Citrus Sinensis ID: 033552

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------
Protein Sequence
MYYRNDNLHSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKELASSLF
Secondary Structure (PSIPRED)
ccccccccccccccccccccHHHHcccEEEEEEEcccccHHHHHcHHHHHHHccccEEEEccHHHHHHHcccccccEEEEEEEccccccccHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccEccccccHHHHHccccEEEEEEcccccEEEEcccEEEccccccEEEEccHHHHHHHHcccccEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
myyrndnlhsfncvgvvndplpllfhECRLCviagnispidvithvpilceesdipyiyVASKEdlanagatkrptccvlvltkptkgelgqeeQDKLKADYTLVVEDVKELASSLF
Flexible Loop (DISEMBL)
myyrndnlhsfnCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAnagatkrptcCVLVLTkptkgelgqeeqdklkadytLVVEDVKELASSLF
Low Complexity Region (SEG)
MYYRNDNLHSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKELASSLF
Disordered region (IsUnstruct)
*****DNLHSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTK****************DYTLVV***********
Disordered Region (DISOPRED)
**********F**VGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT********QDKLKADYTLVVEDVKELASSL*
Disordered Region (DISEMBL)
MYYRNDNLHSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKELASSLF
Disordered Region (DISPRO)
MYYRNDNLHSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKELAS***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MYYRNDNLHSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQEEQDKLKADYTLVVEDVKELASSLF
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	117	2.2.26 [Sep-21-2011]
Q9LEY9	156	H/ACA ribonucleoprotein c	yes	no	0.752	0.564	0.727	8e-32
P32495	156	H/ACA ribonucleoprotein c	yes	no	0.769	0.576	0.455	6e-18
Q9P7H0	154	H/ACA ribonucleoprotein c	yes	no	0.717	0.545	0.418	1e-14
Q60YI3	163	Putative H/ACA ribonucleo	N/A	no	0.598	0.429	0.416	6e-12
Q9XXD4	163	Putative H/ACA ribonucleo	yes	no	0.529	0.380	0.453	8e-12
Q8I7X7	159	H/ACA ribonucleoprotein c	N/A	no	0.444	0.327	0.519	2e-11
Q6PBV6	150	H/ACA ribonucleoprotein c	yes	no	0.641	0.5	0.406	2e-10
Q9CRB2	153	H/ACA ribonucleoprotein c	yes	no	0.444	0.339	0.480	3e-10
Q6P8C4	149	H/ACA ribonucleoprotein c	yes	no	0.470	0.369	0.490	3e-10
Q9NX24	153	H/ACA ribonucleoprotein c	yes	no	0.444	0.339	0.461	3e-10

>sp|Q9LEY9|NHP2_ARATH H/ACA ribonucleoprotein complex subunit 2-like protein OS=Arabidopsis thaliana GN=At5g08180 PE=1 SV=1

 Score =  135 bits (340), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 64/88 (72%), Positives = 74/88 (84%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
           LCVIAGNISPIDVITH+PILCEE+ +PY+YV SKEDLA AGATKRPTCCVLV+ KP KG+
Sbjct: 69  LCVIAGNISPIDVITHLPILCEEAGVPYVYVPSKEDLAQAGATKRPTCCVLVMLKPAKGD 128

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           L  EE  KLK DY  V +D+KELA+S+ 
Sbjct: 129 LTAEELAKLKTDYEQVSDDIKELATSVI 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.
Arabidopsis thaliana (taxid: 3702)

>sp|P32495|NHP2_YEAST H/ACA ribonucleoprotein complex subunit 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NHP2 PE=1 SV=2

 Score = 89.4 bits (220), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 41/90 (45%), Positives = 62/90 (68%)

Query: 23  LLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL 82
           L   E  L VIAG+ISP DVI+H+P+LCE+  +PYI++ SK+DL  AGATKRPT  V ++
Sbjct: 67  LRKGEKGLVVIAGDISPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIV 126

Query: 83  TKPTKGELGQEEQDKLKADYTLVVEDVKEL 112
               K + G+ ++++ K  +  VV++V+ L
Sbjct: 127 PGSNKKKDGKNKEEEYKESFNEVVKEVQAL 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. Essential for growth. Directly binds H/ACA snoRNAs.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q9P7H0|NHP2_SCHPO H/ACA ribonucleoprotein complex subunit 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=nhp2 PE=1 SV=1

 Score = 78.6 bits (192), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 36/86 (41%), Positives = 59/86 (68%), Gaps = 2/86 (2%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
           E  L ++AG+ISP+DVI+H+P+LCE++++PY+Y  SKE L  A  TKRPT CV+++    
Sbjct: 69  EKGLVILAGDISPMDVISHIPVLCEDNNVPYLYTVSKELLGEASNTKRPTSCVMIVPGGK 128

Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
           K ++ + E+   K  Y  ++++V  L
Sbjct: 129 KKDMSKVEE--YKESYEEIIKEVPAL 152

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. Required for stability of the H/ACA snoRNPs.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

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

 Score = 69.3 bits (168), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 30/72 (41%), Positives = 49/72 (68%), Gaps = 2/72 (2%)

Query: 15  GVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKR 74
           G+ +    L  +E  +C++AGN+SPIDV +H+P +CEE +IPY+Y+ S+E L  A   +R
Sbjct: 72  GIKDVQKELRKNEKGICILAGNVSPIDVYSHIPAICEEKEIPYVYIPSREQLGLAVGHRR 131

Query: 75  PTCCVLVLTKPT 86
           P+  +L+  KP+
Sbjct: 132 PS--ILIFVKPS 141

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 = 68.9 bits (167), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 29/64 (45%), Positives = 46/64 (71%), Gaps = 2/64 (3%)

Query: 23  LLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL 82
           L  +E  +C++AGN+SPIDV +H+P +CEE +IPY+Y+ S+E L  A   +RP+  +L+ 
Sbjct: 80  LRRNEKGICILAGNVSPIDVYSHIPGICEEKEIPYVYIPSREQLGLAVGHRRPS--ILIF 137

Query: 83  TKPT 86
            KP+
Sbjct: 138 VKPS 141

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

 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 27/52 (51%), Positives = 41/52 (78%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLV 81
           + +IAG+ +PI+V  H+P++CE++ IPY YV +K+DL  A  +KRPTCCVL+
Sbjct: 84  IVLIAGDTTPIEVYCHLPVVCEDAKIPYCYVPAKQDLGEAAGSKRPTCCVLL 135

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|Q6PBV6|NHP2_DANRE H/ACA ribonucleoprotein complex subunit 2-like protein OS=Danio rerio GN=nhp2 PE=2 SV=1

 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/86 (40%), Positives = 49/86 (56%), Gaps = 11/86 (12%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
           E  + V AG+  PIDV  H+PI+CE+  +PY YV SK DL ++  +KRPTC +++  KP 
Sbjct: 72  ETGIVVFAGDTLPIDVYCHLPIMCEDRSLPYAYVPSKVDLGