            456666766434  777777888 79999999999999999988764  599999998865544443

; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups

>cd01483 E1_enzyme_family Superfamily of activating enzymes (E1) of the ubiquitin-like proteins

Probab=82.47  E-value=3  Score=27.10  Aligned_cols=36  Identities=22%  Similarity=0.174  Sum_probs=29.6

Q ss_pred             CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCH
Q psy6265          12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSK   49 (91)
Q Consensus        12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk   49 (91)
                      .+..+||.+.|. . .....+..+|+++++|++..++.
T Consensus        88 ~~~diVi~~~d~-~-~~~~~l~~~~~~~~i~~i~~~~~  123 (143)
T cd01483          88 DGVDLVIDAIDN-I-AVRRALNRACKELGIPVIDAGGL  123 (143)
T ss_pred             cCCCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEcCC
Confidence            357799999997 4 45678999999999999988764

This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common reaction mechanism catalyzed by MoeB, ThiF and the E1 enzymes begins with a nucleophilic attack of the C-terminal carboxylate of MoaD, ThiS and ubiquitin, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS.

>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase

Probab=82.37  E-value=5.8  Score=30.20  Aligned_cols=53  Identities=15%  Similarity=0.056  Sum_probs=40.9

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHhCC
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-SKKDIGEALGR   58 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G~   58 (91)
                      ++..+.+-+.+.-.+|++.+..|+   ..+...|++++||++..+ +..+++..+..
T Consensus        72 ~~~~~~~~~~~~P~iIvt~~~~~p---~~l~~~a~~~~ip~l~t~~~~~~~~~~l~~  125 (304)
T TIGR00679        72 KQIIHNLLTLNPPAIILSKSFTDP---TVLLQVNETYQVPILKTDLFSTELSFRLET  125 (304)
T ss_pred             HHHHHHHhCCCCCEEEEECcCCCC---HHHHHHHHHhCCcEEEeCCcHHHHHHHHHH
Confidence            456777888889999999999875   357889999999997654 55566665543

The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase

>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids

Probab=82.25  E-value=19  Score=27.02  Aligned_cols=75  Identities=17%  Similarity=0.200  Sum_probs=44.0

Q ss_pred             HHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh-hHhCCCCceEEEEEecCchHHHHHHHHHHHhh
Q psy6265           7 GPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG-EALGRKKPCICVIVKSTESVAELYEEVKQEIG   85 (91)
Q Consensus         7 kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG-~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~   85 (91)
                      +.|- +++-++|+-++-..++ ..+|-++|++++.|.+++.+..||= .++.-..  .++++--..--....++++..++
T Consensus       204 ~~La-~~vD~miVIGg~~SsN-T~kL~eia~~~~~~t~~Ie~~~el~~~~l~~~~--~VGItaGASTP~~ii~eVi~~l~  279 (281)
T PF02401_consen  204 RELA-KEVDAMIVIGGKNSSN-TRKLAEIAKEHGKPTYHIETADELDPEWLKGVK--KVGITAGASTPDWIIEEVIDRLE  279 (281)
T ss_dssp             HHHH-CCSSEEEEES-TT-HH-HHHHHHHHHHCTTCEEEESSGGG--HHHHTT-S--EEEEEE-TTS-HHHHHHHHHHHH
T ss_pred             HHHH-hhCCEEEEecCCCCcc-HHHHHHHHHHhCCCEEEeCCccccCHhHhCCCC--EEEEEccCCCCHHHHHHHHHHHh
Confidence            3443 3455666555554434 5789999999999999999999995 4444322  45555444433445566665554

The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....

>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length

Probab=82.13  E-value=2.4  Score=26.42  Aligned_cols=46  Identities=17%  Similarity=0.252  Sum_probs=27.8

Q ss_pred             HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-CHhHH
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-SKKDI   52 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-sk~eL   52 (91)
                      +++...-...+..+|+.++..|.   ..+..+|++++||++..+ +.-+-
T Consensus        52 di~~~a~~~~i~~iIltg~~~~~---~~v~~la~~~~i~vi~t~~dtf~t   98 (105)
T PF07085_consen   52 DIQLAAIEAGIACIILTGGLEPS---EEVLELAKELGIPVISTPYDTFET   98 (105)
T ss_dssp             HHHHHHCCTTECEEEEETT-------HHHHHHHHHHT-EEEE-SS-HHHH
T ss_pred             HHHHHHHHhCCCEEEEeCCCCCC---HHHHHHHHHCCCEEEEECCCHHHH
Confidence            34444444458899999988774   468889999999998766 43343

It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.

>PF13611 Peptidase_S76: Serine peptidase of plant viral polyprotein, P1

Probab=81.44  E-value=2.4  Score=28.20  Aligned_cols=31  Identities=19%  Similarity=0.373  Sum_probs=25.0

Q ss_pred             EeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265          19 FAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK   50 (91)
Q Consensus        19 iA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~   50 (91)
                      +|+ +.-.+++..+.++|-+.|||+.+++++.
T Consensus        30 v~~-~~i~dL~~~~~~ic~ergiPIe~I~~~k   60 (121)
T PF13611_consen   30 VAN-NEIDDLVREVTEICCERGIPIEIIDKKK   60 (121)
T ss_pred             Eec-CcHHHHHHHHHHHHHHcCCCEEEecCcc
Confidence            675 3334688899999999999999998654

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=80.77  E-value=4.1  Score=31.69  Aligned_cols=62  Identities=15%  Similarity=0.070  Sum_probs=47.0

Q ss_pred             hCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265          11 RKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTES   72 (91)
Q Consensus        11 ~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~   72 (91)
                      .|..+..++..|..-..-...+..+++..++|+..+.+..+|..++..-...-+.+||..|-
T Consensus       165 ~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~DlVLIDTaG~  226 (374)
T PRK14722        165 FGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNKHMVLIDTIGM  226 (374)
T ss_pred             cCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCCCEEEEcCCCC
Confidence            35567788888875334456788999999999999998888877776544456788998763

>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming)

Probab=80.36  E-value=22  Score=26.65  Aligned_cols=70  Identities=17%  Similarity=0.231  Sum_probs=42.7

Q ss_pred             CceEEEEeCCC-CchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHHHHhh
Q psy6265          13 TIMLCIFAGDV-TPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVKQEIG   85 (91)
Q Consensus        13 ka~lViiA~D~-sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~~~~~   85 (91)
                      ++-++|+-++- |. + ..+|-+.|++++.|..++.+.+||...-=... ..++++--..--....++++..++
T Consensus       208 ~vD~miVVGg~nSs-N-T~rL~ei~~~~~~~t~~Ie~~~el~~~~l~~~-~~VGiTAGASTP~~li~eVi~~l~  278 (280)
T TIGR00216       208 EVDLMIVIGGKNSS-N-TTRLYEIAEEHGPPSYLIETAEELPEEWLKGV-KVVGITAGASTPDWIIEEVIRKIK  278 (280)
T ss_pred             hCCEEEEECCCCCc-h-HHHHHHHHHHhCCCEEEECChHHCCHHHhCCC-CEEEEEecCCCCHHHHHHHHHHHH
Confidence            34455444444 44 3 47899999999999999999999974322221 224554433333345555555544

Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.

>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides

Probab=80.21  E-value=12  Score=23.55  Aligned_cols=64  Identities=8%  Similarity=0.088  Sum_probs=41.3

Q ss_pred             HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe-CCHhHHhhHhCCCCc---------eEEEEEecCch
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV-PSKKDIGEALGRKKP---------CICVIVKSTES   72 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~G~~~~---------~~v~~i~~~~~   72 (91)
                      +..+.++...+.+|.|+.|. +    ..+..+++++++++-.+ ....+++++.|....         -...+++.+|.
T Consensus        48 ~~~~~~~~~~~~vv~is~d~-~----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~~~~~~~~~~~~p~~~lid~~G~  121 (140)
T cd03017          48 DLYEEFKALGAVVIGVSPDS-V----ESHAKFAEKYGLPFPLLSDPDGKLAKAYGVWGEKKKKYMGIERSTFLIDPDGK  121 (140)
T ss_pred             HHHHHHHHCCCEEEEEcCCC-H----HHHHHHHHHhCCCceEEECCccHHHHHhCCccccccccCCcceeEEEECCCCE
Confidence            34455566678899998874 3    23456677777776443 345689999997653         34666776553

The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w

>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional

Probab=80.07  E-value=16  Score=28.84  Aligned_cols=48  Identities=19%  Similarity=0.252  Sum_probs=34.0

Q ss_pred             HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhh
Q psy6265           6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE   54 (91)
Q Consensus         6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~   54 (91)
                      .+.|-..++-++|+-++-..++ ..+|-.+|++.+.|..++.+.++|-.
T Consensus       281 ~~~La~~~vD~miVVGG~nSSN-T~rL~eia~~~g~~ty~Ie~~~eL~~  328 (387)
T PRK13371        281 MFSLVEEPLDLMVVIGGYNSSN-TTHLQEIAIERGIPSYHIDSPERILS  328 (387)
T ss_pred             HHHHhhcCCCEEEEECCCCCcc-HHHHHHHHHhcCCCEEEECCHHHcCC
Confidence            3445333455555555543323 57899999999999999999999965

>smart00851 MGS MGS-like domain

Probab=80.04  E-value=3  Score=25.26  Aligned_cols=40  Identities=25%  Similarity=0.142  Sum_probs=29.9

Q ss_pred             HHHHHHhCCceEEEEeCCC-C--chhHHhhHHHHHhcCCCCEE
Q psy6265           5 VQGPLQRKTIMLCIFAGDV-T--PIEIMCHLPAVCEDKDIPYC   44 (91)
Q Consensus         5 v~kai~~gka~lViiA~D~-s--p~~~~~~l~~lc~~~~IP~~   44 (91)
                      ..+.++.|++.+||--.+- .  +.+--..+...|.+++||+.
T Consensus        47 i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~Ip~~   89 (90)
T smart00851       47 ILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDIPGA   89 (90)
T ss_pred             HHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCCCee
Confidence            6788999999999986652 1  21113368899999999986

This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	91
2lbx_A	121	Solution Structure Of The S. Cerevisiae HACA RNP PR		3e-11
3paf_A	117	M. Jannaschii L7ae Mutant Length = 117		7e-11
2ale_A	134	Crystal Structure Of Yeast Rna Splicing Factor Snu1		8e-11
1zwz_A	126	Structural Comparison Of Yeast Snornp And Splicesom		9e-11
2lbw_A	121	Solution Structure Of The S. Cerevisiae HACA RNP PR		1e-10
2aif_A	135	Crystal Structure Of High Mobility Like Protein, Nh		1e-10
1rlg_A	119	Molecular Basis Of Box CD RNA-Protein Interaction:		2e-10
2fc3_A	124	Crystal Structure Of The Extremely Thermostable Aer		6e-10
2hvy_D	130	Crystal Structure Of An HACA BOX RNP FROM PYROCOCCU		7e-10
3lwo_C	123	Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONT		7e-10
3nmu_C	129	Crystal Structure Of Substrate-Bound Halfmer Box CD		7e-10
1sds_A	117	Structure Of Protein L7ae Bound To A K-Turn Derived		8e-10
2czw_A	124	Crystal Structure Analysis Of Protein Component Ph1		8e-10
1ra4_A	120	Crystal Structure Of The Methanococcus Jannaschii L		8e-10
3hjw_C	120	Structure Of A Functional Ribonucleoprotein Pseudou		8e-10
1pxw_A	128	Crystal Structure Of L7ae Srnp Core Protein From Py		9e-10
2jnb_A	144	Solution Structure Of Rna-Binding Protein 15.5k Len		2e-09
3o85_A	122	Giardia Lamblia 15.5kd Rna Binding Protein Length =		3e-09
2ozb_A	130	Structure Of A Human Prp31-15.5k-U4 Snrna Complex L		3e-09
1e7k_A	128	Crystal Structure Of The Spliceosomal 15.5kd Protei		3e-09
3id5_C	130	Crystal Structure Of Sulfolobus Solfataricus CD RNP		3e-09
3zf7_x	276	High-resolution Cryo-electron Microscopy Structure		1e-06
2zkr_f	266	Structure Of A Mammalian Ribosomal 60s Subunit With		3e-06
1ffk_E	119	Crystal Structure Of The Large Ribosomal Subunit Fr		1e-05
4a17_F	255	T.Thermophila 60s Ribosomal Subunit In Complex With		1e-05
1s72_F	120	Refined Crystal Structure Of The Haloarcula Marismo		1e-05
3g4s_F	119	Co-Crystal Structure Of Tiamulin Bound To The Large		1e-05
3izs_H	256	Localization Of The Large Subunit Ribosomal Protein		1e-05
1s1i_G	119	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		3e-05
3jyw_G	113	Structure Of The 60s Proteins For Eukaryotic Riboso		3e-05
3izr_H	258	Localization Of The Large Subunit Ribosomal Protein		6e-05

>pdb|2LBX|A Chain A, Solution Structure Of The S. Cerevisiae HACA RNP PROTEIN NHP2P Length = 121

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 29/90 (32%), Positives = 49/90 (54%), Gaps = 11/90 (12%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIV- 67
           L++    L + AGD++P +++ H+P +CED  +PY ++PSK+D+G A   K+P   V + 
Sbjct: 32  LRKGEKGLVVIAGDISPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIV 91
Query: 68  ----------KSTESVAELYEEVKQEIGAL 87
                        E   E + EV +E+ AL
Sbjct: 92  PGSNKKKDGKNKEEEYKESFNEVVKEVQAL 121

>pdb|3PAF|A Chain A, M. Jannaschii L7ae Mutant Length = 117

Iteration: 1
 Score = 62.4 bits (150), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 30/74 (40%), Positives = 43/74 (58%)
Query: 3   STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPC 62
           + V   ++R    L I A DV P E++ HLP +CE+K IPY YV SK+D+G+A G  +P 
Sbjct: 32  NEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGVSRPA 91
Query: 63  ICVIVKSTESVAEL 76
             V + +     EL
Sbjct: 92  SSVAIINEGDAEEL 105

>pdb|2ALE|A Chain A, Crystal Structure Of Yeast Rna Splicing Factor Snu13p Length = 134

Iteration: 1
 Score = 62.0 bits (149), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 39/66 (59%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           L R      I A D  PIEI+ HLP +CEDK++PY +VPS+  +G A G  +P I   + 
Sbjct: 44  LNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASIT 103
Query: 69  STESVA 74
           + ++ A
Sbjct: 104 TNDASA 109

>pdb|1ZWZ|A Chain A, Structural Comparison Of Yeast Snornp And Splicesomal Protein Snu13p With Its Homologs Length = 126

Iteration: 1
 Score = 61.6 bits (148), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 39/66 (59%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           L R      I A D  PIEI+ HLP +CEDK++PY +VPS+  +G A G  +P I   + 
Sbjct: 44  LNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASIT 103
Query: 69  STESVA 74
           + ++ A
Sbjct: 104 TNDASA 109

>pdb|2LBW|A Chain A, Solution Structure Of The S. Cerevisiae HACA RNP PROTEIN NHP2P-S82w Mutant Length = 121

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 29/90 (32%), Positives = 48/90 (53%), Gaps = 11/90 (12%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIV- 67
           L++    L + AGD+ P +++ H+P +CED  +PY ++PSK+D+G A   K+P   V + 
Sbjct: 32  LRKGEKGLVVIAGDIWPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIV 91
Query: 68  ----------KSTESVAELYEEVKQEIGAL 87
                        E   E + EV +E+ AL
Sbjct: 92  PGSNKKKDGKNKEEEYKESFNEVVKEVQAL 121

>pdb|2AIF|A Chain A, Crystal Structure Of High Mobility Like Protein, Nhp2, Putative From Cryptosporidium Parvum Length = 135

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 6/80 (7%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           L R    + + A D  P+EI+ HLP VCEDK+ PY +V SK  +G A G  +P I   + 
Sbjct: 53  LNRGIAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAIT 112
Query: 69  S------TESVAELYEEVKQ 82
           S      +  + EL ++++Q
Sbjct: 113 SKDGSSLSSQITELKDQIEQ 132

>pdb|1RLG|A Chain A, Molecular Basis Of Box CD RNA-Protein Interaction: Co- Crystal Structure Of The Archaeal Srnp Intiation Complex Length = 119

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/86 (37%), Positives = 50/86 (58%), Gaps = 8/86 (9%)
Query: 2   NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP 61
           N T +  ++R    L   A DV P EI+ HLP +CE+K++PY YV SK D+G A+G + P
Sbjct: 33  NETTKA-VERGLAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVP 91
Query: 62  CICVIVKSTESVAELYEEVKQEIGAL 87
           C    + +         E+++E+G+L
Sbjct: 92  CASAAIINE-------GELRKELGSL 110

>pdb|2FC3|A Chain A, Crystal Structure Of The Extremely Thermostable Aeropyrum Pernix L7ae Multifunctional Protein Length = 124

Iteration: 1
 Score = 59.3 bits (142), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 2  NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG 57
          N T +  ++R    L + A DV P EI+ HLP +C++K IPY YVPSKK +GEA G
Sbjct: 34 NETTKA-VERGLAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAG 88

>pdb|2HVY|D Chain D, Crystal Structure Of An HACA BOX RNP FROM PYROCOCCUS FURIOSUS Length = 130

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 27/52 (51%), Positives = 36/52 (69%), Gaps = 1/52 (1%)
Query: 2  NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53
          N T +  ++R    L I A DV P EI+ HLP +CE+K+IPY YVPSKK++G
Sbjct: 38 NETTKA-VERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 88

>pdb|3LWO|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING 5BRU Length = 123

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 27/52 (51%), Positives = 36/52 (69%), Gaps = 1/52 (1%)
Query: 2  NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53
          N T +  ++R    L I A DV P EI+ HLP +CE+K+IPY YVPSKK++G
Sbjct: 37 NETTKA-VERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 87

>pdb|3NMU|C Chain C, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP Length = 129

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 27/52 (51%), Positives = 36/52 (69%), Gaps = 1/52 (1%)
Query: 2  NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53
          N T +  ++R    L I A DV P EI+ HLP +CE+K+IPY YVPSKK++G
Sbjct: 43 NETTKA-VERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 93

>pdb|1SDS|A Chain A, Structure Of Protein L7ae Bound To A K-Turn Derived From An Archaeal Box HACA SRNA Length = 117

Iteration: 1
 Score = 58.9 bits (141), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 26/55 (47%), Positives = 36/55 (65%)
Query: 3  STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG 57
          + V   ++R    L I A DV P E++ HLP +CE+K IPY YV SK+D+G+A G
Sbjct: 32 NEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAG 86

>pdb|2CZW|A Chain A, Crystal Structure Analysis Of Protein Component Ph1496p Of P.Horikoshii Ribonuclease P Length = 124

Iteration: 1
 Score = 58.9 bits (141), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 27/52 (51%), Positives = 36/52 (69%), Gaps = 1/52 (1%)
Query: 2  NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53
          N T +  ++R    L I A DV P EI+ HLP +CE+K+IPY YVPSKK++G
Sbjct: 38 NETTKA-VERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 88

>pdb|1RA4|A Chain A, Crystal Structure Of The Methanococcus Jannaschii L7ae Protein Length = 120

Iteration: 1
 Score = 58.9 bits (141), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 26/55 (47%), Positives = 36/55 (65%)
Query: 3  STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG 57
          + V   ++R    L I A DV P E++ HLP +CE+K IPY YV SK+D+G+A G
Sbjct: 35 NEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAG 89

>pdb|3HJW|C Chain C, Structure Of A Functional Ribonucleoprotein Pseudouridine Synthase Bound To A Substrate Rna Length = 120

Iteration: 1
 Score = 58.5 bits (140), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 27/52 (51%), Positives = 36/52 (69%), Gaps = 1/52 (1%)
Query: 2  NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG 53
          N T +  ++R    L I A DV P EI+ HLP +CE+K+IPY YVPSKK++G
Sbjct: 35 NETTKA-VERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 85

>pdb|1PXW|A Chain A, Crystal Structure Of L7ae Srnp Core Protein From Pyrococcus Abyssii Length = 128

Iteration: 1
 Score = 58.5 bits (140), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 34/86 (39%), Positives = 49/86 (56%), Gaps = 1/86 (1%)
Query: 2   NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP 61
           N T +  ++R    L I A DV P EI+ HLP +CE+K+IPY YVPSKK++G A G +  
Sbjct: 42  NETTKA-VERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELGAAAGIEVA 100
Query: 62  CICVIVKSTESVAELYEEVKQEIGAL 87
              V +       +L EE+  ++  L
Sbjct: 101 AASVAIIEPGKARDLVEEIAMKVREL 126

>pdb|2JNB|A Chain A, Solution Structure Of Rna-Binding Protein 15.5k Length = 144

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 34/56 (60%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           L R      + A D  P+EI+ HLP +CEDK++PY +V SK+ +G A G  +P I 
Sbjct: 62  LNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIA 117

>pdb|3O85|A Chain A, Giardia Lamblia 15.5kd Rna Binding Protein Length = 122

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 41/79 (51%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           + R    L I A D  PIEI+ HLP  CEDK +PY ++ SK  +G A     P I   + 
Sbjct: 43  VNRGKAELVIIAADADPIEIVLHLPLACEDKGVPYVFIGSKNALGRACNVSVPTIVASIG 102
Query: 69  STESVAELYEEVKQEIGAL 87
             +++  +  E+  ++ AL
Sbjct: 103 KHDALGNVVAEIVGKVEAL 121

>pdb|2OZB|A Chain A, Structure Of A Human Prp31-15.5k-U4 Snrna Complex Length = 130

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 34/56 (60%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           L R      + A D  P+EI+ HLP +CEDK++PY +V SK+ +G A G  +P I 
Sbjct: 48  LNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIA 103

>pdb|1E7K|A Chain A, Crystal Structure Of The Spliceosomal 15.5kd Protein Bound To A U4 Snrna Fragment Length = 128

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 34/56 (60%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCIC 64
           L R      + A D  P+EI+ HLP +CEDK++PY +V SK+ +G A G  +P I 
Sbjct: 46  LNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIA 101

>pdb|3ID5|C Chain C, Crystal Structure Of Sulfolobus Solfataricus CD RNP ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half CD RNA Length = 130

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 28/56 (50%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 2  NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG 57
          N T +  ++R    L I A DV P EI+ HLP +C++K IPY YV SKK +GEA G
Sbjct: 40 NETTKA-VERGQAKLVIIAEDVQPEEIVAHLPLLCDEKKIPYVYVSSKKALGEACG 94

>pdb|3ZF7|XX Chain x, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 276

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/69 (34%), Positives = 38/69 (55%), Gaps = 1/69 (1%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP-CICVIV 67
           +++KT  L + A +V PIE++  +P +C    IPY  V  K  +G+A+GRK   C+    
Sbjct: 156 IEKKTARLVLIANNVDPIELVLWMPTLCRANKIPYAIVKDKARLGDAIGRKTATCVAFTD 215
Query: 68  KSTESVAEL 76
            + E  A L
Sbjct: 216 VNAEDQAAL 224

>pdb|2ZKR|FF Chain f, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 266

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 3   STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPC 62
           +TV   ++ K   L + A DV PIE++  LPA+C    +PYC +  K  +G  + RK   
Sbjct: 141 NTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGHLVHRK--- 197
Query: 63  ICVIVKSTESVAE 75
            C  V  T+  +E
Sbjct: 198 TCTTVAFTQVNSE 210

>pdb|1FFK|E Chain E, Crystal Structure Of The Large Ribosomal Subunit From Haloarcula Marismortui At 2.4 Angstrom Resolution Length = 119

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/56 (33%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 2  NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG 57
          N T +  ++R +  L   A DV P EI+ H+P + ++K +P+ +V  + D+G A G
Sbjct: 34 NETTKS-IERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAG 88

>pdb|4A17|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 5s Rrna, 5.8s Rrna And Proteins Of Molecule 2. Length = 255

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/90 (24%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           ++ K   L + A DV PIE++  LP +C   D+P+ +V  K  +G+ + +K      + +
Sbjct: 136 IENKQAKLVVIAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKTATAVALTE 195
Query: 69  -------STESVAELYEEVKQEIGALPVTW 91
                    +  +EL++        L  TW
Sbjct: 196 VRNEDKAKLQQFSELFKTNYNANDELRKTW 225

>pdb|1S72|F Chain F, Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 120

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/87 (27%), Positives = 43/87 (49%), Gaps = 8/87 (9%)
Query: 2   NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP 61
           N T +  ++R +  L   A DV P EI+ H+P + ++K +P+ +V  + D+G A G +  
Sbjct: 35  NETTK-SIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVG 93
Query: 62  CICVIVKST-------ESVAELYEEVK 81
                V          E +A+  EE++
Sbjct: 94  SAAAAVTDAGEADADVEDIADKVEELR 120

>pdb|3G4S|F Chain F, Co-Crystal Structure Of Tiamulin Bound To The Large Ribosomal Subunit Length = 119

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/56 (33%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 2  NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG 57
          N T +  ++R +  L   A DV P EI+ H+P + ++K +P+ +V  + D+G A G
Sbjct: 34 NETTK-SIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAG 88

>pdb|3IZS|H Chain H, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 256

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 26/92 (28%), Positives = 44/92 (47%), Gaps = 15/92 (16%)
Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           ++ K   L + A DV PIE++  LPA+C+   +PY  V  K  +G  + +K   +  + +
Sbjct: 143 IENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKTSAVAALTE 202
Query: 69  -------------ST--ESVAELYEEVKQEIG 85
                        ST   + A+ Y+EVK+  G
Sbjct: 203 VRAEDEAALAKLVSTIDANFADKYDEVKKHWG 234

>pdb|1S1I|G Chain G, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h Length = 119

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 31/58 (53%)
Query: 9  LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVI 66
          ++ K   L + A DV PIE++  LPA+C+   +PY  V  K  +G  + +K   +  +
Sbjct: 42 IENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKTSAVAAL 99

>pdb|3JYW|G Chain G, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 113

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 31/58 (53%)
Query: 9  LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVI 66
          ++ K   L + A DV PIE++  LPA+C+   +PY  V  K  +G  + +K   +  +
Sbjct: 37 IENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKTSAVAAL 94

>pdb|3IZR|H Chain H, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 258

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 16  LCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI-CVIVKSTESVA 74
           L + A DV PIE++  LPA+C   ++PYC V  K  +G  + +K   + C+     E   
Sbjct: 146 LVVIAHDVDPIELVVWLPALCRKMEVPYCIVKGKARLGSIVHKKTASVLCLTTVKNEDKL 205
Query: 75  EL 76
           E 
Sbjct: 206 EF 207

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	91
2ale_A	134	SNU13, NHP2/L7AE family protein YEL026W; splicing,	8e-23
2aif_A	135	Ribosomal protein L7A; high-mobility like protein,	1e-22
3o85_A	122	Ribosomal protein L7AE; alpha beta sandwich fold,	2e-21
2jnb_A	144	NHP2-like protein 1; splicing, KINK-turn RNA-bindi	2e-21
2fc3_A	124	50S ribosomal protein L7AE; alpha-beta-alpha sandw	8e-21
2lbw_A	121	H/ACA ribonucleoprotein complex subunit 2; L7AE, s	4e-20
1rlg_A	119	50S ribosomal protein L7AE; protein-RNA, structura	7e-20
1vq8_F	120	50S ribosomal protein L7AE; ribosome 50S, protein-	1e-19
3jyw_G	113	60S ribosomal protein L8(A); eukaryotic ribosome,	1e-19
3izc_H	256	60S ribosomal protein RPL8 (L7AE); eukaryotic ribo	2e-18
1xbi_A	120	50S ribosomal protein L7AE; alpha-beta-alpha sandw	2e-17
4a17_F	255	RPL7A, 60S ribosomal protein L9; eukaryotic riboso	3e-17
2zkr_f	266	60S ribosomal protein L7A; protein-RNA complex, 60	1e-16
3iz5_H	258	60S ribosomal protein L7A (L7AE); eukaryotic ribos	1e-16
3v7e_A	82	Ribosome-associated protein L7AE-like; RNA-protein	3e-16
2xzm_U	126	Ribosomal protein L7AE containing protein; ribosom	2e-13
3u5c_M	143	40S ribosomal protein S12, 40S ribosomal protein S	4e-07
3v7q_A	101	Probable ribosomal protein YLXQ; L7AE superfamily,	1e-06
3on1_A	101	BH2414 protein; structural genomics, PSI-2, protei	1e-05

>2ale_A SNU13, NHP2/L7AE family protein YEL026W; splicing, RNA, yeast, His-TAG, RNA binding protein; 1.80A {Saccharomyces cerevisiae} SCOP: d.79.3.1 PDB: 1zwz_A 2ozb_A 3siu_A 3siv_A 1e7k_A Length = 134

 Score = 84.2 bits (208), Expect = 8e-23
 Identities = 30/88 (34%), Positives = 45/88 (51%), Gaps = 2/88 (2%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
                L R      I A D  PIEI+ HLP +CEDK++PY +VPS+  +G A G  +P I
Sbjct: 39  EATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVI 98

Query: 64  CVIVKSTES--VAELYEEVKQEIGALPV 89
              + + ++  +      VK +I  L +
Sbjct: 99  AASITTNDASAIKTQIYAVKDKIETLLI 126

>2aif_A Ribosomal protein L7A; high-mobility like protein, transcription factor, structural genomics, structural genomics consortium, SGC; 1.90A {Cryptosporidium parvum} SCOP: d.79.3.1 Length = 135

 Score = 83.8 bits (207), Expect = 1e-22
 Identities = 31/88 (35%), Positives = 46/88 (52%), Gaps = 2/88 (2%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
                L R    + + A D  P+EI+ HLP VCEDK+ PY +V SK  +G A G  +P I
Sbjct: 48  EATKALNRGIAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVI 107

Query: 64  CVIVKSTE--SVAELYEEVKQEIGALPV 89
              + S +  S++    E+K +I  + V
Sbjct: 108 AAAITSKDGSSLSSQITELKDQIEQILV 135

>3o85_A Ribosomal protein L7AE; alpha beta sandwich fold, K-turn RNA binding protein, KINK T ribosomal protein; 1.81A {Giardia lamblia} Length = 122

 Score = 80.7 bits (199), Expect = 2e-21
 Identities = 27/84 (32%), Positives = 41/84 (48%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
                + R    L I A D  PIEI+ HLP  CEDK +PY ++ SK  +G A     P I
Sbjct: 38  EALKQVNRGKAELVIIAADADPIEIVLHLPLACEDKGVPYVFIGSKNALGRACNVSVPTI 97

Query: 64  CVIVKSTESVAELYEEVKQEIGAL 87
              +   +++  +  E+  ++ AL
Sbjct: 98  VASIGKHDALGNVVAEIVGKVEAL 121

>2jnb_A NHP2-like protein 1; splicing, KINK-turn RNA-binding protein, NHPX, RNA binding protein; NMR {Homo sapiens} SCOP: d.79.3.1 Length = 144

 Score = 80.8 bits (199), Expect = 2e-21
 Identities = 30/88 (34%), Positives = 46/88 (52%), Gaps = 2/88 (2%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
                L R      + A D  P+EI+ HLP +CEDK++PY +V SK+ +G A G  +P I
Sbjct: 57  EATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVI 116

Query: 64  C--VIVKSTESVAELYEEVKQEIGALPV 89
              V +K    + +  + ++Q I  L V
Sbjct: 117 ACSVTIKEGSQLKQQIQSIQQSIERLLV 144

>2fc3_A 50S ribosomal protein L7AE; alpha-beta-alpha sandwich, ribosome, RNA binding protein; 1.56A {Aeropyrum pernix} SCOP: d.79.3.1 PDB: 3pla_C* 3id5_C* 3hax_D* 2hvy_D* 3hay_D* 3nvi_B 3nmu_C 3nvk_E* 3lwr_C 3lwo_C* 3lwq_C* 3lwp_C 3lwv_C 3hjw_C* 2czw_A 1pxw_A Length = 124

 Score = 78.7 bits (194), Expect = 8e-21
 Identities = 30/83 (36%), Positives = 44/83 (53%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           ++R    L + A DV P EI+ HLP +C++K IPY YVPSKK +GEA G +     V + 
Sbjct: 40  VERGLAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAII 99

Query: 69  STESVAELYEEVKQEIGALPVTW 91
                  L  E+ +++  L    
Sbjct: 100 EPGDAETLVREIVEKVKELRAKA 122

>2lbw_A H/ACA ribonucleoprotein complex subunit 2; L7AE, snoRNP, scaRNP, RNA binding protein; NMR {Saccharomyces cerevisiae} PDB: 2lbx_A Length = 121

 Score = 76.9 bits (189), Expect = 4e-20
 Identities = 30/95 (31%), Positives = 49/95 (51%), Gaps = 11/95 (11%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
            V   L++    L + AGD+ P +++ H+P +CED  +PY ++PSK+D+G A   K+P  
Sbjct: 27  EVVKALRKGEKGLVVIAGDIWPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTS 86

Query: 64  CVIV-----------KSTESVAELYEEVKQEIGAL 87
            V +              E   E + EV +E+ AL
Sbjct: 87  VVFIVPGSNKKKDGKNKEEEYKESFNEVVKEVQAL 121

>1rlg_A 50S ribosomal protein L7AE; protein-RNA, structural protein/RNA complex; HET: 5BU; 2.70A {Archaeoglobus fulgidus} SCOP: d.79.3.1 Length = 119

 Score = 76.4 bits (188), Expect = 7e-20
 Identities = 28/85 (32%), Positives = 45/85 (52%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
                ++R    L   A DV P EI+ HLP +CE+K++PY YV SK D+G A+G + PC 
Sbjct: 34  ETTKAVERGLAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCA 93

Query: 64  CVIVKSTESVAELYEEVKQEIGALP 88
              + +   + +    + ++I  L 
Sbjct: 94  SAAIINEGELRKELGSLVEKIKGLQ 118

>1vq8_F 50S ribosomal protein L7AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: d.79.3.1 PDB: 1vq4_F* 1vq5_F* 1vq6_F* 1vq7_F* 1s72_F* 1vq9_F* 1vqk_F* 1vql_F* 1vqm_F* 1vqn_F* 1vqo_F* 1vqp_F* 1yhq_F* 1yi2_F* 1yij_F* 1yit_F* 1yj9_F* 1yjn_F* 1yjw_F* 2otj_F* ... Length = 120

 Score = 75.6 bits (186), Expect = 1e-19
 Identities = 20/79 (25%), Positives = 38/79 (48%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           ++R +  L   A DV P EI+ H+P + ++K +P+ +V  + D+G A G +       V 
Sbjct: 41  IERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVT 100

Query: 69  STESVAELYEEVKQEIGAL 87
                    E++  ++  L
Sbjct: 101 DAGEADADVEDIADKVEEL 119

>3jyw_G 60S ribosomal protein L8(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_G Length = 113

 Score = 75.4 bits (185), Expect = 1e-19
 Identities = 20/81 (24%), Positives = 36/81 (44%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
            V   ++ K   L + A DV PIE++  LPA+C+   +PY  V  K  +G  + +K   +
Sbjct: 32  HVVALIENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKTSAV 91

Query: 64  CVIVKSTESVAELYEEVKQEI 84
             + +          ++   I
Sbjct: 92  AALTEVRAEDEAALAKLVSTI 112

>1xbi_A 50S ribosomal protein L7AE; alpha-beta-alpha sandwich fold, RNA binding protein/structural protein complex; HET: EPE; 1.45A {Methanocaldococcus jannaschii} SCOP: d.79.3.1 PDB: 1ra4_A* 1sds_A 3paf_A Length = 120

 Score = 69.9 bits (171), Expect = 2e-17
 Identities = 29/79 (36%), Positives = 44/79 (55%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
            V   ++R    L I A DV P E++ HLP +CE+K IPY YV SK+D+G+A G +    
Sbjct: 36  EVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAAS 95

Query: 64  CVIVKSTESVAELYEEVKQ 82
            V + +     EL   +++
Sbjct: 96  SVAIINEGDAEELKVLIEK 114

>4a17_F RPL7A, 60S ribosomal protein L9; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_F 4a1c_F 4a1e_F Length = 255

 Score = 72.7 bits (177), Expect = 3e-17
 Identities = 17/84 (20%), Positives = 37/84 (44%)

Query: 3   STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPC 62
           + +   ++ K   L + A DV PIE++  LP +C   D+P+ +V  K  +G+ + +K   
Sbjct: 130 NHITTLIENKQAKLVVIAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKTAT 189

Query: 63  ICVIVKSTESVAELYEEVKQEIGA 86
              + +         ++  +    
Sbjct: 190 AVALTEVRNEDKAKLQQFSELFKT 213

>2zkr_f 60S ribosomal protein L7A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 266

 Score = 70.8 bits (172), Expect = 1e-16
 Identities = 22/83 (26%), Positives = 36/83 (43%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
           TV   ++ K   L + A DV PIE++  LPA+C    +PYC +  K  +G  + RK    
Sbjct: 142 TVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGHLVHRKTCTT 201

Query: 64  CVIVKSTESVAELYEEVKQEIGA 86
               +          ++ + I  
Sbjct: 202 VAFTQVNSEDKGALAKLVEAIRT 224

>3v7e_A Ribosome-associated protein L7AE-like; RNA-protein complex, K-turn, L7AE-like, A member L7AE/L30E superfamily; HET: SAM; 2.80A {Bacillus subtilis} Length = 82

 Score = 65.7 bits (161), Expect = 3e-16
 Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 9  LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICV 65
          L+R ++   + A D  P  +   + ++ ED+ I    V S K +G+A G +     V
Sbjct: 23 LKRGSVKEVVVAKDADP-ILTSSVVSLAEDQGISVSMVESMKKLGKACGIEVGAAAV 78

>2xzm_U Ribosomal protein L7AE containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_U Length = 126

 Score = 59.7 bits (144), Expect = 2e-13
 Identities = 18/87 (20%), Positives = 32/87 (36%), Gaps = 16/87 (18%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRK--------- 59
           ++ K  +    A D      +  + A+C   +I Y  VP +  +GE LG           
Sbjct: 36  IEAKQALFVCVAEDCDQGNYVKLVKALCAKNEIKYVSVPKRASLGEYLGHFTANAKGEIK 95

Query: 60  --KPCICVIVK-----STESVAELYEE 79
             K C  + ++      TE   ++ E 
Sbjct: 96  KVKGCSSLAIRKYAPEITEDEKKIIEG 122

>3u5c_M 40S ribosomal protein S12, 40S ribosomal protein S11-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_M Length = 143

 Score = 43.7 bits (102), Expect = 4e-07
 Identities = 19/92 (20%), Positives = 33/92 (35%), Gaps = 17/92 (18%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCED--KDIPYCYVPSKKDIGEALG--------- 57
           L R   +L +    VT   I+  +  +  D    +P   V   K +GE  G         
Sbjct: 52  LTRGEALLVVLVSSVTEANIIKLVEGLANDPENKVPLIKVADAKQLGEWAGLGKIDREGN 111

Query: 58  --RKKPCICVIVK----STESVAELYEEVKQE 83
             +      V+VK     T+ ++ + E   Q+
Sbjct: 112 ARKVVGASVVVVKNWGAETDELSMIMEHFSQQ 143

>3v7q_A Probable ribosomal protein YLXQ; L7AE superfamily, K-turn binding, K-turn RNA, hypothetical R protein, RNA binding protein; HET: CIT; 1.55A {Bacillus subtilis} Length = 101

 Score = 41.9 bits (99), Expect = 1e-06
 Identities = 12/59 (20%), Positives = 24/59 (40%), Gaps = 2/59 (3%)

Query: 9  LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIV 67
          ++     L +   D +       +   C    +PY  V S+  +G ++G K+  + V V
Sbjct: 31 IRNARAKLVLLTEDASS-NTAKKVTDKCNYYKVPYKKVESRAVLGRSIG-KEARVVVAV 87

>3on1_A BH2414 protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, unknown function; HET: MSE; 1.65A {Bacillus halodurans} Length = 101

 Score = 39.6 bits (93), Expect = 1e-05
 Identities = 18/74 (24%), Positives = 31/74 (41%), Gaps = 5/74 (6%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           +Q   + L I + D         L   C    IP   V +++ +G A+G K   + + VK
Sbjct: 30  VQNGQVTLVILSSDAGI-HTKKKLLDKCGSYQIPVKVVGNRQMLGRAIG-KHERVVIGVK 87

Query: 69  S---TESVAELYEE 79
               +  +A L +E
Sbjct: 88  DAGFSRKLAALIDE 101

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	91
3o85_A	122	Ribosomal protein L7AE; alpha beta sandwich fold,	99.93
3jyw_G	113	60S ribosomal protein L8(A); eukaryotic ribosome,	99.93
2lbw_A	121	H/ACA ribonucleoprotein complex subunit 2; L7AE, s	99.93
1vq8_F	120	50S ribosomal protein L7AE; ribosome 50S, protein-	99.92
2fc3_A	124	50S ribosomal protein L7AE; alpha-beta-alpha sandw	99.91
1rlg_A	119	50S ribosomal protein L7AE; protein-RNA, structura	99.91
2ale_A	134	SNU13, NHP2/L7AE family protein YEL026W; splicing,	99.91
4a17_F	255	RPL7A, 60S ribosomal protein L9; eukaryotic riboso	99.91
1xbi_A	120	50S ribosomal protein L7AE; alpha-beta-alpha sandw	99.91
2jnb_A	144	NHP2-like protein 1; splicing, KINK-turn RNA-bindi	99.9
3izc_H	256	60S ribosomal protein RPL8 (L7AE); eukaryotic ribo	99.9
2aif_A	135	Ribosomal protein L7A; high-mobility like protein,	99.9
2xzm_U	126	Ribosomal protein L7AE containing protein; ribosom	99.89
3iz5_H	258	60S ribosomal protein L7A (L7AE); eukaryotic ribos	99.89
2zkr_f	266	60S ribosomal protein L7A; protein-RNA complex, 60	99.89
3v7e_A	82	Ribosome-associated protein L7AE-like; RNA-protein	99.89
3u5c_M	143	40S ribosomal protein S12, 40S ribosomal protein S	99.86
3v7q_A	101	Probable ribosomal protein YLXQ; L7AE superfamily,	99.86
3on1_A	101	BH2414 protein; structural genomics, PSI-2, protei	99.85
3iz5_f	112	60S ribosomal protein L30 (L30E); eukaryotic ribos	99.85
3u5e_c	105	L32, RP73, YL38, 60S ribosomal protein L30; transl	99.85
4a18_G	104	RPL30; ribosome, eukaryotic initiation factor 6, E	99.85
3j21_Z	99	50S ribosomal protein L30E; archaea, archaeal, KIN	99.84
1w41_A	101	50S ribosomal protein L30E; electrostatic interact	99.84
3cpq_A	110	50S ribosomal protein L30E; RNA-protein, elongatio	99.83
2kg4_A	165	Growth arrest and DNA-damage-inducible protein GA	99.8
3vi6_A	125	60S ribosomal protein L30; three-layer alpha/beta/	99.75
3cg6_A	146	Growth arrest and DNA-damage-inducible 45 gamma; a	99.43
3ffm_A	167	Growth arrest and DNA-damage-inducible protein GAD	99.12
2ohw_A	133	YUEI protein; structural genomics, PSI-2, protein	94.31
3ir9_A	166	Peptide chain release factor subunit 1; structural	92.98
1b93_A	152	Protein (methylglyoxal synthase); glycolytic bypas	92.16
1x52_A	124	Pelota homolog, CGI-17; ERF1_3 domain, structural	91.9
3drn_A	161	Peroxiredoxin, bacterioferritin comigratory prote	91.29
1vmd_A	178	MGS, methylglyoxal synthase; TM1185, structural ge	90.41
2xw6_A	134	MGS, methylglyoxal synthase; lyase; 1.08A {Thermus	89.86
3gkn_A	163	Bacterioferritin comigratory protein; BCP, PRX, at	89.16
2yvq_A	143	Carbamoyl-phosphate synthase; conserved hypothetic	88.55
2qi2_A	347	Pelota, cell division protein pelota related prote	88.0
3nkl_A	141	UDP-D-quinovosamine 4-dehydrogenase; alpha-beta fo	87.12
2ggt_A	164	SCO1 protein homolog, mitochondrial; copper chaper	85.92
3nk6_A	277	23S rRNA methyltransferase; nosiheptide, nosihepti	85.08
3oby_A	352	Protein pelota homolog; SM fold, hydrolase; 2.90A	84.82
3j15_A	357	Protein pelota; ribosome recycling, ribosome, arch	83.91
3e20_C	441	Eukaryotic peptide chain release factor subunit 1;	83.73
3obw_A	364	Protein pelota homolog; SM fold, hydrolase; 2.60A	83.49
1o73_A	144	Tryparedoxin; electron transport, trypanosomatid,	82.69
3agj_B	358	Protein pelota homolog; GTP binding, translation-h	80.39
2vgn_A	386	DOM34; translation termination factor, protein bio	80.11
3s9f_A	165	Tryparedoxin; thioredoxin fold, disulfide reductas	80.01

>3o85_A Ribosomal protein L7AE; alpha beta sandwich fold, K-turn RNA binding protein, KINK T ribosomal protein; 1.81A {Giardia lamblia}

Probab=99.93  E-value=9.2e-26  Score=148.38  Aligned_cols=86  Identities=31%  Similarity=0.574  Sum_probs=80.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      .++|+++|++|++++||+|+|++|.+++++++.+|++++|||++++|+.+||+|||++++++++.+.+++++++.|+++.
T Consensus        36 ~~~v~kai~~gka~lViiA~D~~p~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~Gk~~~vs~vaI~d~~~~~~~~~~~~  115 (122)
T 3o85_A           36 ANEALKQVNRGKAELVIIAADADPIEIVLHLPLACEDKGVPYVFIGSKNALGRACNVSVPTIVASIGKHDALGNVVAEIV  115 (122)
T ss_dssp             HHHHHHHHHTTCCSEEEEETTCSSGGGGTTHHHHHHTTTCCEEEESCHHHHHHHTTCSSCCSEEEECCCTTTHHHHHHHH
T ss_pred             HHHHHHHHHcCCceEEEEeCCCChHHHHHHHHHHHHHhCCCEEEECCHHHHHHHhCCCCCEEEEEEEcccchHHHHHHHH
Confidence            58999999999999999999999977789999999999999999999999999999999888777777777999999999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      +.++++
T Consensus       116 ~~i~~~  121 (122)
T 3o85_A          116 GKVEAL  121 (122)
T ss_dssp             HHHHTT
T ss_pred             HHHHhh
Confidence            999875

>3jyw_G 60S ribosomal protein L8(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_G

Probab=99.93  E-value=4.3e-27  Score=153.36  Aligned_cols=83  Identities=24%  Similarity=0.473  Sum_probs=79.8

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      .|+|+++|++|+++|||||+|++|.+++.+|+.+|++++|||++++||.+||++||+++++++++++.+.+++++|++++
T Consensus        30 ~~~v~kaI~~gka~LVvIA~D~~p~~i~~~l~~lC~~~~VP~~~v~sk~~LG~a~G~k~~a~vai~d~~~ed~~~l~~l~  109 (113)
T 3jyw_G           30 LNHVVALIENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKTSAVAALTEVRAEDEAALAKLV  109 (113)
T ss_dssp             HHHHHHTTTTTCCSEEEECSCCSSHHHHTTHHHHHHHTTCCCEECSCSTTTHHHHCSSSCCSEEEECSCSSTTTTTHHHH
T ss_pred             HHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCCcEEEEEEeCCHHhHHHHHHHH
Confidence            58999999999999999999999988999999999999999999999999999999999999999999999999999999


Q ss_pred             HHh
Q psy6265          82 QEI   84 (91)
Q Consensus        82 ~~~   84 (91)
                      +.+
T Consensus       110 e~~  112 (113)
T 3jyw_G          110 STI  112 (113)
T ss_dssp             TTT
T ss_pred             Hhh
Confidence            876

>2lbw_A H/ACA ribonucleoprotein complex subunit 2; L7AE, snoRNP, scaRNP, RNA binding protein; NMR {Saccharomyces cerevisiae} PDB: 2lbx_A

Probab=99.93  E-value=2.4e-25  Score=145.96  Aligned_cols=86  Identities=35%  Similarity=0.673  Sum_probs=76.6

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC-----------
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST-----------   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~-----------   70 (91)
                      .++|+++|++|+++|||||+|++|.+++++++.+|++++|||++++|+.+||+|||++++++++++.++           
T Consensus        25 ~~~v~kai~~gkakLViiA~D~~~~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~g~k~~~s~v~I~d~g~a~~~~~~~~  104 (121)
T 2lbw_A           25 VKEVVKALRKGEKGLVVIAGDIWPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSNKKKDGKNKE  104 (121)
T ss_dssp             HHHHHHHHHHSCCCEEEECTTCSCTTHHHHHHHHHHHTCCCEEECCCHHHHHHHHTCSSCCSEEEECCSCTTGGGCSSTH
T ss_pred             HHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCCcEEEECCHHHHHHHhCCCCCEEEEEEEcCcchHHHHHHHH
Confidence            589999999999999999999999878999999999999999999999999999998876655555444           


Q ss_pred             chHHHHHHHHHHHhhcC
Q psy6265          71 ESVAELYEEVKQEIGAL   87 (91)
Q Consensus        71 ~~~~~~~~~~~~~~~~~   87 (91)
                      .+|.+.|+++.+++++|
T Consensus       105 ~~y~~~y~~~~~~~~~~  121 (121)
T 2lbw_A          105 EEYKESFNEVVKEVQAL  121 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhhC
Confidence            45889999999999875

>1vq8_F 50S ribosomal protein L7AE; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: d.79.3.1 PDB: 1vq4_F* 1vq5_F* 1vq6_F* 1vq7_F* 1s72_F* 1vq9_F* 1vqk_F* 1vql_F* 1vqm_F* 1vqn_F* 1vqo_F* 1vqp_F* 1yhq_F* 1yi2_F* 1yij_F* 1yit_F* 1yj9_F* 1yjn_F* 1yjw_F* 2otj_F* ...

Probab=99.92  E-value=1.4e-24  Score=141.91  Aligned_cols=86  Identities=23%  Similarity=0.470  Sum_probs=78.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      +++|+++|++|++++||+|+|++|.+++++++.+|++++|||++++|+.+||+|||++++++++.+.+.|..+..++.+.
T Consensus        34 ~~~v~kal~~gka~lViiA~D~~~~~~~~~l~~lc~~~~Vp~~~~~sk~eLG~a~G~~~~~~~vaI~d~g~a~~~~~~l~  113 (120)
T 1vq8_F           34 TNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVTDAGEADADVEDIA  113 (120)
T ss_dssp             HHHHHHHHHHTCCSEEEEESCCSSGGGTTTHHHHHHTTCCCEEEESCHHHHHHHTTCSSCCSEEEESSCSSCHHHHHHHH
T ss_pred             HHHHHHHHHcCCceEEEEeCCCChHHHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCCCCeEEEEEecCchHHHHHHHHH
Confidence            58999999999999999999999977889999999999999999999999999999996666666666677799999999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      +++++|
T Consensus       114 ~~~~~l  119 (120)
T 1vq8_F          114 DKVEEL  119 (120)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            999876

>2fc3_A 50S ribosomal protein L7AE; alpha-beta-alpha sandwich, ribosome, RNA binding protein; 1.56A {Aeropyrum pernix} SCOP: d.79.3.1 PDB: 3pla_C* 3id5_C* 3hax_D* 2hvy_D* 3hay_D* 3nvi_B 3nmu_C 3nvk_E* 3lwr_C 3lwo_C* 3lwq_C* 3lwp_C 3lwv_C 3hjw_C* 2czw_A 1pxw_A

Probab=99.91  E-value=1.2e-24  Score=142.98  Aligned_cols=87  Identities=34%  Similarity=0.607  Sum_probs=78.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      +++|+++|++|++++||+|+|++|.+++++++.+|++++|||++++|+.+||+|||+++.++++.+.+.+..+..++.+.
T Consensus        33 ~~~v~kal~~gka~lViiA~D~~~~~~~~~l~~lc~~~~Vp~~~v~sk~eLG~a~G~~~~~~~vaI~d~g~a~~~~~~l~  112 (124)
T 2fc3_A           33 TNETTKAVERGLAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAIIEPGDAETLVREIV  112 (124)
T ss_dssp             HHHHHHHHHTTCCSEEEEETTCSSGGGTTTHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEEECGGGHHHHHHHH
T ss_pred             HHHHHHHHHcCCceEEEEcCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCEEEEEEECcchHHHHHHHHH
Confidence            58999999999999999999999977889999999999999999999999999999996655556666677789999999


Q ss_pred             HHhhcCC
Q psy6265          82 QEIGALP   88 (91)
Q Consensus        82 ~~~~~~~   88 (91)
                      +++++++
T Consensus       113 ~~~~~l~  119 (124)
T 2fc3_A          113 EKVKELR  119 (124)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhH
Confidence            9998764

>1rlg_A 50S ribosomal protein L7AE; protein-RNA, structural protein/RNA complex; HET: 5BU; 2.70A {Archaeoglobus fulgidus} SCOP: d.79.3.1

Probab=99.91  E-value=1.9e-24  Score=141.02  Aligned_cols=87  Identities=32%  Similarity=0.609  Sum_probs=77.9

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      .++|+++|++|++++||+|+|++|.+++++++.+|++++|||++++|+.+||+|||++++++++.+.+.|..+..++.+.
T Consensus        32 ~~~v~kal~~gka~lViiA~D~~~~~~~~~l~~lc~~~~Vp~~~~~sk~eLG~a~G~~~~~~~vaI~d~g~a~~~~~~l~  111 (119)
T 1rlg_A           32 TNETTKAVERGLAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAIINEGELRKELGSLV  111 (119)
T ss_dssp             HHHHHHHHTTTCCSEEEEESCCSCSTTTTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECGGGHHHHHHHH
T ss_pred             HHHHHHHHHcCCCcEEEEeCCCChHHHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCCCeEEEEEecCchHHHHHHHHH
Confidence            58999999999999999999999977889999999999999999999999999999996555555556677789999999


Q ss_pred             HHhhcCC
Q psy6265          82 QEIGALP   88 (91)
Q Consensus        82 ~~~~~~~   88 (91)
                      +.+++|.
T Consensus       112 ~~~~~l~  118 (119)
T 1rlg_A          112 EKIKGLQ  118 (119)
T ss_dssp             HHHHTTT
T ss_pred             HHHHHhh
Confidence            9998873

>2ale_A SNU13, NHP2/L7AE family protein YEL026W; splicing, RNA, yeast, His-TAG, RNA binding protein; 1.80A {Saccharomyces cerevisiae} SCOP: d.79.3.1 PDB: 1zwz_A 2ozb_A 3siu_A 3siv_A 1e7k_A

Probab=99.91  E-value=1.8e-24  Score=144.38  Aligned_cols=87  Identities=34%  Similarity=0.619  Sum_probs=76.1

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCce-EEEEEecC-chHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPC-ICVIVKST-ESVAELYEE   79 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~-~v~~i~~~-~~~~~~~~~   79 (91)
                      +|+|+|+|++|+++|||||+|++|.+++++++.+|++++|||++++|+.+||+|||+++++ ++++++++ +++...++.
T Consensus        37 ~~~v~kai~~gkakLViiA~D~~p~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~G~~~~~s~vaI~d~~~s~~~~l~~~  116 (134)
T 2ale_A           37 ANEATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKTQIYA  116 (134)
T ss_dssp             HHHHHHHHHHTCEEEEEEETTCSSGGGGTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEECCTTCTTHHHHHH
T ss_pred             chHHHHHHHhCCCeEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCCCCeEEEEEEcCChHHHHHHHHH
Confidence            5899999999999999999999997789999999999999999999999999999999884 45555543 367888888


Q ss_pred             HHHHhhcCC
Q psy6265          80 VKQEIGALP   88 (91)
Q Consensus        80 ~~~~~~~~~   88 (91)
                      +.+.++.++
T Consensus       117 i~~~~~~~~  125 (134)
T 2ale_A          117 VKDKIETLL  125 (134)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhH
Confidence            888877654

>4a17_F RPL7A, 60S ribosomal protein L9; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_F 4a1c_F 4a1e_F

Probab=99.91  E-value=2.9e-24  Score=155.69  Aligned_cols=86  Identities=20%  Similarity=0.436  Sum_probs=82.6

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      .++|+++|++|+++|||||+|++|++++.+|+.+|++++|||++++|+++||+++|+++++++++++.++|+++.|++++
T Consensus       129 vneVtKaIekgKAqLVVIA~DvdPielv~~LPaLCee~~VPY~~V~sK~~LG~avGrKt~s~Vaitdv~~EDk~al~kLv  208 (255)
T 4a17_F          129 LNHITTLIENKQAKLVVIAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKTATAVALTEVRNEDKAKLQQFS  208 (255)
T ss_dssp             HHHHHHHHHTSCCSEEEEESCCSSTHHHHHHHHHHHHTTCCEEEESCHHHHHHHHTSSCCSEEEECCCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHcCCceEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCcceEEEeeccCHHHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      +.+++.
T Consensus       209 e~iktn  214 (255)
T 4a17_F          209 ELFKTN  214 (255)
T ss_dssp             HHHHHH
T ss_pred             HHHHhh
Confidence            998763

>1xbi_A 50S ribosomal protein L7AE; alpha-beta-alpha sandwich fold, RNA binding protein/structural protein complex; HET: EPE; 1.45A {Methanocaldococcus jannaschii} SCOP: d.79.3.1 PDB: 1ra4_A* 1sds_A 3paf_A

Probab=99.91  E-value=3e-24  Score=140.57  Aligned_cols=85  Identities=34%  Similarity=0.602  Sum_probs=73.3

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      .++|+++|++|++++||||+|++|.+++++++.+|++++|||++++|+.+||+|||++++++++.+.+.+..+. ++++.
T Consensus        34 ~~~v~kai~~gka~lViiA~D~~p~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~G~~~~~s~vaI~d~g~a~~-l~~l~  112 (120)
T 1xbi_A           34 ANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGDAEE-LKVLI  112 (120)
T ss_dssp             HHHHHHHHHHTCCSEEEEESCCSSGGGTTTHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECSCHHH-HHHHH
T ss_pred             HHHHHHHHHcCCceEEEEcCCCChHHHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCCCEEEEEEeccchHHH-HHHHH
Confidence            58999999999999999999999977899999999999999999999999999999995544444444454444 99999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      +.+++|
T Consensus       113 ~~i~~l  118 (120)
T 1xbi_A          113 EKVNVL  118 (120)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998875

>2jnb_A NHP2-like protein 1; splicing, KINK-turn RNA-binding protein, NHPX, RNA binding protein; NMR {Homo sapiens} SCOP: d.79.3.1

Probab=99.90  E-value=2.1e-24  Score=145.68  Aligned_cols=86  Identities=31%  Similarity=0.641  Sum_probs=77.3

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCce-EEEEEecC-chHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPC-ICVIVKST-ESVAELYEE   79 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~-~v~~i~~~-~~~~~~~~~   79 (91)
                      +|||+|+|++|+++|||||+|++|.+++++++.+|++++|||++++|+.+||+|||+++++ ++++++.+ .++.+.+++
T Consensus        55 ~kev~KaI~~gkakLVIIA~D~~p~e~~~~l~~lC~~~~VP~~~v~sk~eLG~a~Gk~~~vs~vaI~~~~~s~i~~~~~~  134 (144)
T 2jnb_A           55 ANEATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQIQS  134 (144)
T ss_dssp             HHHHHHHHHHTCEEEEEEETTCSCHHHHTTSCSSCGGGCCCCEEESCSHHHHHHHTCSSCCSEEEEECCTTCTTHHHHHH
T ss_pred             HHHHHHHHHhCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCEEEECCHHHHHHHhCCCCceEEEEEEeCCcHHHHHHHHH
Confidence            5899999999999999999999997789999999999999999999999999999999886 46666543 468999999


Q ss_pred             HHHHhhcC
Q psy6265          80 VKQEIGAL   87 (91)
Q Consensus        80 ~~~~~~~~   87 (91)
                      +.++|+.|
T Consensus       135 ~~~~i~~l  142 (144)
T 2jnb_A          135 IQQSIERL  142 (144)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998865

>2aif_A Ribosomal protein L7A; high-mobility like protein, transcription factor, structural genomics, structural genomics consortium, SGC; 1.90A {Cryptosporidium parvum} SCOP: d.79.3.1

Probab=99.90  E-value=1.6e-23  Score=139.71  Aligned_cols=86  Identities=34%  Similarity=0.616  Sum_probs=76.6

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCce-EEEEEecCc-hHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPC-ICVIVKSTE-SVAELYEE   79 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~-~v~~i~~~~-~~~~~~~~   79 (91)
                      +++|+++|++|++++||+|+|++|.+++++++.+|++++|||++++|+.+||+|||+++++ ++++++.++ ++.+.|++
T Consensus        46 ~~~v~kal~~gkaklViiA~D~~~~~~~~~l~~lc~~~~IP~~~v~sk~eLG~a~G~~~~v~~vaI~d~~~s~i~~~~~~  125 (135)
T 2aif_A           46 ANEATKALNRGIAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSKDGSSLSSQITE  125 (135)
T ss_dssp             HHHHHHHHHTTCEEEEEEETTCSCHHHHHHHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEECCTTCTTHHHHHH
T ss_pred             HHHHHHHHHcCCCeEEEEecCCChHHHHhHHHHHHHhcCCcEEEECCHHHHHHHhCCCCcEEEEEEEcCCcHHHHHHHHH
Confidence            5899999999999999999999997777999999999999999999999999999999887 466665543 57899999


Q ss_pred             HHHHhhcC
Q psy6265          80 VKQEIGAL   87 (91)
Q Consensus        80 ~~~~~~~~   87 (91)
                      +.++|+.|
T Consensus       126 ~~~~~~~~  133 (135)
T 2aif_A          126 LKDQIEQI  133 (135)
T ss_dssp             HHHTTCC-
T ss_pred             HHHHHHHH
Confidence            99999876

>2xzm_U Ribosomal protein L7AE containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_U

Probab=99.89  E-value=1.8e-23  Score=138.29  Aligned_cols=84  Identities=21%  Similarity=0.309  Sum_probs=73.1

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC----------C-C-ceEEEEEec
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR----------K-K-PCICVIVKS   69 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~----------~-~-~~~v~~i~~   69 (91)
                      .+||+|+|++|+++|||||+|++|.+++++|+.+|++++|||++++|+.+||+|||+          + + ++++++++.
T Consensus        29 ~~~v~Kai~~gka~LViiA~D~~p~~~~~~i~~lc~~~~Ip~~~v~sk~~LG~a~G~~k~d~~g~~rk~v~~s~vaI~d~  108 (126)
T 2xzm_U           29 LHEVLRTIEAKQALFVCVAEDCDQGNYVKLVKALCAKNEIKYVSVPKRASLGEYLGHFTANAKGEIKKVKGCSSLAIRKY  108 (126)
T ss_dssp             HHHHHHHHHHTCCSEEEEESSCCSTTHHHHHHHHHHHTTCCEEEESCSHHHHHHHTCCCBCTTCCBSCCCCCCEEEESSC
T ss_pred             HHHHHHHHHcCCceEEEEeCCCChHHHHHHHHHHHHHhCCCEEEECCHHHHHHHHCCCccccccCcCceeeEEEEEEEec
Confidence            589999999999999999999998788999999999999999999999999999997          3 3 455666666


Q ss_pred             Cch-HHHHHHHHHHHhh
Q psy6265          70 TES-VAELYEEVKQEIG   85 (91)
Q Consensus        70 ~~~-~~~~~~~~~~~~~   85 (91)
                      +++ .+.+++.+++.++
T Consensus       109 g~~~~~~~~~~l~~~~~  125 (126)
T 2xzm_U          109 APEITEDEKKIIEGALK  125 (126)
T ss_dssp             CTTCCHHHHHHHTTSCB
T ss_pred             CcccCHHHHHHHHHHhc
Confidence            666 4449999998876

>2zkr_f 60S ribosomal protein L7A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=99.89  E-value=1.5e-23  Score=152.99  Aligned_cols=86  Identities=26%  Similarity=0.460  Sum_probs=80.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      +++|+++|++|+++|||||+|++|++++.+++.+|++++|||++++|+.+||+|||+++++++++++.+.++++.+++++
T Consensus       140 ~keV~KaIekgkAkLVIIA~DasP~ei~~~Lp~LC~~~~VPyi~v~sk~eLG~A~Gkk~~s~VAItD~G~eD~~al~klv  219 (266)
T 2zkr_f          140 VNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGHLVHRKTCTTVAFTQVNSEDKGALAKLV  219 (266)
T ss_dssp             HHHHHHHHHTTCCSEEEEESCCSSSTTTTHHHHHHHHHTCCEEEESCHHHHHHHHTSSCCSEEEETTCSSTTTTHHHHHH
T ss_pred             hHHHHHHHHhCCceEEEEecCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCCCceEEEEeecCcchHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999899999999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      +.+++.
T Consensus       220 e~ik~~  225 (266)
T 2zkr_f          220 EAIRTN  225 (266)
T ss_dssp             HHHC--
T ss_pred             HHHHHh
Confidence            988753

>3v7e_A Ribosome-associated protein L7AE-like; RNA-protein complex, K-turn, L7AE-like, A member L7AE/L30E superfamily; HET: SAM; 2.80A {Bacillus subtilis}

Probab=99.89  E-value=4.2e-23  Score=127.27  Aligned_cols=65  Identities=23%  Similarity=0.347  Sum_probs=61.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEE
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIV   67 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i   67 (91)
                      .+||+++|++|+++|||||+|++| +++++++.+|++++|||++++|+.+||+|||++++++++.+
T Consensus        16 ~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~lc~~~~Ip~~~v~sk~eLG~a~Gk~~~~~~~ai   80 (82)
T 3v7e_A           16 TKQTVKALKRGSVKEVVVAKDADP-ILTSSVVSLAEDQGISVSMVESMKKLGKACGIEVGAAAVAI   80 (82)
T ss_dssp             HHHHHHHHTTTCEEEEEEETTSCH-HHHHHHHHHHHHHTCCEEEESCHHHHHHHHTCSSCCSEEEE
T ss_pred             HHHHHHHHHcCCeeEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCEEEEEE
Confidence            589999999999999999999999 79999999999999999999999999999999988776554

>3u5c_M 40S ribosomal protein S12, 40S ribosomal protein S11-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_M

Probab=99.86  E-value=3.4e-22  Score=134.74  Aligned_cols=85  Identities=18%  Similarity=0.277  Sum_probs=76.0

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHh--cCCCCEEEeCCHhHHhhHhCCC--------C---ceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCE--DKDIPYCYVPSKKDIGEALGRK--------K---PCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~--~~~IP~~~~~sk~eLG~a~G~~--------~---~~~v~~i~   68 (91)
                      .||++|+|++|+++|||||+|++|.+++++++.+|+  +++|||++++|+.+||+|||..        +   .++++++.
T Consensus        45 ~~et~Kal~kg~a~LvvLA~D~~~~~i~k~i~~lC~~~e~~IP~i~V~s~keLG~a~Gl~k~d~~Gk~rkVv~~s~v~I~  124 (143)
T 3u5c_M           45 LRESTKALTRGEALLVVLVSSVTEANIIKLVEGLANDPENKVPLIKVADAKQLGEWAGLGKIDREGNARKVVGASVVVVK  124 (143)
T ss_dssp             HHHHHHHHSSTTCSCEECCSCCSTTHHHHHHHHHHHCSSSCCCCCCCSCHHHHHHHSSCCCCSSSSCCSCCCCCSCEEES
T ss_pred             HHHHHHHHhcCceeEEEEeCCCCHHHHHHHHHHHHhhhhhCCCEEEECCHHHHhHHhCcCccccCCCccccceeEEEEEc
Confidence            589999999999999999999997789999999999  9999999999999999999963        2   35577777


Q ss_pred             cCchHHHHHHHHHHHhhc
Q psy6265          69 STESVAELYEEVKQEIGA   86 (91)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~   86 (91)
                      +.|+.++.++.|.++++.
T Consensus       125 d~G~~~~~~~~l~~~~~~  142 (143)
T 3u5c_M          125 NWGAETDELSMIMEHFSQ  142 (143)
T ss_dssp             CCCCCSHHHHHHHHHHHC
T ss_pred             ccchhhHHHHHHHHHHhc
Confidence            777778999999998875

>3v7q_A Probable ribosomal protein YLXQ; L7AE superfamily, K-turn binding, K-turn RNA, hypothetical R protein, RNA binding protein; HET: CIT; 1.55A {Bacillus subtilis}

Probab=99.86  E-value=8.8e-22  Score=125.29  Aligned_cols=66  Identities=15%  Similarity=0.356  Sum_probs=61.0

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      +++|+++|++|++++||+|+|++| ..+++++.+|+.++|||++++|++|||+|||++.++++++++
T Consensus        24 ~~~v~kai~~gka~lViiA~D~~~-~~~~~i~~~c~~~~vp~~~~~s~~eLG~A~Gk~~~~~~ai~D   89 (101)
T 3v7q_A           24 EDLVIKEIRNARAKLVLLTEDASS-NTAKKVTDKCNYYKVPYKKVESRAVLGRSIGKEARVVVAVTD   89 (101)
T ss_dssp             HHHHHHHHHTTCCSEEEEETTSCH-HHHHHHHHHHHHTTCCEEEESCHHHHHHHTTSSCCSEEEECC
T ss_pred             hhhhHHHHhcCceeEEEEeccccc-cchhhhcccccccCCCeeeechHHHHHhhhCccceEEEEEec
Confidence            579999999999999999999999 578999999999999999999999999999999887766664

>3on1_A BH2414 protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, unknown function; HET: MSE; 1.65A {Bacillus halodurans}

Probab=99.85  E-value=9.5e-22  Score=124.95  Aligned_cols=66  Identities=20%  Similarity=0.321  Sum_probs=60.6

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      +++|+++|++|++++||+|+|++| +.+++++.+|++++|||++++|+.|||+|||++.++++++++
T Consensus        23 ~~~v~kai~~gka~lViiA~D~~~-~~~~~i~~~c~~~~ip~~~~~s~~eLG~a~Gk~~~~~vai~d   88 (101)
T 3on1_A           23 EEQVVKAVQNGQVTLVILSSDAGI-HTKKKLLDKCGSYQIPVKVVGNRQMLGRAIGKHERVVIGVKD   88 (101)
T ss_dssp             HHHHHHHHHTTCCSEEEEETTSCH-HHHHHHHHHHHHHTCCEEEESCHHHHHHHTTSSCCSEEEECC
T ss_pred             HHHHHHHHHcCCCcEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCcCeEEEEEEC
Confidence            589999999999999999999999 578999999999999999999999999999999777666644

>3u5e_c L32, RP73, YL38, 60S ribosomal protein L30; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3izc_f 3izs_f 3o58_Z 3o5h_Z 1t0k_B 3u5i_c 4b6a_c 1ck2_A 1cn7_A 1nmu_B* 3jyw_2

Probab=99.85  E-value=1.3e-21  Score=125.35  Aligned_cols=68  Identities=13%  Similarity=0.116  Sum_probs=61.6

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE-EeCCHhHHhhHhCCCCceE-EEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCI-CVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~-v~~i~~~   70 (91)
                      .+||+++|++|++++||+|+|++| +.+++++.+|++++|||+ +++|+.|||+|||++++++ ++++|.+
T Consensus        27 ~~~v~kai~~gkaklVilA~D~~~-~~~~~i~~~c~~~~ip~~~~~~s~~eLG~A~Gk~~~~~~vaI~D~G   96 (105)
T 3u5e_c           27 YKSTVKSLRQGKSKLIIIAANTPV-LRKSELEYYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSILEAG   96 (105)
T ss_dssp             HHHHHHHHHTTCCSEEEECTTSCH-HHHHHHHHHHHHHTCEEEECSSCHHHHHHHTTCSSCCSEEEEEECC
T ss_pred             HHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEeCCCHHHHHHHhCCcccEEEEEEeccc
Confidence            589999999999999999999988 688999999999999999 7999999999999998875 5555554

>4a18_G RPL30; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_G 4a1b_G 4a1d_G 4adx_6

Probab=99.85  E-value=1.6e-21  Score=124.67  Aligned_cols=68  Identities=15%  Similarity=0.236  Sum_probs=61.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE-EeCCHhHHhhHhCCCCceE-EEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCI-CVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~-v~~i~~~   70 (91)
                      .++|+++|++|++++||+|+|++| ..+++++.+|++++|||+ |++|+.|||+|||++++++ ++++|.+
T Consensus        27 ~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~ip~~~~~~s~~eLG~a~Gk~~~~~~vaI~D~G   96 (104)
T 4a18_G           27 YKSTIKAIRNGTAKLVFISNNCPT-VRKSEIEYYASLAQISIHHFVGSNVELGTACGKYHRCSTMAILDAG   96 (104)
T ss_dssp             HHHHHHHHHHTCCCEEEECTTSCH-HHHHHHHHHHHHHTCEEEECSSCHHHHHHHTTCSSCCSEEEEEECS
T ss_pred             HHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHHcCCcEEEecCCHHHHHHHhCCccCEEEEEEeccc
Confidence            589999999999999999999999 578999999999999999 7999999999999998865 5555544

>3j21_Z 50S ribosomal protein L30E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.84  E-value=5.6e-21  Score=121.01  Aligned_cols=70  Identities=16%  Similarity=0.137  Sum_probs=60.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPCICVIVKSTES   72 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~v~~i~~~~~   72 (91)
                      +++|+++|++|++++||+|+|+++ +++++++.+|++++||++. ++|++|||+|||++++++++.+.+.|.
T Consensus        20 ~~~v~kai~~gka~lViiA~D~~~-~~~~~i~~~c~~~~ip~~~~~~s~~eLG~a~Gk~~~~~~vaI~d~g~   90 (99)
T 3j21_Z           20 SNETIRLAKTGGAKLIIVAKNAPK-EIKDDIYYYAKLSDIPVYEFEGTSVELGTLLGKPFVVASLAIVDPGE   90 (99)
T ss_dssp             HHHHHHHHHHTCCSEEEEECCCCH-HHHHHHHHHHHHTTCCEEEECCCSCGGGGTTCSTTCSEEEEESSCSS
T ss_pred             HHHHHHHHHcCCccEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEeCCCHHHHHHHHCCCCCEEEEEEEccch
Confidence            589999999999999999999876 7899999999999999755 599999999999998765555555444

>1w41_A 50S ribosomal protein L30E; electrostatic interactions, thermostability, protein engineering; 1.7A {Thermococcus celer} SCOP: d.79.3.1 PDB: 3n4y_A 3lfo_A 1w40_A 1go0_A 1go1_A 1h7m_A 1w42_A 1w3e_X 3ra6_A 3ra5_A 3n4z_A 2bo1_A

Probab=99.84  E-value=1.1e-20  Score=119.84  Aligned_cols=68  Identities=18%  Similarity=0.196  Sum_probs=60.4

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe-CCHhHHhhHhCCCCce-EEEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV-PSKKDIGEALGRKKPC-ICVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~G~~~~~-~v~~i~~~   70 (91)
                      +++|+++|++|++++||+|+|+++ +++++++.+|++++|||+.+ +|+.+||+|||+++++ ++++++.+
T Consensus        21 ~~~v~kai~~gka~lViiA~D~~~-~~~~~l~~~c~~~~vp~~~~~~s~~eLG~a~G~~~~~~~vai~d~g   90 (101)
T 1w41_A           21 ARKSIQYAKMGGAKLIIVARNARP-DIKEDIEYYARLSGIPVYEFEGTSVELGTLLGRPHTVSALAVVDPG   90 (101)
T ss_dssp             HHHHHHHHHHTCCSEEEEETTSCH-HHHHHHHHHHHHHTCCEEEESSCHHHHHHHTTCSSCCCEEEEEECT
T ss_pred             HHHHHHHHHcCCCcEEEEeCCCCH-HHHHHHHHHHHhcCCCEEEecCCHHHHHHHhCCCCcEEEEEEecCC
Confidence            589999999999999999999766 88999999999999998875 9999999999999776 56666554

>3cpq_A 50S ribosomal protein L30E; RNA-protein, elongation factor, ribonucleoprotein, structural genomics, NPPSFA; 1.90A {Methanocaldococcus jannaschii}

Probab=99.83  E-value=1.6e-20  Score=120.99  Aligned_cols=69  Identities=13%  Similarity=0.227  Sum_probs=61.0

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe-CCHhHHhhHhCCCCce-EEEEEecCc
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV-PSKKDIGEALGRKKPC-ICVIVKSTE   71 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~G~~~~~-~v~~i~~~~   71 (91)
                      +++|+++|++|++++||+|+|+ |.+++++|+.+|++++|||+.+ +|+.+||+|||+++++ ++++++.+.
T Consensus        26 ~~~v~kai~~gka~lViiA~D~-~~~~~~~l~~~c~~~~Vp~~~~~~sk~eLG~a~G~~~~~s~vaI~d~g~   96 (110)
T 3cpq_A           26 SKRTIKFVKHGEGKLVVLAGNI-PKDLEEDVKYYAKLSNIPVYQHKITSLELGAVCGKPFPVAALLVLDEGL   96 (110)
T ss_dssp             HHHHHHHHHTTCCSEEEECTTC-BHHHHHHHHHHHHHTTCCEEECCSCHHHHHHHTTCSSCCSEEEEEECTT
T ss_pred             HHHHHHHHHcCCceEEEEeCCC-CHHHHHHHHHHHHHcCCCEEEEcCCHHHHHHHhCCccceEEEEEecCCH
Confidence            5899999999999999999999 5589999999999999998877 9999999999999886 566665543

>2kg4_A Growth arrest and DNA-damage-inducible protein GA alpha; GADD45, flexible regions, monomer cycle; NMR {Homo sapiens}

Probab=99.80  E-value=6.8e-20  Score=125.93  Aligned_cols=86  Identities=19%  Similarity=0.250  Sum_probs=71.6

Q ss_pred             hhHHHHHH--HhCCceEEEEeCCCC-chhH-----HhhHHHHHhcCCCCEEEeCCHhHHhhHhCC--------------C
Q psy6265           2 NSTVQGPL--QRKTIMLCIFAGDVT-PIEI-----MCHLPAVCEDKDIPYCYVPSKKDIGEALGR--------------K   59 (91)
Q Consensus         2 ~kev~kai--~~gka~lViiA~D~s-p~~~-----~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~--------------~   59 (91)
                      +||++|+|  ++|++++||||+|++ |..+     ..++..+|++++|||+++.|+++||+|||.              .
T Consensus        40 ~kEt~KaL~~~k~~a~lcvLA~D~d~~~~i~~hi~~~li~alC~E~~Ip~i~V~s~k~LG~a~Gi~~~~~~~~~d~~g~~  119 (165)
T 2kg4_A           40 VYEAAKLLNVDPDNVVLCLLAADEDDDRDVALQIHFTLIQAFCCENDINILRVSNPGRLAELLLLETDAGPAASEGAEQP  119 (165)
T ss_dssp             GGGHHHHHHHCTTTEEEEEEECCTGGGGCHHHHHHHHHHHHHHHHTTCCEEEESCHHHHHHHHHHTTTCSSCCCCSSCCC
T ss_pred             HHHHHHHHhcCCCcEEEEEEeCCCCccchhhhhccHHHHHHHHHHcCCCEEEECCHHHHHHHHCCcccccccccccCCCc
Confidence            68999999  999999999999997 5443     445569999999999999999999999996              2


Q ss_pred             CceEEEEEecCchHH---HHHHHHHHHhhcC
Q psy6265          60 KPCICVIVKSTESVA---ELYEEVKQEIGAL   87 (91)
Q Consensus        60 ~~~~v~~i~~~~~~~---~~~~~~~~~~~~~   87 (91)
                      +.++|+++.+.++.+   ++++.|.++++.+
T Consensus       120 r~~scv~V~~~g~~s~~~~a~~~l~~~~~e~  150 (165)
T 2kg4_A          120 PDLHCVLVTNPHSSQWKDPALSQLICFCRES  150 (165)
T ss_dssp             SCSCEEEEECCSSCCCCCHHHHHHHHHHHHH
T ss_pred             ccceEEEEeccccccccchHHHHHHHHHHHh
Confidence            556777777777665   7888888887654

>3vi6_A 60S ribosomal protein L30; three-layer alpha/beta/ALPA; 1.59A {Homo sapiens} PDB: 2zkr_6 1ysh_C

Probab=99.75  E-value=3.2e-18  Score=112.84  Aligned_cols=68  Identities=12%  Similarity=0.104  Sum_probs=59.3

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE-EeCCHhHHhhHhCCCCceE-EEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCI-CVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~-v~~i~~~   70 (91)
                      .++|+++|++|+++|||+|+|++| +++++++.+|...++|+. +++|++|||+|||++++++ ++++|.+
T Consensus        32 ~~~v~kaIr~gkakLVIiA~Das~-~~~~ki~~~~~~~~~~V~~~~~sk~eLG~A~Gk~~~v~~vaI~D~G  101 (125)
T 3vi6_A           32 YKQTLKMIRQGKAKLVILANNCPA-LRKSEIEYYAMLAKTGVHHYSGNNIELGTACGKYYRVCTLAIIDPG  101 (125)
T ss_dssp             HHHHHHHHHTTCCSEEEECTTSCH-HHHHHHHHHHHHTTCEEEECSSCHHHHHHHTTCSSCCCEEEEEECT
T ss_pred             HHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHHhCCCcEEEcCCHHHHHHHhCCcccEEEEEEeCch
Confidence            589999999999999999999999 689999999888887754 6999999999999998875 5555544

>3cg6_A Growth arrest and DNA-damage-inducible 45 gamma; alpha/beta, cell cycle; 1.70A {Mus musculus} PDB: 2wal_A

Probab=99.43  E-value=5.5e-13  Score=89.85  Aligned_cols=84  Identities=14%  Similarity=0.239  Sum_probs=67.0

Q ss_pred             hhHHHHHHHhC--CceEEEEeCCCCc------hhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC------CCceEEEEE
Q psy6265           2 NSTVQGPLQRK--TIMLCIFAGDVTP------IEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR------KKPCICVIV   67 (91)
Q Consensus         2 ~kev~kai~~g--ka~lViiA~D~sp------~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~------~~~~~v~~i   67 (91)
                      ++|+.|+|.++  ++.|+++|+|++.      ..+++.+.++|.+++||++.|.+.+.||+++|+      .+..+|+++
T Consensus        30 l~EaaKaLdk~p~~a~lCvLA~dcd~e~D~a~~~y~kLveAlC~E~~I~lIkVdd~kkLgew~Gk~d~~g~pr~~sCvvV  109 (146)
T 3cg6_A           30 VYESAKVLNVDPDNVTFCVLAADEEDEGDIALQIHFTLIQAFCCENDIDIVRVGDVQRLAAIVGSDEEGGAPGDLHCILI  109 (146)
T ss_dssp             HHHHHHHHHHCGGGEEEEEEECCTGGGGCHHHHHHHHHHHHHHHHTTCEEEEECCHHHHHHHC----------CCSEEEE
T ss_pred             HHHHHHHHhcCCCeEEEEEecCCCccccchhHHHHHHHHHHHHhhcCCCeEEeCchhHHHHHhCCcCCCCCCCCCEEEEE
Confidence            57899999997  9999999999972      256777899999999999999999999999995      334667777


Q ss_pred             ecCchH---HHHHHHHHHHhh
Q psy6265          68 KSTESV---AELYEEVKQEIG   85 (91)
Q Consensus        68 ~~~~~~---~~~~~~~~~~~~   85 (91)
                      .+.++.   +.+++.+.++++
T Consensus       110 ~d~g~e~~~s~al~~l~~y~~  130 (146)
T 3cg6_A          110 SNPNEDTWKDPALEKLSLFCE  130 (146)
T ss_dssp             ECCC---CCCHHHHHHHHHHH
T ss_pred             ecCCcccccCHHHHHHHHHHH
Confidence            777776   777888888764

>3ffm_A Growth arrest and DNA-damage-inducible protein GADD45 gamma; beta-turn-helix, cell cycle; 2.30A {Homo sapiens}

Probab=99.12  E-value=2.2e-10  Score=78.47  Aligned_cols=72  Identities=14%  Similarity=0.280  Sum_probs=58.2

Q ss_pred             hhHHHHHHHhC--CceEEEEeCCCC-chh-----HHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCC------CceEEEEE
Q psy6265           2 NSTVQGPLQRK--TIMLCIFAGDVT-PIE-----IMCHLPAVCEDKDIPYCYVPSKKDIGEALGRK------KPCICVIV   67 (91)
Q Consensus         2 ~kev~kai~~g--ka~lViiA~D~s-p~~-----~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~------~~~~v~~i   67 (91)
                      ++|+.|+|.+.  ++.|+++|+|++ +.+     +++.+.++|.+++||++.|.+.+.||+++|+.      +..+|+++
T Consensus        51 l~EaaKaLd~~p~~a~LCvLA~dc~~e~D~alqmy~kLVeAlC~E~~I~LIkV~d~kkLgew~G~~~~~~k~~~csCVlV  130 (167)
T 3ffm_A           51 VYESAKVLNVDPDNVTFCVLAAGEEDEGDIALQIHFTLIQAFCCENDIDIVRVGDVQRLAAIVGAGEEAGAPGDLHCILI  130 (167)
T ss_dssp             HHHHHHHHHHCGGGEEEEEEECCGGGTTCHHHHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHTTSCCSSSCSCCSEEEE
T ss_pred             HHHHHHHhccCCCeEEEEEEeCCCCcccchhHHHHHHHHHHHHhhcCCCeEEeCCcchHHHHhCcCCCCCCCCccEEEEE
Confidence            47899999884  899999999985 222     46778899999999999999999999999952      23667777


Q ss_pred             ecCchH
Q psy6265          68 KSTESV   73 (91)
Q Consensus        68 ~~~~~~   73 (91)
                      .+.++.
T Consensus       131 td~ge~  136 (167)
T 3ffm_A          131 SNPNED  136 (167)
T ss_dssp             ECSSSS
T ss_pred             CCCCcc
Confidence            676653

>2ohw_A YUEI protein; structural genomics, PSI-2, protein structure initiative, NEW YORK SGX research center for structural genomics, nysgxrc; 1.40A {Bacillus subtilis} SCOP: d.79.8.1

Probab=94.31  E-value=0.39  Score=31.31  Aligned_cols=46  Identities=9%  Similarity=0.183  Sum_probs=42.0

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS   48 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s   48 (91)
                      +.++.+.+++...-.++|.++.+. +....+..+|+++|||+..+.+
T Consensus        52 ~~~~~~~l~~~~~~~l~ing~l~~-~~~~~YiklA~~~~i~fTiV~~   97 (133)
T 2ohw_A           52 YKEAEHELKNSHNVTLLINGELQY-QSYSSYIQMASRYGVPFKIVSD   97 (133)
T ss_dssp             CHHHHHHHHTCSSEEEEEETTSCH-HHHHHHHHHHHHTTCCEEEECC
T ss_pred             HHHHHHHHhhCCCcEEEEcCCCCH-HHHHHHHHHHHHcCCCeEEecC
Confidence            457888999999999999999988 6788999999999999999988

>3ir9_A Peptide chain release factor subunit 1; structural genomics, APC36528.1, C-terminal domain, PSI-2, protein structure initiative; 2.21A {Methanosarcina mazei}

Probab=92.98  E-value=0.22  Score=33.42  Aligned_cols=67  Identities=16%  Similarity=0.293  Sum_probs=51.7

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCch--------------------------------------------hHHhhHHHHHh
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPI--------------------------------------------EIMCHLPAVCE   37 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~--------------------------------------------~~~~~l~~lc~   37 (91)
                      .++|.++++.|.+..++|..|..-.                                            +++..|...++
T Consensus        51 ~~ev~~Ale~GAVetLlv~e~l~~~r~~~~c~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~e~~~~ve~L~e~~~  130 (166)
T 3ir9_A           51 ESQVRANLEINSVDVLLLSEDLRAERVTTKCSVCGYENKWTRRWKPGEPAPAAGNCPKCGSSLEVTDVTDIVDEFSELAD  130 (166)
T ss_dssp             HHHHHHHHTTTCEEEEEEETTCCCEEEEEEESSSSCEEEEEECCCC--CCCCCCBCTTTCCBEEEEEEEEHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCceEEEEecCccceEEEEECCCCCceeEEEeecChhhcccccccccccCccchhhhHHHHHHHHHHHHH
Confidence            4789999999999999999986421                                            34667888999


Q ss_pred             cCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265          38 DKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus        38 ~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      +++--+.++.++.+-|.-+=+......|++.
T Consensus       131 ~~G~~v~ivs~~~eeG~ql~~~fGGIaaiLR  161 (166)
T 3ir9_A          131 KSNAKVVFVSTDFDEGSQLMNAFGGIAAILR  161 (166)
T ss_dssp             HTTCEEEEECSCSHHHHHHHHTSTTEEEEES
T ss_pred             hcCCEEEEECCCChhHHHHHHcCCCEEEEEe
Confidence            9999999999999888766334445455543

>1b93_A Protein (methylglyoxal synthase); glycolytic bypass, lyase; 1.90A {Escherichia coli} SCOP: c.24.1.2 PDB: 1egh_A 1ik4_A* 1s8a_A 1s89_A

Probab=92.16  E-value=0.34  Score=32.28  Aligned_cols=53  Identities=19%  Similarity=0.080  Sum_probs=38.6

Q ss_pred             HHHHHHHhCCceEEEEeCC--C-Cc-hhHHhhHHHHHhcCCCCEEEe-CCHhHHhhHh
Q psy6265           4 TVQGPLQRKTIMLCIFAGD--V-TP-IEIMCHLPAVCEDKDIPYCYV-PSKKDIGEAL   56 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D--~-sp-~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~   56 (91)
                      |+...|++|++.+||.-.|  . .| ..=...+...|-.+||||.+- .+-+.+=+++
T Consensus        73 ~I~d~I~~geIdlVInt~~pl~~~~h~~D~~~IrR~A~~~~IP~~T~latA~a~v~ai  130 (152)
T 1b93_A           73 QVGALISEGKIDVLIFFWDPLNAVPHDPDVKALLRLATVWNIPVATNVATADFIIQSP  130 (152)
T ss_dssp             HHHHHHHTTCCCEEEEECCTTSCCTTHHHHHHHHHHHHHTTCCEESSHHHHHHHHTSG
T ss_pred             hHHHHHHCCCccEEEEcCCcccCCcccccHHHHHHHHHHcCCCEEeCHHHHHHHHHHH
Confidence            5788999999999999988  3 33 122456999999999999763 3444444443

>1x52_A Pelota homolog, CGI-17; ERF1_3 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.79.3.2

Probab=91.90  E-value=0.23  Score=31.84  Aligned_cols=67  Identities=12%  Similarity=0.082  Sum_probs=52.2

Q ss_pred             hhHHHHHHHhCCceEEEEeCCC----Cc---hhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDV----TP---IEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~----sp---~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~   70 (91)
                      .++|.++++.|.+..++|..|.    +|   ..+.. +...+++++-.+.++.+..+-|.-+ +.....+|++.-+
T Consensus        43 ~~eV~~Ale~GAVetLLI~d~l~r~~d~~~~~~~~e-l~e~~~~~G~~V~ivs~~~~~G~qL-~~~gGIaAiLRy~  116 (124)
T 1x52_A           43 LKQVEKANEAMAIDTLLISDELFRHQDVATRSRYVR-LVDSVKENAGTVRIFSSLHVSGEQL-SQLTGVAAILRFP  116 (124)
T ss_dssp             HHHHHHHHHTTCEEEEEEEHHHHTCSSHHHHHHHHH-HHHHHHHTTCEEEEECSSSHHHHHH-HTTTTEEEEESSC
T ss_pred             HHHHHHHHHcCCccEEEechhhhcCCChHHHHHHHH-HHHHHHHcCCEEEEECCCCccHHHH-hcCCCEEEEEecC
Confidence            4789999999999999999874    11   12444 6788889999999999999889888 5666666666543

>3drn_A Peroxiredoxin, bacterioferritin comigratory prote homolog; bacterioferritin comigratory protein, oxidore; HET: CIT; 2.15A {Sulfolobus solfataricus} SCOP: c.47.1.0

Probab=91.29  E-value=1.4  Score=27.69  Aligned_cols=80  Identities=16%  Similarity=0.165  Sum_probs=50.8

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe-CCHhHHhhHhCCCC----ceEEEEEecCch-----
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV-PSKKDIGEALGRKK----PCICVIVKSTES-----   72 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~-~sk~eLG~a~G~~~----~~~v~~i~~~~~-----   72 (91)
                      ++..+..+...+.+|.|+.|. +.    .+..+++++++++-.. ....++.+..|...    .-+..+++..|.     
T Consensus        53 ~~~~~~~~~~~v~vv~vs~d~-~~----~~~~~~~~~~~~~~~~~d~~~~~~~~~~v~~~~~~~P~~~lid~~G~i~~~~  127 (161)
T 3drn_A           53 RDNWDLLKDYDVVVIGVSSDD-IN----SHKRFKEKYKLPFILVSDPDKKIRELYGAKGFILPARITFVIDKKGIIRHIY  127 (161)
T ss_dssp             HHTHHHHHTTCEEEEEEESCC-HH----HHHHHHHHTTCCSEEEECTTSHHHHHTTCCCSSSCCCEEEEECTTSBEEEEE
T ss_pred             HHHHHHHHHcCCEEEEEeCCC-HH----HHHHHHHHhCCCceEEECCcHHHHHHcCCCCcCcccceEEEECCCCEEEEEE
Confidence            344555555558889898883 42    3556778899987544 45679999999864    334556664432     


Q ss_pred             -----HHHHHHHHHHHhhcC
Q psy6265          73 -----VAELYEEVKQEIGAL   87 (91)
Q Consensus        73 -----~~~~~~~~~~~~~~~   87 (91)
                           ....++++.+.++++
T Consensus       128 ~g~~~~~~~~~~il~~l~~l  147 (161)
T 3drn_A          128 NSQMNPANHVNEALKALKQI  147 (161)
T ss_dssp             ECSSCTTHHHHHHHHHHHHH
T ss_pred             ecCCCCCcCHHHHHHHHHHh
Confidence                 245566666666543

>1vmd_A MGS, methylglyoxal synthase; TM1185, structural genomics, JCSG, P structure initiative, PSI, joint center for structural GENO lyase; 2.06A {Thermotoga maritima} SCOP: c.24.1.2

Probab=90.41  E-value=0.38  Score=32.97  Aligned_cols=55  Identities=13%  Similarity=0.089  Sum_probs=40.4

Q ss_pred             HHHHHHHhCCceEEEEeCC--C-Cc--hhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCC
Q psy6265           4 TVQGPLQRKTIMLCIFAGD--V-TP--IEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRK   59 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D--~-sp--~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~   59 (91)
                      |+...|++|++.+||.-.|  . .|  .+ ...|...|-.+||||.+ ..+-+.+=+++=..
T Consensus        89 qI~d~I~~geIdlVInt~dPl~~~~h~~D-~~~IRR~A~~~~IP~~TnlatA~A~v~ail~~  149 (178)
T 1vmd_A           89 QIGAMIAEGKIDVLIFFWDPLEPQAHDVD-VKALIRIATVYNIPVAITRSTADFLISSPLMN  149 (178)
T ss_dssp             HHHHHHHTTSCCEEEEECCSSSCCTTSCC-HHHHHHHHHHTTCCEESSHHHHHHHHHSGGGG
T ss_pred             hHHHHHHCCCccEEEEccCccCCCccccc-HHHHHHHHHHcCCCEEeCHHHHHHHHHHHhcc
Confidence            5788999999999999988  3 22  24 34699999999999976 44555555554333

>2xw6_A MGS, methylglyoxal synthase; lyase; 1.08A {Thermus SP} PDB: 2x8w_A 1wo8_A

Probab=89.86  E-value=0.33  Score=31.70  Aligned_cols=52  Identities=21%  Similarity=0.364  Sum_probs=37.7

Q ss_pred             HHHHHHHhCCceEEEEeCC--CC-c--hhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHh
Q psy6265           4 TVQGPLQRKTIMLCIFAGD--VT-P--IEIMCHLPAVCEDKDIPYCYVP-SKKDIGEAL   56 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D--~s-p--~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~   56 (91)
                      ++...|++|++.+||.-.|  .. |  .+ ...|...|-.++|||.+-. +-+.+=+++
T Consensus        65 ~I~d~I~~geIdlVInt~~pl~~~~h~~D-~~~IrR~A~~~~IP~~T~latA~a~v~al  122 (134)
T 2xw6_A           65 QMGARVAEGRILAVIFFRDPLTAQPHEPD-VQALLRVCDVHGVPLATNPMAAEALIPWL  122 (134)
T ss_dssp             HHHHHHHTTCEEEEEEECCTTTCCTTSCC-SHHHHHHHHHHTCCEECSHHHHHHHHHHH
T ss_pred             hHHHHHHCCCccEEEEccCcccCCCccch-HHHHHHHHHHcCCCeEcCHHHHHHHHHHH
Confidence            5788999999999999988  32 2  13 3458999999999997633 444444433

>3gkn_A Bacterioferritin comigratory protein; BCP, PRX, atypical 2-Cys, oxidoreduc; HET: BIH; 1.47A {Xanthomonas campestris PV} PDB: 3gkk_A 3gkm_A

Probab=89.16  E-value=1.1  Score=28.05  Aligned_cols=80  Identities=10%  Similarity=0.112  Sum_probs=50.0

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCC------------ceEEEEEec
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKK------------PCICVIVKS   69 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~------------~~~v~~i~~   69 (91)
                      ++..+.++...+.+|.|+.| ++..    +..+++++++++-. .....++.++.|...            .-+..+++.
T Consensus        59 ~~~~~~~~~~~~~vv~vs~d-~~~~----~~~~~~~~~~~~~~~~d~~~~~~~~~~v~~~~~~~~~~~~~~~p~~~lid~  133 (163)
T 3gkn_A           59 NALLPEFDKAGAKILGVSRD-SVKS----HDNFCAKQGFAFPLVSDGDEALCRAFDVIKEKNMYGKQVLGIERSTFLLSP  133 (163)
T ss_dssp             HHHHHHHHHTTCEEEEEESS-CHHH----HHHHHHHHCCSSCEEECTTCHHHHHTTCEEEEEETTEEEEEECCEEEEECT
T ss_pred             HHHHHHHHHCCCEEEEEeCC-CHHH----HHHHHHHhCCCceEEECCcHHHHHHhCCccccccccccccCcceEEEEECC
Confidence            44555666666899999998 4533    44566677777643 345668999999754            233556665


Q ss_pred             Cch---------HHHHHHHHHHHhhcC
Q psy6265          70 TES---------VAELYEEVKQEIGAL   87 (91)
Q Consensus        70 ~~~---------~~~~~~~~~~~~~~~   87 (91)
                      .|.         .....+++.+.++++
T Consensus       134 ~G~i~~~~~~~~~~~~~~~il~~l~~l  160 (163)
T 3gkn_A          134 EGQVVQAWRKVKVAGHADAVLAALKAH  160 (163)
T ss_dssp             TSCEEEEECSCCSTTHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCcccCHHHHHHHHHHH
Confidence            442         134566677666654

>2yvq_A Carbamoyl-phosphate synthase; conserved hypothetical protein, structural genomics, NPPSFA; 1.98A {Homo sapiens}

Probab=88.55  E-value=0.74  Score=29.72  Aligned_cols=43  Identities=14%  Similarity=0.101  Sum_probs=32.8

Q ss_pred             HHHHHHHhCCceEEEEeCCCC--chhHHhhHHHHHhcCCCCEEEe
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVT--PIEIMCHLPAVCEDKDIPYCYV   46 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~s--p~~~~~~l~~lc~~~~IP~~~~   46 (91)
                      ++...|++|++.+||--.|-.  +..=-..+...|-+++|||++-
T Consensus        87 ~i~d~i~~g~i~lVInt~~~~~~~~~d~~~iRR~Av~~~IP~~T~  131 (143)
T 2yvq_A           87 SIRKLIRDGSIDLVINLPNNNTKFVHDNYVIRRTAVDSGIPLLTN  131 (143)
T ss_dssp             CHHHHHHTTSCCEEEECCCCCGGGHHHHHHHHHHHHHTTCCEECS
T ss_pred             cHHHHHHCCCceEEEECCCCCCcCCccHHHHHHHHHHhCCCeEcC
Confidence            477889999999999988763  1111345889999999999753

>2qi2_A Pelota, cell division protein pelota related protein; DOM34, cell cycle; 2.90A {Thermoplasma acidophilum} SCOP: b.38.4.1 c.55.4.2 d.79.3.2

Probab=88.00  E-value=0.39  Score=35.61  Aligned_cols=67  Identities=12%  Similarity=0.108  Sum_probs=54.3

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCC-chhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVT-PIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~s-p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~   70 (91)
                      .++|.+|++.|.+..++|..|.. ..+ ...+...++++|-.+.++.+..+-|+-+ ......+|++.-+
T Consensus       270 ~~eV~~Ale~GAVetLlV~d~l~rr~~-~~~L~e~~~~~G~~V~ivs~~~e~G~qL-~~lGGIAaiLRy~  337 (347)
T 2qi2_A          270 RDQTESALQMGALSDLIITDEMFRTED-GRRSLSIAQTVGTRIHIVSVSNDPGQIV-KKFGGFAGILRYR  337 (347)
T ss_dssp             HHHHHHHHHTTCEEEEEEEHHHHTSHH-HHHHHHHHHHHTCEEEEECTTSHHHHHH-HHTTSEEEEECSC
T ss_pred             HHHHHHHHHcCCCeEEEEecccccchh-HHHHHHHHHHcCCEEEEECCCCcchHHH-HhcCCEEEEEecc
Confidence            47899999999999999999864 223 5678889999999999999998888888 5666666666543

>3nkl_A UDP-D-quinovosamine 4-dehydrogenase; alpha-beta fold, structural genomics, PSI-2, protein structu initiative; HET: MSE GOL; 1.90A {Vibrio fischeri}

Probab=87.12  E-value=1.7  Score=26.82  Aligned_cols=50  Identities=8%  Similarity=0.048  Sum_probs=37.9

Q ss_pred             HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHh
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIG   53 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG   53 (91)
                      +....+++..+..||+|-..........+...|+..++.+.++++-.++-
T Consensus        56 ~l~~~~~~~~id~viia~~~~~~~~~~~i~~~l~~~gv~v~~vP~~~~~~  105 (141)
T 3nkl_A           56 YLERLIKKHCISTVLLAVPSASQVQKKVIIESLAKLHVEVLTIPNLDDLV  105 (141)
T ss_dssp             GHHHHHHHHTCCEEEECCTTSCHHHHHHHHHHHHTTTCEEEECCCHHHHH
T ss_pred             HHHHHHHHCCCCEEEEeCCCCCHHHHHHHHHHHHHcCCeEEECCCHHHHh
Confidence            44566777788889999754333556778889999999999999877653

>2ggt_A SCO1 protein homolog, mitochondrial; copper chaperone, Cu-binding protein, mitochondrial assembly factor, redox, nickel, disuplhide, mitochondrion; 2.40A {Homo sapiens} SCOP: c.47.1.10 PDB: 2gqk_A 2gql_A 2gqm_A 2gt5_A 2gt6_A 2gvp_A 2hrf_A 2hrn_A 1wp0_A

Probab=85.92  E-value=3.2  Score=25.50  Aligned_cols=56  Identities=5%  Similarity=0.009  Sum_probs=35.6

Q ss_pred             hHHHHHHHh----CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEe-CCH---hHHhhHhCCC
Q psy6265           3 STVQGPLQR----KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYV-PSK---KDIGEALGRK   59 (91)
Q Consensus         3 kev~kai~~----gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~-~sk---~eLG~a~G~~   59 (91)
                      ++..+.+..    ..+.+|.|+.|-.. +....+..+++++++++..+ ++.   .++.+..|..
T Consensus        47 ~~l~~~~~~~~~~~~~~vv~vs~d~~~-d~~~~~~~~~~~~~~~~~~l~~~~d~~~~~~~~~~v~  110 (164)
T 2ggt_A           47 IQVVDEIDSITTLPDLTPLFISIDPER-DTKEAIANYVKEFSPKLVGLTGTREEVDQVARAYRVY  110 (164)
T ss_dssp             HHHHHHHHHSSSSCCEEEEEEESCTTT-CCHHHHHHHHHTTCSSCEEEECCHHHHHHHHHTTTCC
T ss_pred             HHHHHHHhhccCCCcEEEEEEEeCCCC-CCHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHhcCeE
Confidence            344555554    37888999888632 12345667788888887654 233   3577778865

>3nk6_A 23S rRNA methyltransferase; nosiheptide, nosiheptide-resistance methyltransferase, 23S R methyltransferase; 2.00A {Streptomyces actuosus} PDB: 3nk7_A* 3gyq_A*

Probab=85.08  E-value=4.3  Score=28.95  Aligned_cols=64  Identities=8%  Similarity=0.165  Sum_probs=45.0

Q ss_pred             hHHHHHHHhC-CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCC-ceEEEEEecC
Q psy6265           3 STVQGPLQRK-TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKK-PCICVIVKST   70 (91)
Q Consensus         3 kev~kai~~g-ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~-~~~v~~i~~~   70 (91)
                      |-|..+|+.| ...-+++.++... .  ..+...|+..++|+..+ +++.|.+..+... ...++.+...
T Consensus        41 ~~V~eaL~~~~~i~~l~~~~~~~~-~--~~l~~~~~~~~~~v~~v-~~~~l~~ls~~~~~qGv~a~~~~~  106 (277)
T 3nk6_A           41 EPLMECIRAGVQFIEVYGSSGTPL-D--PALLDLCRQREIPVRLI-DVSIVNQLFKAERKAKVFGIARVP  106 (277)
T ss_dssp             HHHHHHHHTTCCEEEEEEETTSCC-C--HHHHHHHHHTTCCEEEE-CHHHHTTCC-----CCEEEEEECC
T ss_pred             HHHHHHHhCCCCeEEEEEeCCccC-c--HHHHHHHHhcCCcEEEE-CHHHHHHhhCCCCCCeEEEEEecC
Confidence            5677888887 5788899988765 3  45677888999998776 7888988888643 4556666554

>3oby_A Protein pelota homolog; SM fold, hydrolase; 2.90A {Archaeoglobus fulgidus}

Probab=84.82  E-value=0.67  Score=34.48  Aligned_cols=68  Identities=13%  Similarity=0.085  Sum_probs=53.0

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchh----HHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIE----IMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~----~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~   70 (91)
                      .++|.+|++.|.+.-++|..|..-..    ....+...+++++--+.++.|..+-|.-+ ......+|++.-+
T Consensus       270 ~~eV~~Ale~GAVetLLIsd~l~r~~r~~~~~~~l~e~~~~~G~~v~i~S~~~e~G~qL-~~lGGIaAiLRy~  341 (352)
T 3oby_A          270 LDEVREAHNYRAIEVLLVADEFLLEEREKWDVDGLLREVEESGGKVVIMSTEFEPGKRL-MSLGGIAALLRFN  341 (352)
T ss_dssp             HHHHHHHHTTTCEEEEEEEHHHHHHHTTTSCHHHHHHHHHHTTCEEEEECTTSHHHHHH-HHTTSEEEEESSC
T ss_pred             HHHHHHHHHcCCceEEEEeccchhcccchHHHHHHHHHHHHcCCEEEEEcCCCcchhHH-hcCCCEEEEEecC
Confidence            47899999999999999998763211    35668889999999999999998888777 5556666666543

>3j15_A Protein pelota; ribosome recycling, ribosome, archaea, translation-transport complex; HET: ADP; 6.60A {Pyrococcus furiosus}

Probab=83.91  E-value=0.53  Score=34.94  Aligned_cols=66  Identities=12%  Similarity=0.110  Sum_probs=49.4

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCc---hhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTP---IEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp---~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      .++|.+|++.|.+.-++|..|..-   .+....+...+++++--+.++.|..+-|.-+ ......+|++.
T Consensus       285 ~~eV~~Ale~GAVetLLV~d~l~r~~~~~~~~~l~e~~~~~G~~v~ivs~~~e~G~qL-~~lgGiaAiLR  353 (357)
T 3j15_A          285 LKEVEEAVNYGAVETLLVLDELLKGELREKVEELMDAVRYSRGEVVVVSSEHEGGEKL-KALGGLAALLR  353 (357)
T ss_dssp             THHHHHHHHHTCEEEEEEEHHHHTSSCCHHHHHHHHHHHHTTCEEEEECSSSTTHHHH-HHHCSEEEEES
T ss_pred             HHHHHHHHHhCCCcEEEEecccccccchHHHHHHHHHHHHcCCEEEEECCCCCcchhh-hcCCcEEEEEe
Confidence            478999999999999999877532   2456778999999999999998877666655 33344445443

>3e20_C Eukaryotic peptide chain release factor subunit 1; SUP35, SUP45, translation termination, peptide release, GTP- nucleotide-binding; 3.50A {Schizosaccharomyces pombe}

Probab=83.73  E-value=2.2  Score=32.55  Aligned_cols=69  Identities=12%  Similarity=0.098  Sum_probs=53.6

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCc---------------------------------------------hhHHhhHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTP---------------------------------------------IEIMCHLPAVC   36 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp---------------------------------------------~~~~~~l~~lc   36 (91)
                      .++|.+|++.|.+.-++|..+..-                                             .++...|...+
T Consensus       310 ~~eV~~Ale~GAVetLLIsD~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~e~~~~ve~l~e~a  389 (441)
T 3e20_C          310 VVDTMNALQEGAVETLLCFADLDMIRYEFKNSEGNPVITYMTKEQEEKDSTNSFLLDKDTGAEMELVSSMLLSEWLAEHY  389 (441)
T ss_dssp             HHHHHHHHHSSCCSEEEEETTCCCEEC----------CCEECSCTTTCCC-----------------CCEEHHHHHHHHG
T ss_pred             HHHHHHHHHhCCccEEEEecccccceeEEECCCCceEEEecCccccccccccccccCcccCccceecchhhHHHHHHHHH
Confidence            478999999999999999987740                                             02444688899


Q ss_pred             hcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265          37 EDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST   70 (91)
Q Consensus        37 ~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~   70 (91)
                      +++|.-+.++.++.+-|.-+-+.....+|++.-+
T Consensus       390 ~~~G~~v~~vs~~~~eG~ql~~~fgGIaaiLRy~  423 (441)
T 3e20_C          390 KDYGANLEFVSDRSQEGMQFVKGFGGIGAVMRYQ  423 (441)
T ss_dssp             GGGSCCEEEECTTSHHHHHHHHTSTTEEEECSSC
T ss_pred             HHcCCEEEEECCCCHHHHHHHHcCCcEEEEEecc
Confidence            9999999999999998887754555666666543

>3obw_A Protein pelota homolog; SM fold, hydrolase; 2.60A {Sulfolobus solfataricus}

Probab=83.49  E-value=1.4  Score=32.78  Aligned_cols=66  Identities=15%  Similarity=0.136  Sum_probs=50.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCc-----hhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTP-----IEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp-----~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      .++|.+|++.|.+.-++|..|..-     .+....+...+++++--+.++.+..+-|.-+ +.....+|++.
T Consensus       290 ~~eV~~Ale~GAVetLLV~d~l~r~~d~~r~~~~~l~e~v~~~Gg~V~ivs~~~e~G~qL-~~lGGIAAiLR  360 (364)
T 3obw_A          290 LEQVKNAIEMGAVETVLVIEDLLSSDEQERLTIERMLEDIENKRGEVILVPKESPIYFEL-KNLTGILAILR  360 (364)
T ss_dssp             HHHHHHHHHHTCEEEEEEEGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEECTTSTTHHHH-HHTTTEEEEES
T ss_pred             HHHHHHHHHhCCCcEEEEeccCcccccchHHHHHHHHHHHHhcCCEEEEECCCCCCchhh-hcCCcEEEEEe
Confidence            478999999999999999988642     1345678889999999999999887777766 44444455543

>1o73_A Tryparedoxin; electron transport, trypanosomatid, thioredoxin; 2.28A {Trypanosoma brucei brucei} SCOP: c.47.1.10

Probab=82.69  E-value=5.8  Score=23.76  Aligned_cols=76  Identities=9%  Similarity=0.156  Sum_probs=47.3

Q ss_pred             CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC---HhHHhhHhCCCCceEEEEEe-cCchH--HHHHHHHHHHhh
Q psy6265          12 KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS---KKDIGEALGRKKPCICVIVK-STESV--AELYEEVKQEIG   85 (91)
Q Consensus        12 gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s---k~eLG~a~G~~~~~~v~~i~-~~~~~--~~~~~~~~~~~~   85 (91)
                      +.+.++.|..|.++..    +....++++.+.+.+..   ..+|.+..|....=+..+++ .+|..  ....+.+.+..+
T Consensus        61 ~~~~vv~i~~d~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Pt~~lid~~~G~i~~~~~~~~~~~~~~  136 (144)
T 1o73_A           61 KNFEVVLISWDENESD----FHDYYGKMPWLALPFDQRSTVSELGKTFGVESIPTLITINADTGAIIGTQARTRVIEDPD  136 (144)
T ss_dssp             TTEEEEEEECCSSHHH----HHHHHTTCSSEECCTTCHHHHHHHHHHHTCCSSSEEEEEETTTCCEEESCHHHHHHHCTT
T ss_pred             CCEEEEEEeCCCCHHH----HHHHHHhCCceEeeccchhHHHHHHHHcCCCCCCEEEEEECCCCeEEecchhhHHhhCCC
Confidence            5677888888865533    33444555432221222   46888899986555577777 55542  445667777777


Q ss_pred             cCCCCC
Q psy6265          86 ALPVTW   91 (91)
Q Consensus        86 ~~~~~~   91 (91)
                      ....||
T Consensus       137 ~~~~~W  142 (144)
T 1o73_A          137 GANFPW  142 (144)
T ss_dssp             CTTTTC
T ss_pred             ccCCCC
Confidence            788888

>3agj_B Protein pelota homolog; GTP binding, translation-hydrolase complex; HET: GTP; 2.30A {Aeropyrum pernix}

Probab=80.39  E-value=2.1  Score=31.62  Aligned_cols=68  Identities=10%  Similarity=0.079  Sum_probs=52.1

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCC----c--hhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVT----P--IEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~s----p--~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~   70 (91)
                      .++|.+|++.|.+.-++|..|..    +  .+....|...+++++-.+.++.+..+-|.-+ +.....+|++.-+
T Consensus       277 ~~eV~~Al~~GAVetLLV~d~l~r~~d~~~r~~~~~L~~~a~~~Gg~V~ivs~~~~~G~qL-~~~gGIaAiLRy~  350 (358)
T 3agj_B          277 PGEVLAVARMGAVDTVLLVDTLLHSPDDAVREAVDEALRLVESMGGRVIIIPGDSPAGERL-VSFGGVIALLRYP  350 (358)
T ss_dssp             HHHHHHHHHHTCEEEEEEEHHHHTCSSHHHHHHHHHHHHHHHHTTCEEEEECSSSHHHHHH-GGGTTEEEEESSC
T ss_pred             HHHHHHHHHhCCceEEEEecccccCCChhhHHHHHHHHHHHHHcCCEEEEECCCCcchhhh-hcCCcEEEEEecc
Confidence            47899999999999999998742    1  1235567888889999999999999988776 5555556666544

>2vgn_A DOM34; translation termination factor, protein biosynthesis, translation regulation, cell division, mRNA degradation; 2.5A {Saccharomyces cerevisiae} SCOP: b.38.4.1 c.55.4.2 d.79.3.2 PDB: 2vgm_A 3izq_0 3j16_A*

Probab=80.11  E-value=4.3  Score=30.29  Aligned_cols=67  Identities=18%  Similarity=0.142  Sum_probs=51.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCC----c--hhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEec
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVT----P--IEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKS   69 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~s----p--~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~   69 (91)
                      .++|.+|++.|.+..++|..|.-    +  ...+..|...++++|-.+.++.+..+-|.-+ ......+|++.-
T Consensus       302 ~~eV~~Ale~GAVetLLV~d~l~r~~d~~~r~~v~~L~e~v~~~Gg~V~ivs~~~e~G~qL-~~lgGIAAiLRy  374 (386)
T 2vgn_A          302 EKEVVKAAEYGAISYLLLTDKVLHSDNIAQREEYLKLMDSVESNGGKALVLSTLHSLGEEL-DQLTGIACILKY  374 (386)
T ss_dssp             HHHHHHHHHTTCEEEEEEETTGGGSSCHHHHHHHHHHHHHHHHTTCEEEEECTTSHHHHHH-HHTTTEEEEESS
T ss_pred             HHHHHHHHHcCCcEEEEEechhhcCCCchhhhHHHHHHHHHHHcCCEEEEECCCCcchhhH-hccCcEEEEEec
Confidence            47899999999999999999852    1  1114567778889999999999998888777 455555666553

>3s9f_A Tryparedoxin; thioredoxin fold, disulfide reductase, electron transport; 1.80A {Leishmania major}

Probab=80.01  E-value=2.1  Score=27.21  Aligned_cols=84  Identities=6%  Similarity=-0.007  Sum_probs=49.9

Q ss_pred             HHHHHHHh-CCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCC---HhHHhhHhCCCCceEEEEEecC-chH--HHH
Q psy6265           4 TVQGPLQR-KTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPS---KKDIGEALGRKKPCICVIVKST-ESV--AEL   76 (91)
Q Consensus         4 ev~kai~~-gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~s---k~eLG~a~G~~~~~~v~~i~~~-~~~--~~~   76 (91)
                      +..+.... +.+.+|.|.-|.++..    +..+.++++.+...+..   ..+|.+..|....=+..+++.. |..  ...
T Consensus        72 ~l~~~~~~~~~v~vv~v~~d~~~~~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~v~~~Pt~~lid~~~G~iv~~~~  147 (165)
T 3s9f_A           72 EFYEKHHDSKNFEIILASWDEEEDD----FNAYYAKMPWLSIPFANRNIVEALTKKYSVESIPTLIGLNADTGDTVTTRA  147 (165)
T ss_dssp             HHHHHHTTTTTEEEEEEECCCSHHH----HHHHHTTCSSEECCTTCHHHHHHHHHHTTCCSSSEEEEEETTTCCEEESCH
T ss_pred             HHHHHhccCCCeEEEEEecCCCHHH----HHHHHHhCCCcccccCchhHHHHHHHHcCCCCCCEEEEEeCCCCEEEeccc
Confidence            33344443 4678888888866533    33444555432222222   2688999998755557777765 653  445


Q ss_pred             HHHHHHHhhcCCCCC
Q psy6265          77 YEEVKQEIGALPVTW   91 (91)
Q Consensus        77 ~~~~~~~~~~~~~~~   91 (91)
                      .+.+.+.....-.||
T Consensus       148 ~~~~~~d~~~~~fpw  162 (165)
T 3s9f_A          148 RHALTQDPMGEQFPW  162 (165)
T ss_dssp             HHHHHHCTTCTTTTC
T ss_pred             HHHHhhCcccccCCC
Confidence            566666666666777

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	91
d2alea1	126	d.79.3.1 (A:1-126) Small nuclear ribonucleoprotein	1e-20
d2fc3a1	124	d.79.3.1 (A:4-127) Ribosomal protein L7ae {Aeropyr	2e-20
d1rlga_	113	d.79.3.1 (A:) Ribosomal protein L7ae {Archaeon Arc	5e-20
d1vqof1	119	d.79.3.1 (F:1-119) Ribosomal protein L7ae {Archaeo	8e-19
d2ozba1	125	d.79.3.1 (A:4-128) Spliceosomal 15.5kd protein {Hu	2e-18
d2aifa1	115	d.79.3.1 (A:16-130) Ribosomal protein L7ae {Crypto	3e-17
d1xbia1	115	d.79.3.1 (A:2-116) Ribosomal protein L7ae {Archaeo	1e-16
d1t0kb_	97	d.79.3.1 (B:) Eukaryotic ribosomal protein L30 (L3	8e-11
d1w3ex1	98	d.79.3.1 (X:1-98) Eukaryotic ribosomal protein L30	9e-11
d2bo1a1	100	d.79.3.1 (A:1-100) Eukaryotic ribosomal protein L3	1e-09

>d2alea1 d.79.3.1 (A:1-126) Small nuclear ribonucleoprotein-associated protein 1, Snu13p {Saccharomyces cerevisiae [TaxId: 4932]} Length = 126

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Small nuclear ribonucleoprotein-associated protein 1, Snu13p
species: Saccharomyces cerevisiae [TaxId: 4932]

 Score = 77.2 bits (190), Expect = 1e-20
 Identities = 30/88 (34%), Positives = 45/88 (51%), Gaps = 2/88 (2%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
                L R      I A D  PIEI+ HLP +CEDK++PY +VPS+  +G A G  +P I
Sbjct: 39  EATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVI 98

Query: 64  CVIVKSTE--SVAELYEEVKQEIGALPV 89
              + + +  ++      VK +I  L +
Sbjct: 99  AASITTNDASAIKTQIYAVKDKIETLLI 126

>d2fc3a1 d.79.3.1 (A:4-127) Ribosomal protein L7ae {Aeropyrum pernix [TaxId: 56636]} Length = 124

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Ribosomal protein L7ae
species: Aeropyrum pernix [TaxId: 56636]

 Score = 76.4 bits (188), Expect = 2e-20
 Identities = 30/83 (36%), Positives = 44/83 (53%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           ++R    L + A DV P EI+ HLP +C++K IPY YVPSKK +GEA G +     V + 
Sbjct: 40  VERGLAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAII 99

Query: 69  STESVAELYEEVKQEIGALPVTW 91
                  L  E+ +++  L    
Sbjct: 100 EPGDAETLVREIVEKVKELRAKA 122

>d1rlga_ d.79.3.1 (A:) Ribosomal protein L7ae {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 113

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Ribosomal protein L7ae
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

 Score = 75.2 bits (185), Expect = 5e-20
 Identities = 28/80 (35%), Positives = 45/80 (56%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           ++R    L   A DV P EI+ HLP +CE+K++PY YV SK D+G A+G + PC    + 
Sbjct: 33  VERGLAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAII 92

Query: 69  STESVAELYEEVKQEIGALP 88
           +   + +    + ++I  L 
Sbjct: 93  NEGELRKELGSLVEKIKGLQ 112

>d1vqof1 d.79.3.1 (F:1-119) Ribosomal protein L7ae {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 119

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Ribosomal protein L7ae
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 72.6 bits (178), Expect = 8e-19
 Identities = 20/79 (25%), Positives = 38/79 (48%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           ++R +  L   A DV P EI+ H+P + ++K +P+ +V  + D+G A G +       V 
Sbjct: 40  IERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVT 99

Query: 69  STESVAELYEEVKQEIGAL 87
                    E++  ++  L
Sbjct: 100 DAGEADADVEDIADKVEEL 118

>d2ozba1 d.79.3.1 (A:4-128) Spliceosomal 15.5kd protein {Human (Homo sapiens) [TaxId: 9606]} Length = 125

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Spliceosomal 15.5kd protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 71.5 bits (175), Expect = 2e-18
 Identities = 30/88 (34%), Positives = 46/88 (52%), Gaps = 2/88 (2%)

Query: 4   TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCI 63
                L R      + A D  P+EI+ HLP +CEDK++PY +V SK+ +G A G  +P I
Sbjct: 38  EATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVI 97

Query: 64  C--VIVKSTESVAELYEEVKQEIGALPV 89
              V +K    + +  + ++Q I  L V
Sbjct: 98  ACSVTIKEGSQLKQQIQSIQQSIERLLV 125

>d2aifa1 d.79.3.1 (A:16-130) Ribosomal protein L7ae {Cryptosporidium parvum [TaxId: 5807]} Length = 115

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Ribosomal protein L7ae
species: Cryptosporidium parvum [TaxId: 5807]

 Score = 68.4 bits (167), Expect = 3e-17
 Identities = 30/78 (38%), Positives = 44/78 (56%), Gaps = 2/78 (2%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           L R    + + A D  P+EI+ HLP VCEDK+ PY +V SK  +G A G  +P I   + 
Sbjct: 36  LNRGIAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAIT 95

Query: 69  STE--SVAELYEEVKQEI 84
           S +  S++    E+K +I
Sbjct: 96  SKDGSSLSSQITELKDQI 113

>d1xbia1 d.79.3.1 (A:2-116) Ribosomal protein L7ae {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 115

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Ribosomal protein L7ae
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score = 66.4 bits (162), Expect = 1e-16
 Identities = 30/77 (38%), Positives = 44/77 (57%), Gaps = 3/77 (3%)

Query: 9   LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK 68
           ++R    L I A DV P E++ HLP +CE+K IPY YV SK+D+G+A G +     V + 
Sbjct: 37  VERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAII 96

Query: 69  S---TESVAELYEEVKQ 82
           +    E +  L E+V  
Sbjct: 97  NEGDAEELKVLIEKVNV 113

>d1t0kb_ d.79.3.1 (B:) Eukaryotic ribosomal protein L30 (L30e) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Eukaryotic ribosomal protein L30 (L30e)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 51.3 bits (123), Expect = 8e-11
 Identities = 11/60 (18%), Positives = 21/60 (35%), Gaps = 2/60 (3%)

Query: 9  LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIP-YCYVPSKKDIGEALGRKKPCICVIV 67
          L++    L I A +  P+     L           Y +     ++G A+G+      V +
Sbjct: 26 LRQGKSKLIIIAANT-PVLRKSELEYYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSI 84

>d1w3ex1 d.79.3.1 (X:1-98) Eukaryotic ribosomal protein L30 (L30e) {Archaeon Thermococcus celer [TaxId: 2264]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Eukaryotic ribosomal protein L30 (L30e)
species: Archaeon Thermococcus celer [TaxId: 2264]

 Score = 51.3 bits (123), Expect = 9e-11
 Identities = 10/60 (16%), Positives = 19/60 (31%), Gaps = 2/60 (3%)

Query: 9  LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCICVIV 67
           +     L I A +    +I   +        I    +  +  ++G  LGR      + V
Sbjct: 27 AKMGGAKLIIVARNA-RPDIKEDIEYYARLSGIAVYEFEGTSVELGTLLGRPHTVSALAV 85

>d2bo1a1 d.79.3.1 (A:1-100) Eukaryotic ribosomal protein L30 (L30e) {Archaeon Thermococcus celer [TaxId: 2264]} Length = 100

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Eukaryotic ribosomal protein L30 (L30e)
species: Archaeon Thermococcus celer [TaxId: 2264]

 Score = 48.6 bits (116), Expect = 1e-09
 Identities = 11/61 (18%), Positives = 21/61 (34%), Gaps = 2/61 (3%)

Query: 9  LQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIP-YCYVPSKKDIGEALGRKKPCICVIV 67
          L+     L I A +    +    L         P Y +  +  ++G A+G+      V +
Sbjct: 27 LKMGGSKLIIIARNT-RPDRKEDLEYYARLSGTPVYEFEGTNVELGTAVGKPHTVSVVSI 85

Query: 68 K 68
           
Sbjct: 86 L 86

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	91
d2ozba1	125	Spliceosomal 15.5kd protein {Human (Homo sapiens)	99.93
d2fc3a1	124	Ribosomal protein L7ae {Aeropyrum pernix [TaxId: 5	99.93
d1rlga_	113	Ribosomal protein L7ae {Archaeon Archaeoglobus ful	99.93
d2alea1	126	Small nuclear ribonucleoprotein-associated protein	99.92
d1vqof1	119	Ribosomal protein L7ae {Archaeon Haloarcula marism	99.92
d2aifa1	115	Ribosomal protein L7ae {Cryptosporidium parvum [Ta	99.92
d1xbia1	115	Ribosomal protein L7ae {Archaeon Methanococcus jan	99.91
d1w3ex1	98	Eukaryotic ribosomal protein L30 (L30e) {Archaeon	99.84
d1t0kb_	97	Eukaryotic ribosomal protein L30 (L30e) {Baker's y	99.82
d2bo1a1	100	Eukaryotic ribosomal protein L30 (L30e) {Archaeon	99.82
d1gz0a2	76	RlmB, N-terminal domain {Escherichia coli [TaxId:	96.76
d2qy9a2	211	GTPase domain of the signal recognition particle r	94.63
d2vgna3	104	Dom34 {Saccharomyces cerevisiae [TaxId: 4932]}	94.48
d2qi2a3	95	Cell division protein pelota {Thermoplasma acidoph	94.3
d1dt9a2	146	C-terminal domain of eukaryotic peptide chain rele	94.1
d1x52a1	111	Cell division protein pelota {Human (Homo sapiens)	93.85
d2ohwa1	128	Uncharacterized protein YueI {Bacillus subtilis [T	92.84
d1knxa1	132	HPr kinase/phoshatase HprK N-terminal domain {Myco	92.21
d1vmda_	156	Methylglyoxal synthase, MgsA {Thermotoga maritima	91.88
d1ko7a1	129	HPr kinase/phoshatase HprK N-terminal domain {Stap	90.65
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	89.32
d1st9a_	137	Thiol-disulfide oxidoreductase ResA {Bacillus subt	89.06
d1wo8a1	126	Methylglyoxal synthase, MgsA {Thermus thermophilus	88.86
d1b93a_	148	Methylglyoxal synthase, MgsA {Escherichia coli [Ta	88.62
d1ls1a2	207	GTPase domain of the signal sequence recognition p	87.02
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	86.79
d1j8yf2	211	GTPase domain of the signal sequence recognition p	86.7
d1sjpa2	184	GroEL, A domain {Mycobacterium tuberculosis, GroEL	84.66
d2ioja1	120	Hypothetical protein AF1212 {Archaeoglobus fulgidu	83.65
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	83.11
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	81.42
d1okkd2	207	GTPase domain of the signal recognition particle r	81.27
d1vmaa2	213	GTPase domain of the signal recognition particle r	81.04
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	80.13

>d2ozba1 d.79.3.1 (A:4-128) Spliceosomal 15.5kd protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Spliceosomal 15.5kd protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=3.5e-26  Score=149.44  Aligned_cols=88  Identities=33%  Similarity=0.621  Sum_probs=81.0

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEE--EecCchHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVI--VKSTESVAELYEE   79 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~--i~~~~~~~~~~~~   79 (91)
                      .|||+|+|++|+++|||||+|++|.++.+|++.+|++++|||++++|+.+||+|||+++++++++  +.+++++.+.|++
T Consensus        36 ~~ev~k~i~~gka~lViiA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~~~~~~~~i~~~~~~~~~~~~~e  115 (125)
T d2ozba1          36 ANEATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQIQS  115 (125)
T ss_dssp             HHHHHHHHHHTCEEEEEEETTCSSGGGSTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEECCTTCTTHHHHHH
T ss_pred             hHHHHHHHHcCCceEEEEeCCCChHHHHHHHHHHHhcCCceEEEECCchHHHHHhCCCCCeEEEEEEecCcHHHHHHHHH
Confidence            58999999999999999999999989999999999999999999999999999999998866544  4467888999999


Q ss_pred             HHHHhhcCCC
Q psy6265          80 VKQEIGALPV   89 (91)
Q Consensus        80 ~~~~~~~~~~   89 (91)
                      +.+.+++|++
T Consensus       116 l~~~i~~L~~  125 (125)
T d2ozba1         116 IQQSIERLLV  125 (125)
T ss_dssp             HHHHHHTTCC
T ss_pred             HHHHHHhhcC
Confidence            9999999985

>d2fc3a1 d.79.3.1 (A:4-127) Ribosomal protein L7ae {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Ribosomal protein L7ae
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.93  E-value=1.9e-26  Score=150.35  Aligned_cols=90  Identities=33%  Similarity=0.575  Sum_probs=84.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      .|||+++|++|++++||||+|++|.+++.|++.+|++++|||++++|+.+||++||++++++++++.+++++...++++.
T Consensus        33 ~~~v~k~i~~~ka~lVvlA~D~~p~~~~~~l~~~c~~~~Vp~~~~~sk~~LG~a~G~~~~~s~v~i~~~g~~~~l~~~l~  112 (124)
T d2fc3a1          33 TNETTKAVERGLAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAIIEPGDAETLVREIV  112 (124)
T ss_dssp             HHHHHHHHHTTCCSEEEEETTCSSGGGTTTHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEEECGGGHHHHHHHH
T ss_pred             HHHHHHHHHcCCCeEEEEeCCCChHHHHHHHHHHHHcCCCcEEEeCCHHHHHHHHCCCCCEEEEEEEeccchHHHHHHHH
Confidence            58999999999999999999999988999999999999999999999999999999999988888888888899999999


Q ss_pred             HHhhcCCCCC
Q psy6265          82 QEIGALPVTW   91 (91)
Q Consensus        82 ~~~~~~~~~~   91 (91)
                      ++++++..+|
T Consensus       113 ~~~~~lr~~~  122 (124)
T d2fc3a1         113 EKVKELRAKA  122 (124)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            9999887666

>d1rlga_ d.79.3.1 (A:) Ribosomal protein L7ae {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Ribosomal protein L7ae
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=99.93  E-value=6.1e-26  Score=145.47  Aligned_cols=87  Identities=32%  Similarity=0.609  Sum_probs=81.8

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      +|||+++|++|+++|||||+|++|.++..|++.+|++++|||++++|+++||++||++++++++.+.+.++.++.|+++.
T Consensus        26 ~~~v~k~l~~~ka~lViiA~D~~p~~~~~~i~~lc~~~~vp~~~~~sk~~LG~a~G~~~~~s~~~i~~~g~~~~~~~~l~  105 (113)
T d1rlga_          26 TNETTKAVERGLAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAIINEGELRKELGSLV  105 (113)
T ss_dssp             HHHHHHHHTTTCCSEEEEESCCSCSTTTTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECGGGHHHHHHHH
T ss_pred             HHHHHHHHHcCCceEEEEeCCCCcHHHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCCCEEEEEEEeccchHHHHHHHH
Confidence            58999999999999999999999988999999999999999999999999999999998887777788888899999999


Q ss_pred             HHhhcCC
Q psy6265          82 QEIGALP   88 (91)
Q Consensus        82 ~~~~~~~   88 (91)
                      ++++.++
T Consensus       106 e~i~~l~  112 (113)
T d1rlga_         106 EKIKGLQ  112 (113)
T ss_dssp             HHHHTTT
T ss_pred             HHHHhcc
Confidence            9999875

>d2alea1 d.79.3.1 (A:1-126) Small nuclear ribonucleoprotein-associated protein 1, Snu13p {Saccharomyces cerevisiae [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Small nuclear ribonucleoprotein-associated protein 1, Snu13p
species: Saccharomyces cerevisiae [TaxId: 4932]

Probab=99.92  E-value=1e-25  Score=147.43  Aligned_cols=87  Identities=34%  Similarity=0.635  Sum_probs=81.1

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC--chHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST--ESVAELYEE   79 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~--~~~~~~~~~   79 (91)
                      .|||+|+|++|++++||||+|++|.++++|++.+|++++|||++++||.+||+|||+++++++++++.+  +++.+.|++
T Consensus        37 ~~ev~K~i~~g~a~lVviA~D~~p~~~~~~l~~lc~~~~Ip~~~v~sk~~LG~a~G~~~~~~~~~i~~~~~~~~~~~~~~  116 (126)
T d2alea1          37 ANEATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKTQIYA  116 (126)
T ss_dssp             HHHHHHHHHHTCEEEEEEETTCSSGGGGTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEECCTTCTTHHHHHH
T ss_pred             HHHHHHHHHcCCCeEEEEeCCCChHHHHHHHHHHHhccCCCEEEECchhHHHHHhCCCCCeEEEEEeccchHHHHHHHHH
Confidence            589999999999999999999999999999999999999999999999999999999999988888754  578999999


Q ss_pred             HHHHhhcCC
Q psy6265          80 VKQEIGALP   88 (91)
Q Consensus        80 ~~~~~~~~~   88 (91)
                      +.++++.|.
T Consensus       117 i~~~i~~L~  125 (126)
T d2alea1         117 VKDKIETLL  125 (126)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHhhc
Confidence            999998764

>d1vqof1 d.79.3.1 (F:1-119) Ribosomal protein L7ae {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Ribosomal protein L7ae
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.92  E-value=3.4e-25  Score=143.43  Aligned_cols=86  Identities=23%  Similarity=0.470  Sum_probs=80.4

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      +++|+++|++|+++|||||+|++|.++.+|++.+|++++|||++++|+++||+|||++++++++.+.+.++.+..++++.
T Consensus        33 ~~~v~k~l~~gka~lVilA~D~~p~~~~~~l~~lc~~~~Vp~~~~~tk~~LG~a~G~~~~~s~v~I~d~g~a~~~~~~i~  112 (119)
T d1vqof1          33 TNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVTDAGEADADVEDIA  112 (119)
T ss_dssp             HHHHHHHHHHTCCSEEEEESCCSSGGGTTTHHHHHHTTTCCEEEESCHHHHHHHTTCSSCCSEEEESSCSSCHHHHHHHH
T ss_pred             HHHHHHHHHcCCceEEEEECCCChHHHHHHHHHHHhcCCCCEEEECCHHHHHHHhCCCCCeEEEEEEeccchHHHHHHHH
Confidence            58999999999999999999999878999999999999999999999999999999999888888888888899999999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      +.++++
T Consensus       113 ~~~~el  118 (119)
T d1vqof1         113 DKVEEL  118 (119)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            988765

>d2aifa1 d.79.3.1 (A:16-130) Ribosomal protein L7ae {Cryptosporidium parvum [TaxId: 5807]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Ribosomal protein L7ae
species: Cryptosporidium parvum [TaxId: 5807]

Probab=99.92  E-value=1e-24  Score=140.23  Aligned_cols=85  Identities=35%  Similarity=0.647  Sum_probs=77.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc--hHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE--SVAELYEE   79 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~--~~~~~~~~   79 (91)
                      .|||+++|++|+++|||||+|++|.++++|++.+|++++|||++++|+.+||+|||++++++++++.+++  +..+.+++
T Consensus        29 ~~~v~k~i~~g~a~lViiA~D~~p~~~~~~i~~~c~~~~ip~~~~~sk~~LG~a~G~~~~~~~~~i~~~~~~~~~~~~~e  108 (115)
T d2aifa1          29 ANEATKALNRGIAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSKDGSSLSSQITE  108 (115)
T ss_dssp             HHHHHHHHHTTCEEEEEEETTCSCHHHHHHHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEECCTTCTTHHHHHH
T ss_pred             HHHHHHHHHcCCCcEEEEeCCCCchhHHHHHHHHHhcCCCCEEEeCchHHHHHHhCCCCCeEEEEEecCchHHHHHHHHH
Confidence            5899999999999999999999998899999999999999999999999999999999988877777654  57888999


Q ss_pred             HHHHhhc
Q psy6265          80 VKQEIGA   86 (91)
Q Consensus        80 ~~~~~~~   86 (91)
                      +.+.+++
T Consensus       109 l~~~~k~  115 (115)
T d2aifa1         109 LKDQIEQ  115 (115)
T ss_dssp             HHHTTCC
T ss_pred             HHHHhcC
Confidence            8888763

>d1xbia1 d.79.3.1 (A:2-116) Ribosomal protein L7ae {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Ribosomal protein L7ae
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=99.91  E-value=4.8e-25  Score=141.87  Aligned_cols=85  Identities=35%  Similarity=0.600  Sum_probs=75.7

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecCchHHHHHHHHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKSTESVAELYEEVK   81 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~~~~~~~~~~~   81 (91)
                      .|||+|+|++|++++||||+|++|.++..|++.+|++++|||++++|+++||++||++++++++.+.+.|+ .+.|++++
T Consensus        30 ~~~v~kai~~~~a~lVilA~D~~p~~~~~~l~~lc~~~~Vp~~~v~sk~~LG~a~g~~~~~s~vai~~~g~-~~~~~~l~  108 (115)
T d1xbia1          30 ANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGD-AEELKVLI  108 (115)
T ss_dssp             HHHHHHHHHHTCCSEEEEESCCSSGGGTTTHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECSC-HHHHHHHH
T ss_pred             HHHHHHHHHcCCCeEEEEeCCCCcHHHHHHHHHHHHhcCCCEEEECcHhHHHHHhCCCcceEEEEEEchhh-HHHHHHHH
Confidence            58999999999999999999999988999999999999999999999999999999998766555555554 56799999


Q ss_pred             HHhhcC
Q psy6265          82 QEIGAL   87 (91)
Q Consensus        82 ~~~~~~   87 (91)
                      ++++.|
T Consensus       109 e~i~~l  114 (115)
T d1xbia1         109 EKVNVL  114 (115)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            998764

>d1w3ex1 d.79.3.1 (X:1-98) Eukaryotic ribosomal protein L30 (L30e) {Archaeon Thermococcus celer [TaxId: 2264]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Eukaryotic ribosomal protein L30 (L30e)
species: Archaeon Thermococcus celer [TaxId: 2264]

Probab=99.84  E-value=3e-21  Score=121.00  Aligned_cols=68  Identities=16%  Similarity=0.146  Sum_probs=60.0

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCceE-EEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPCI-CVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~-v~~i~~~   70 (91)
                      .++|+++|++|++++||+|+|++| ++++++..+|++++||++. .+|+.|||++||++++++ +++++.+
T Consensus        20 ~~~v~kal~~gkaklVilA~D~~~-~~~~~i~~~c~~~~Ip~~~~~~t~~eLG~a~Gk~~~vs~vaI~d~G   89 (98)
T d1w3ex1          20 ARKSIQYAKMGGAKLIIVARNARP-DIKEDIEYYARLSGIAVYEFEGTSVELGTLLGRPHTVSALAVVDPG   89 (98)
T ss_dssp             HHHHHHHHHHTCCSEEEEETTSCH-HHHHHHHHHHHHHTCEEEEESSCHHHHHHHTTCSSCCCEEEEEECT
T ss_pred             HHHHHHHHHcCCccEEEEECCCCH-HHHHHHHHHHHhcCCCeEEECCCHHHHHHHhCCCCCEEEEEEeccC
Confidence            589999999999999999999987 7899999999999999965 589999999999998765 5555544

>d1t0kb_ d.79.3.1 (B:) Eukaryotic ribosomal protein L30 (L30e) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Eukaryotic ribosomal protein L30 (L30e)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.82  E-value=1e-20  Score=118.13  Aligned_cols=70  Identities=13%  Similarity=0.099  Sum_probs=60.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEE-EeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYC-YVPSKKDIGEALGRKKPCICVIVKSTES   72 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~-~~~sk~eLG~a~G~~~~~~v~~i~~~~~   72 (91)
                      .+||+++|++|++++||+|+|++| +.++++..+|++++||++ +.+|++|||++||++++++++.+.+.|+
T Consensus        19 ~~~v~k~i~~gkaklVilA~D~~~-~~~~~i~~~~~~~~vp~~~~~~t~~eLG~a~Gk~~~vs~v~I~d~G~   89 (97)
T d1t0kb_          19 YKSTVKSLRQGKSKLIIIAANTPV-LRKSELEYYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSILEAGD   89 (97)
T ss_dssp             HHHHHHHHHHTCCSEEEECTTCCH-HHHHHHHHHHHHHTCEEEECSSCHHHHHHHTTCSSCCSEEEECCCSS
T ss_pred             HHHHHHHHHcCCCcEEEEeCCCCH-HHHHHHHHHHHhcCCceEEEcCCHHHHHHHhCCCCCEEEEEEeccch
Confidence            589999999999999999999988 788999999999999965 5689999999999998765555544443

>d2bo1a1 d.79.3.1 (A:1-100) Eukaryotic ribosomal protein L30 (L30e) {Archaeon Thermococcus celer [TaxId: 2264]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: L30e/L7ae ribosomal proteins
domain: Eukaryotic ribosomal protein L30 (L30e)
species: Archaeon Thermococcus celer [TaxId: 2264]

Probab=99.82  E-value=2.2e-20  Score=117.23  Aligned_cols=70  Identities=16%  Similarity=0.189  Sum_probs=60.1

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCE-EEeCCHhHHhhHhCCCCceEEEEEecCch
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPY-CYVPSKKDIGEALGRKKPCICVIVKSTES   72 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~-~~~~sk~eLG~a~G~~~~~~v~~i~~~~~   72 (91)
                      +++|+++|++|++++||+|+|++| +.+++++.+|+.++||+ .+.+|+.+||++||++++++++.+.++|+
T Consensus        20 ~~~v~kai~~gkaklVilA~D~~~-~~~~~i~~~c~~~~vp~~~~~~s~~eLG~a~Gk~~~vs~vaI~d~G~   90 (100)
T d2bo1a1          20 YRKTVQSLKMGGSKLIIIARNTRP-DRKEDLEYYARLSGTPVYEFEGTNVELGTAVGKPHTVSVVSILDAGE   90 (100)
T ss_dssp             HHHHHHHHHTTCCSEEEEETTSCH-HHHHHHHHHHHHHTCCEEEESSCHHHHHHHTTCSSCCSEEEEEECTT
T ss_pred             HHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHhcCCCeEEEcCcHHHHHHHhCCcCcEEEEEEecccH
Confidence            589999999999999999999988 78999999999999985 56789999999999998765544444443

>d1gz0a2 d.79.3.3 (A:2-77) RlmB, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: RNA 2'-O ribose methyltransferase substrate binding domain
domain: RlmB, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.76  E-value=0.002  Score=36.33  Aligned_cols=65  Identities=15%  Similarity=0.082  Sum_probs=49.2

Q ss_pred             hhHHHHHHHhC--CceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCc-eEEEEEe
Q psy6265           2 NSTVQGPLQRK--TIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKP-CICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~g--ka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~-~~v~~i~   68 (91)
                      .|-|..+|+++  ++.-++++.+... .....+..+|++++||+.++ ++.+|-+.+|-... .+++-+.
T Consensus         7 ~haV~eaL~~~~r~i~~l~v~~~~~~-~~~~~i~~~a~~~~i~i~~v-~~~~Ld~l~~~~~HQGVva~v~   74 (76)
T d1gz0a2           7 IHAVQALLERAPERFQEVFILKGRED-KRLLPLIHALESQGVVIQLA-NRQYLDEKSDGAVHQGIIARVK   74 (76)
T ss_dssp             HHHHHHHHHSCGGGEEEEEEESSCCC-TTTHHHHHHHHHHTCEEEEE-CSHHHHHTTTSCCCTTEEEEEC
T ss_pred             hHHHHHHHhCCCCceEEEEEeccccc-HHHHHHHHHHHHcCCCEEEE-CHHHHHHhcCCCCCCeEEEEEe
Confidence            35678888876  5888999988765 34567999999999999888 67889999985433 5555444

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=94.63  E-value=0.052  Score=36.13  Aligned_cols=78  Identities=13%  Similarity=0.147  Sum_probs=57.6

Q ss_pred             HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC------CCceEEEEEecCc------hHHHHH
Q psy6265          10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR------KKPCICVIVKSTE------SVAELY   77 (91)
Q Consensus        10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~------~~~~~v~~i~~~~------~~~~~~   77 (91)
                      ++...+..+++.|+.-.--...+..+++..+||+..+.+.+++..++..      .+..-+.++|.+|      +..+++
T Consensus        34 ~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~a~~~~~d~ilIDTaGr~~~d~~~~~el  113 (211)
T d2qy9a2          34 EQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEEL  113 (211)
T ss_dssp             HTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHHHHHTTCSEEEECCCCCGGGHHHHHHHH
T ss_pred             HHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHHHHHcCCCEEEeccCCCccccHHHHHHH
Confidence            3344689999999975555778999999999999999998888877642      1233488999987      234666


Q ss_pred             HHHHHHhhcC
Q psy6265          78 EEVKQEIGAL   87 (91)
Q Consensus        78 ~~~~~~~~~~   87 (91)
                      .++.+.++.+
T Consensus       114 ~~l~~~~~~~  123 (211)
T d2qy9a2         114 KKIVRVMKKL  123 (211)
T ss_dssp             HHHHHHHTTT
T ss_pred             HHHHHHHhhh
Confidence            6666666644

>d2vgna3 d.79.3.2 (A:278-381) Dom34 {Saccharomyces cerevisiae [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: ERF1/Dom34 C-terminal domain-like
domain: Dom34
species: Saccharomyces cerevisiae [TaxId: 4932]

Probab=94.48  E-value=0.045  Score=32.72  Aligned_cols=68  Identities=18%  Similarity=0.148  Sum_probs=54.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCc------hhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEecC
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTP------IEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVKST   70 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp------~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~   70 (91)
                      .++|.++++.|-+.-++|..+.--      ..-...+...+++++.-+..+.+..+-|.-+ ......+|++.-+
T Consensus        25 ~~~v~~A~e~gAv~~LlIsd~l~r~~~~~~r~~~~~l~~~~~~~g~~v~iiS~~~~~G~qL-~~lGGiaaiLRy~   98 (104)
T d2vgna3          25 EKEVVKAAEYGAISYLLLTDKVLHSDNIAQREEYLKLMDSVESNGGKALVLSTLHSLGEEL-DQLTGIACILKYP   98 (104)
T ss_dssp             HHHHHHHHHTTCEEEEEEETTGGGSSCHHHHHHHHHHHHHHHHTTCEEEEECTTSHHHHHH-HHTTTEEEEESSC
T ss_pred             HHHHHHHHHhCCceEEEEecccccccccchHHHHHHHHHHHHhcCCEEEEEcCCChhHHHH-HccCCEEEEEecc
Confidence            478999999999999999998721      1224468888899999999999999999998 5667777776543

>d2qi2a3 d.79.3.2 (A:244-338) Cell division protein pelota {Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: ERF1/Dom34 C-terminal domain-like
domain: Cell division protein pelota
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=94.30  E-value=0.018  Score=34.22  Aligned_cols=66  Identities=14%  Similarity=0.111  Sum_probs=52.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      .++|.++++.|-+.-++|..+.--.+-...+...+++.+..+..+.|..+-|+-+ +.....+|++.
T Consensus        27 ~~eV~~A~e~GAVe~Llisd~l~r~~~~~~l~~~~~~~g~~v~iis~~~e~G~~L-~~lGGiaaiLR   92 (95)
T d2qi2a3          27 RDQTESALQMGALSDLIITDEMFRTEDGRRSLSIAQTVGTRIHIVSVSNDPGQIV-KKFGGFAGILR   92 (95)
T ss_dssp             HHHHHHHHHTTCEEEEEEEHHHHTSHHHHHHHHHHHHHTCEEEEECTTSHHHHHH-HHTTSEEEEEC
T ss_pred             HHHHHHHHHcCCCcEEEEechhhcchhHHHHHHHHHHcCCEEEEECCCCHHHHHH-hcCCCEEEEEe
Confidence            3789999999999999999875211224678899999999999999999999888 55666666654

>d1dt9a2 d.79.3.2 (A:277-422) C-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: ERF1/Dom34 C-terminal domain-like
domain: C-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.10  E-value=0.032  Score=35.22  Aligned_cols=70  Identities=10%  Similarity=0.050  Sum_probs=52.8

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCc-------------------------------------------hhHHhhHHHHHhc
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTP-------------------------------------------IEIMCHLPAVCED   38 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp-------------------------------------------~~~~~~l~~lc~~   38 (91)
                      .++|.++++.|.+..++|..|..-                                           .++...+..++++
T Consensus        29 ~~ev~~ALe~GAVetLLise~L~~~r~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lie~l~e~a~~  108 (146)
T d1dt9a2          29 VEDTLKALEMGAVEILIVYENLDIMRYVLHCQGTEEEKILYLTPEQEKDKSHFTDKETGQEHELIESMPLLEWFANNYKK  108 (146)
T ss_dssp             HHHHHHHHHSSCCSEEEEESCCCCBCCCC---------CCCBCTTCSSCCCCCC-----------CCCBHHHHHHHTCTT
T ss_pred             HHHHHHHHHcCCccEEeeeeecccceEEEEcCCCCceEEEEeCcccccccccccCcccccchhhhhhhhHHHHHHHHHHH
Confidence            378999999999999999999631                                           1345568888999


Q ss_pred             CCCCEEEeCCHhHHhhHhCCCCceEEEEEecCc
Q psy6265          39 KDIPYCYVPSKKDIGEALGRKKPCICVIVKSTE   71 (91)
Q Consensus        39 ~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~~~~   71 (91)
                      .|.-+.++.+..+=|+-+-+.....+|++.-+-
T Consensus       109 ~g~~v~iiS~~~eeG~ql~~~fGGiaAiLRy~i  141 (146)
T d1dt9a2         109 FGATLEIVTDKSQEGSQFVKGFGGIGGILRYRV  141 (146)
T ss_dssp             TTSCEEEECSSSHHHHHHHHTTTTEEEECSSCC
T ss_pred             cCCeEEEEcCCCHhHHHHHHhCCCEEEEEEccc
Confidence            999999998888877766545555566655443

>d1x52a1 d.79.3.2 (A:8-118) Cell division protein pelota {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: L30e-like
family: ERF1/Dom34 C-terminal domain-like
domain: Cell division protein pelota
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.85  E-value=0.037  Score=33.57  Aligned_cols=66  Identities=12%  Similarity=0.088  Sum_probs=52.4

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCC------chhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCCCCceEEEEEe
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVT------PIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGRKKPCICVIVK   68 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~s------p~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~~~~~~v~~i~   68 (91)
                      .++|.++++.|-+.-++|..|.-      ..+....+...+++.+.-+..+.+..+-|+-+ +.....+|++.
T Consensus        36 ~~ev~~Ale~GAV~~LLisd~l~r~~~~~~r~~i~~l~~~~~~~g~~v~iiS~~~e~G~qL-~~lGGiaaiLR  107 (111)
T d1x52a1          36 LKQVEKANEAMAIDTLLISDELFRHQDVATRSRYVRLVDSVKENAGTVRIFSSLHVSGEQL-SQLTGVAAILR  107 (111)
T ss_dssp             HHHHHHHHHTTCEEEEEEEHHHHTCSSHHHHHHHHHHHHHHHHTTCEEEEECSSSHHHHHH-HTTTTEEEEES
T ss_pred             HHHHHHHHHcCCCcEEEEecccccccchhhHHHHHHHHHHHHhcCCEEEEEcCCChhHHHH-HhcCCEEEEEe
Confidence            47999999999999999998751      12334567888889999999999999988888 46666666654

>d2ohwa1 d.79.8.1 (A:3-130) Uncharacterized protein YueI {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: YueI-like
family: YueI-like
domain: Uncharacterized protein YueI
species: Bacillus subtilis [TaxId: 1423]

Probab=92.84  E-value=0.18  Score=31.28  Aligned_cols=48  Identities=8%  Similarity=0.171  Sum_probs=42.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK   50 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~   50 (91)
                      +.++.+.|++.+.-.++|.++.+. +....+..+|+++|||+..+.+..
T Consensus        49 ~~~~~~~l~~~~~~~l~iNg~l~~-~~~~~YiklA~~~~i~fTiV~~~~   96 (128)
T d2ohwa1          49 YKEAEHELKNSHNVTLLINGELQY-QSYSSYIQMASRYGVPFKIVSDLQ   96 (128)
T ss_dssp             CHHHHHHHHTCSSEEEEEETTSCH-HHHHHHHHHHHHTTCCEEEECCCS
T ss_pred             HHHHHHHHHhCCCcEEEEcCCCCh-HHHHHHHHHHHHcCCCeEEeCCCC
Confidence            457889999999999999999976 678889999999999999988654

>d1knxa1 c.98.2.1 (A:1-132) HPr kinase/phoshatase HprK N-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: MurF and HprK N-domain-like
superfamily: HprK N-terminal domain-like
family: HPr kinase/phoshatase HprK N-terminal domain
domain: HPr kinase/phoshatase HprK N-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=92.21  E-value=0.11  Score=32.06  Aligned_cols=42  Identities=14%  Similarity=0.067  Sum_probs=34.6

Q ss_pred             hHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265           3 STVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP   47 (91)
Q Consensus         3 kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~   47 (91)
                      ++..+.+-+.+.-.+|++.|..|+.   .+...|+++|||+....
T Consensus        73 ~~~l~~l~~~~~PciIvt~~~~~p~---~l~~~a~~~~vPll~T~  114 (132)
T d1knxa1          73 QQILHNLLKLNPPAIILTKSFTDPT---VLLQVNQTYQVPILKTD  114 (132)
T ss_dssp             TTTHHHHHTTCCSCEEEETTTCCCH---HHHHHGGGTCCCEEEES
T ss_pred             HHHHHHHhCcCCCEEEEECCCCCCH---HHHHHHHHcCCcEEEeC
Confidence            3566778888999999999998753   47889999999997644

>d1vmda_ c.24.1.2 (A:) Methylglyoxal synthase, MgsA {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Methylglyoxal synthase-like
superfamily: Methylglyoxal synthase-like
family: Methylglyoxal synthase, MgsA
domain: Methylglyoxal synthase, MgsA
species: Thermotoga maritima [TaxId: 2336]

Probab=91.88  E-value=0.13  Score=32.73  Aligned_cols=53  Identities=13%  Similarity=0.100  Sum_probs=38.1

Q ss_pred             HHHHHHHhCCceEEEEeCCCCc-----hhHHhhHHHHHhcCCCCEEEeC-CHhHHhhHhC
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVTP-----IEIMCHLPAVCEDKDIPYCYVP-SKKDIGEALG   57 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~sp-----~~~~~~l~~lc~~~~IP~~~~~-sk~eLG~a~G   57 (91)
                      ++...|++|++.+||.-.|...     .+. ..+...|-.++|||++.- +-+.+=+++.
T Consensus        73 ~i~d~I~~geI~lVIn~~d~~~~~~~~~D~-~~IRR~a~~~~IP~~Ttl~~A~a~i~ai~  131 (156)
T d1vmda_          73 QIGAMIAEGKIDVLIFFWDPLEPQAHDVDV-KALIRIATVYNIPVAITRSTADFLISSPL  131 (156)
T ss_dssp             HHHHHHHTTSCCEEEEECCSSSCCTTSCCH-HHHHHHHHHTTCCEESSHHHHHHHHHSGG
T ss_pred             CHHHHHHcCCCCEEEECCCCCCCccccchH-HHHHHHHHHhCCceecCHHHHHHHHHHHH
Confidence            5778899999999998776421     132 458999999999998643 5555544544

>d1ko7a1 c.98.2.1 (A:1-129) HPr kinase/phoshatase HprK N-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: MurF and HprK N-domain-like
superfamily: HprK N-terminal domain-like
family: HPr kinase/phoshatase HprK N-terminal domain
domain: HPr kinase/phoshatase HprK N-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=90.65  E-value=0.15  Score=30.58  Aligned_cols=41  Identities=20%  Similarity=0.208  Sum_probs=33.4

Q ss_pred             HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP   47 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~   47 (91)
                      +..+.+-+.+...+++..+..|+.   .+.++|+++++|++...
T Consensus        71 ~~i~~l~~~~~~~lIit~g~~~p~---~li~~a~~~~iPll~t~  111 (129)
T d1ko7a1          71 GRMRKLCRPETPAIIVTRDLEPPE---ELIEAAKEHETPLITSK  111 (129)
T ss_dssp             THHHHHCCTTCCCEEECTTCCCCH---HHHHHHHHTTCCEEECC
T ss_pred             HHHHHHhCCCCcEEEEECCCCCCH---HHHHHHHHhCCeEEEeC
Confidence            456677778888999999988753   57889999999998766

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=89.32  E-value=0.32  Score=33.25  Aligned_cols=49  Identities=10%  Similarity=0.028  Sum_probs=37.1

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHh
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKK   50 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~   50 (91)
                      +.++..+++--..-++++...-....-..++...|+++++|.+.+=+|.
T Consensus        85 ~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~~~~lP~i~fINKm  133 (276)
T d2bv3a2          85 TIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKM  133 (276)
T ss_dssp             STTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHHHTTTCCEEEEEECT
T ss_pred             HHHHHHHHHhhhheEEeccccCCcchhHHHHHHHHHHcCCCEEEEEecc
Confidence            4577888888887777777666654557789999999999987665543

>d1st9a_ c.47.1.10 (A:) Thiol-disulfide oxidoreductase ResA {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: Thioredoxin fold
superfamily: Thioredoxin-like
family: Glutathione peroxidase-like
domain: Thiol-disulfide oxidoreductase ResA
species: Bacillus subtilis [TaxId: 1423]

Probab=89.06  E-value=1.3  Score=25.88  Aligned_cols=77  Identities=4%  Similarity=0.068  Sum_probs=47.5

Q ss_pred             HHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEE-eCCHhHHhhHhCCCCceEEEEEecCch---------HH
Q psy6265           5 VQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCY-VPSKKDIGEALGRKKPCICVIVKSTES---------VA   74 (91)
Q Consensus         5 v~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~-~~sk~eLG~a~G~~~~~~v~~i~~~~~---------~~   74 (91)
                      ..+...+....++.|+.|-++..    +..+.+++++++-. .....++.+..|....=++.+++..|.         ..
T Consensus        50 ~~~~~~~~~~~~v~i~~~~~~~~----~~~~~~~~~~~~~~~~d~~~~~~~~~~v~~~P~~~liD~~G~i~~~~~G~~~~  125 (137)
T d1st9a_          50 QYKHFKSQGVEIVAVNVGESKIA----VHNFMKSYGVNFPVVLDTDRQVLDAYDVSPLPTTFLINPEGKVVKVVTGTMTE  125 (137)
T ss_dssp             HHHHHGGGTEEEEEEEESCCHHH----HHHHHHHTTCCSCEEEETTSHHHHHTTCCSSCEEEEECTTSEEEEEEESCCCH
T ss_pred             ccccccccccccccccccchhhh----HHHHHHHcCCCccccccccchhhhhhhccccceEEEECCCCEEEEEEECCCCH
Confidence            33444455577788877655533    44566788877533 335668999999765444567766543         24


Q ss_pred             HHHHHHHHHhh
Q psy6265          75 ELYEEVKQEIG   85 (91)
Q Consensus        75 ~~~~~~~~~~~   85 (91)
                      +.++++.+.|+
T Consensus       126 ~~~~~~l~~lk  136 (137)
T d1st9a_         126 SMIHDYMNLIK  136 (137)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhhC
Confidence            56677766664

>d1wo8a1 c.24.1.2 (A:1-126) Methylglyoxal synthase, MgsA {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Methylglyoxal synthase-like
superfamily: Methylglyoxal synthase-like
family: Methylglyoxal synthase, MgsA
domain: Methylglyoxal synthase, MgsA
species: Thermus thermophilus [TaxId: 274]

Probab=88.86  E-value=0.55  Score=28.43  Aligned_cols=43  Identities=14%  Similarity=0.272  Sum_probs=32.7

Q ss_pred             HHHHHHHhCCceEEEEeCCCCc-----hhHHhhHHHHHhcCCCCEEEeC
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVTP-----IEIMCHLPAVCEDKDIPYCYVP   47 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~sp-----~~~~~~l~~lc~~~~IP~~~~~   47 (91)
                      ++...|++|++.+||.-.|...     .+ -..+..+|-.+|||+++-.
T Consensus        63 ~i~d~I~~g~IdlVIn~~~~~~~~~~~~D-~~~iRR~a~~~~IP~~Tn~  110 (126)
T d1wo8a1          63 QIGARVAEGKVLAVVFLQDPLTAKPHEPD-VQALMRVCNVHGVPLATNL  110 (126)
T ss_dssp             HHHHHHHTTCEEEEEEECCTTSCCTTHHH-HHHHHHHHHHTTCCEECSH
T ss_pred             CHHHHHHcCCccEEEEecCCCCCCccccc-HHHHHHHHHHcCCCEEeCH
Confidence            5778899999999997766431     12 2358999999999997643

>d1b93a_ c.24.1.2 (A:) Methylglyoxal synthase, MgsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Methylglyoxal synthase-like
superfamily: Methylglyoxal synthase-like
family: Methylglyoxal synthase, MgsA
domain: Methylglyoxal synthase, MgsA
species: Escherichia coli [TaxId: 562]

Probab=88.62  E-value=0.33  Score=30.47  Aligned_cols=48  Identities=21%  Similarity=0.152  Sum_probs=35.2

Q ss_pred             HHHHHHHhCCceEEEEeCCCC---c--hhHHhhHHHHHhcCCCCEEEeC-CHhHH
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVT---P--IEIMCHLPAVCEDKDIPYCYVP-SKKDI   52 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~s---p--~~~~~~l~~lc~~~~IP~~~~~-sk~eL   52 (91)
                      ++...|++|++.+||.-.|..   +  .+ ...+...|-.+|||+++-- +-+.+
T Consensus        73 ~I~d~I~~g~I~lVIn~~d~~~~~~~~~D-~~~IRR~a~~~~IP~~Tn~~tA~a~  126 (148)
T d1b93a_          73 QVGALISEGKIDVLIFFWDPLNAVPHDPD-VKALLRLATVWNIPVATNVATADFI  126 (148)
T ss_dssp             HHHHHHHTTCCCEEEEECCTTSCCTTHHH-HHHHHHHHHHTTCCEESSHHHHHHH
T ss_pred             CHHHHHHcCCccEEEEccCCcCCCcCccc-HHHHHHHHHHcCCceEeCHHHHHHH
Confidence            578889999999999887642   1  13 3458999999999997633 33333

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=87.02  E-value=0.81  Score=29.75  Aligned_cols=61  Identities=13%  Similarity=0.053  Sum_probs=44.3

Q ss_pred             HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhH------hCCCCceEEEEEecCc
Q psy6265          10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEA------LGRKKPCICVIVKSTE   71 (91)
Q Consensus        10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a------~G~~~~~~v~~i~~~~   71 (91)
                      ++| -+..+++.|+.-..-...+..+|+..++|+..+.+.+++-..      ..+....-++++|.+|
T Consensus        36 ~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vlIDTaG  102 (207)
T d1ls1a2          36 GKG-RRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDTAG  102 (207)
T ss_dssp             HTT-CCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHHHHHTCCEEEEECCC
T ss_pred             HCC-CcEEEEecccccchHHHHHHHHHHhcCCccccccccchhhHHHHHHHHHHhhccCcceeecccc
Confidence            444 578899999986666788999999999999998877665332      2222233478888876

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=86.79  E-value=0.75  Score=28.99  Aligned_cols=51  Identities=12%  Similarity=-0.005  Sum_probs=30.5

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCC-chhHHhhHHHHHhcCCC-CEEEeCCHhHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVT-PIEIMCHLPAVCEDKDI-PYCYVPSKKDI   52 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~s-p~~~~~~l~~lc~~~~I-P~~~~~sk~eL   52 (91)
                      ++++..++..-..-++++...-. +.........++...++ |++.+-+|.+|
T Consensus       100 ~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~Dl  152 (205)
T d2qn6a3         100 MATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDV  152 (205)
T ss_dssp             HHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             HhhhhcceeccccccccccccccccchhHHHHHHHHHHcCCceeeeccccCCC
Confidence            35666777666666666665543 22233445567888888 56655566655

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=86.70  E-value=0.61  Score=30.59  Aligned_cols=61  Identities=18%  Similarity=0.243  Sum_probs=46.9

Q ss_pred             hCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhCC------CCceEEEEEecCc
Q psy6265          11 RKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALGR------KKPCICVIVKSTE   71 (91)
Q Consensus        11 ~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G~------~~~~~v~~i~~~~   71 (91)
                      +...+..+++.|+.-..-...+..+++..+||+..+.+..++...+..      ....-+.++|.+|
T Consensus        38 ~~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a~~~~~~~~~d~IlIDTaG  104 (211)
T d1j8yf2          38 KKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFLSEKMEIIIVDTAG  104 (211)
T ss_dssp             HTTCCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHHHHTTCSEEEEECCC
T ss_pred             HCCCceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHHHHHHHHhhccCCceEEEecCC
Confidence            334589999999986556778999999999999999988877654432      2344588999876

>d1sjpa2 c.8.5.1 (A:189-372) GroEL, A domain {Mycobacterium tuberculosis, GroEL2 [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: The "swivelling" beta/beta/alpha domain
superfamily: GroEL apical domain-like
family: GroEL-like chaperone, apical domain
domain: GroEL, A domain
species: Mycobacterium tuberculosis, GroEL2 [TaxId: 1773]

Probab=84.66  E-value=2.7  Score=26.71  Aligned_cols=41  Identities=20%  Similarity=0.028  Sum_probs=25.8

Q ss_pred             HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC
Q psy6265           6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP   47 (91)
Q Consensus         6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~   47 (91)
                      +....+.+..|+|||+|+++ +....+..=-.+-+++++-+.
T Consensus        46 Le~~~~~~rPLlIIA~di~~-~aL~~Lv~N~~~g~l~v~aVk   86 (184)
T d1sjpa2          46 LEKVIGAGKPLLIIAEDVEG-EALSTLVVNKIRGTFKSVAVK   86 (184)
T ss_dssp             HHHHHTTTCCEEEEESCBCH-HHHHHHHHHHHTTSSCCEEEE
T ss_pred             HHHhhccCCcEEEEcchhhH-HHHHHHHHHHhcCchheeccc
Confidence            34444555689999999998 444444443345557766544

>d2ioja1 c.98.2.2 (A:206-325) Hypothetical protein AF1212 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: MurF and HprK N-domain-like
superfamily: HprK N-terminal domain-like
family: DRTGG domain
domain: Hypothetical protein AF1212
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=83.65  E-value=0.67  Score=27.81  Aligned_cols=50  Identities=16%  Similarity=0.355  Sum_probs=35.6

Q ss_pred             HHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeC-----CHhHHhhHhCC
Q psy6265           6 QGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVP-----SKKDIGEALGR   58 (91)
Q Consensus         6 ~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~-----sk~eLG~a~G~   58 (91)
                      +-++..+....+|+.++..|.   ..+..+|++.+||++...     +-..|.++.|+
T Consensus        61 laa~~~~~i~~iIltgg~~p~---~~i~~la~~~~ipil~t~~dTf~ta~~l~~~~~~  115 (120)
T d2ioja1          61 LTALEMPNVRCLILTGNLEPV---QLVLTKAEERGVPVILTGHDTLTAVSRLESVFGR  115 (120)
T ss_dssp             HHHTTCTTEEEEEEETTCCCC---HHHHHHHHHHTCCEEECSSCHHHHHHHHHTTCST
T ss_pred             HHHHhCCCceEEEEECCCCCC---HHHHHHHHhCCCeEEEECCCHHHHHHHHHHHHhc
Confidence            345566678899999998885   356778999999998755     23456666654

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=83.11  E-value=1.2  Score=29.90  Aligned_cols=50  Identities=18%  Similarity=0.145  Sum_probs=38.9

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKD   51 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~e   51 (91)
                      +.++..+++-=..-++++...-....-..++..+|+++++|.+.+-+|.+
T Consensus        81 ~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~~~~~p~~i~iNk~D  130 (267)
T d2dy1a2          81 VGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLPRMVVVTKLD  130 (267)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEECGG
T ss_pred             hhhhhhhhcccCceEEEeeccCCccchhHHHHHhhhhccccccccccccc
Confidence            46888899888888888876655444567788999999999987777743

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=81.42  E-value=1.7  Score=27.63  Aligned_cols=51  Identities=8%  Similarity=0.054  Sum_probs=37.3

Q ss_pred             hhHHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCC-EEEeCCHhHH
Q psy6265           2 NSTVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIP-YCYVPSKKDI   52 (91)
Q Consensus         2 ~kev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP-~~~~~sk~eL   52 (91)
                      ++++.+++..-.+-++++..+-....-..+...+|...||| ++.+-+|-++
T Consensus        81 ~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~gi~~iiv~iNK~D~  132 (204)
T d2c78a3          81 IKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDM  132 (204)
T ss_dssp             HHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEeccc
Confidence            56788899888888888887655433345678899999998 4455577763

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=81.27  E-value=1.8  Score=28.02  Aligned_cols=61  Identities=15%  Similarity=0.055  Sum_probs=45.6

Q ss_pred             HhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhC------CCCceEEEEEecCc
Q psy6265          10 QRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG------RKKPCICVIVKSTE   71 (91)
Q Consensus        10 ~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G------~~~~~~v~~i~~~~   71 (91)
                      ++| .+..+++.|+.-.--...+..+|+..+||+....+..++..++.      +....-+.++|.+|
T Consensus        32 ~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~~~~~~~~~d~ilIDTaG   98 (207)
T d1okkd2          32 NLG-KKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQAMKARGYDLLFVDTAG   98 (207)
T ss_dssp             TTT-CCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHHHHHHHHHTCSEEEECCCC
T ss_pred             HCC-CcEEEEEeccccccchhhHhhcccccCceEEeccCCccHHHHHHHHHHHHHHCCCCEEEcCccc
Confidence            444 58999999986545567899999999999998888777666652      12233488999876

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=81.04  E-value=1.4  Score=28.70  Aligned_cols=77  Identities=12%  Similarity=0.019  Sum_probs=52.4

Q ss_pred             HHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhhHhC------CCCceEEEEEecCc------hHHH
Q psy6265           8 PLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGEALG------RKKPCICVIVKSTE------SVAE   75 (91)
Q Consensus         8 ai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~a~G------~~~~~~v~~i~~~~------~~~~   75 (91)
                      ..++| -+..+|+.|+.-.--...+..+|+..+||+....+..++...+.      +....-+.++|.+|      +..+
T Consensus        35 ~~~~~-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~~~~~~~~~d~ilIDTaGr~~~d~~~~~  113 (213)
T d1vmaa2          35 FVDEG-KSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKNLME  113 (213)
T ss_dssp             HHHTT-CCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHHHHHHHTTCSEEEEEECCCCSCHHHHHH
T ss_pred             HHHCC-CceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHHHHHHHHHHcCCCEEEEeccccccchHHHHH
Confidence            33444 68999999997655667899999999999998888766554332      11223488999886      2244


Q ss_pred             HHHHHHHHhh
Q psy6265          76 LYEEVKQEIG   85 (91)
Q Consensus        76 ~~~~~~~~~~   85 (91)
                      ++.++.+.++
T Consensus       114 el~~~~~~~~  123 (213)
T d1vmaa2         114 ELRKVHRVVK  123 (213)
T ss_dssp             HHHHHHHHGG
T ss_pred             HHHHHHhhhh
Confidence            5555555544

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=80.13  E-value=0.55  Score=28.34  Aligned_cols=83  Identities=13%  Similarity=0.155  Sum_probs=45.0

Q ss_pred             HHHHHHHhCCceEEEEeCCCCchhHHhhHHHHHhcCCCCEEEeCCHhHHhh---------H--hCCCCceEEEEEecCch
Q psy6265           4 TVQGPLQRKTIMLCIFAGDVTPIEIMCHLPAVCEDKDIPYCYVPSKKDIGE---------A--LGRKKPCICVIVKSTES   72 (91)
Q Consensus         4 ev~kai~~gka~lViiA~D~sp~~~~~~l~~lc~~~~IP~~~~~sk~eLG~---------a--~G~~~~~~v~~i~~~~~   72 (91)
                      .+..++..-.+-++++..+-+.......+..+++.+++|++.+.+|.+|=+         .  .|.... ....-..+..
T Consensus        73 ~~~~~~~~ad~i~~~~~~~~~~~~~~~~~~~~l~~~~~pviiv~NK~Dl~~~~~~~~~~~~~~~~~~~~-i~iSAk~g~g  151 (171)
T d1mkya1          73 VTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENLREFEREVKPELYSLGFGEP-IPVSAEHNIN  151 (171)
T ss_dssp             HHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEEEEEESCCSHHHHHHHTHHHHGGGSSCSC-EECBTTTTBS
T ss_pred             ccccccccCcEEEEeecccccccccccccccccccccccccccchhhhhhhhhhhHHHHHHHhcCCCCe-EEEecCCCCC
Confidence            344555443333333443333323345677888999999999888755411         1  122211 1111224555


Q ss_pred             HHHHHHHHHHHhhcC
Q psy6265          73 VAELYEEVKQEIGAL   87 (91)
Q Consensus        73 ~~~~~~~~~~~~~~~   87 (91)
                      ..+.++.|.+.+++-
T Consensus       152 id~L~~~i~~~l~e~  166 (171)
T d1mkya1         152 LDTMLETIIKKLEEK  166 (171)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCC
Confidence            677888888777654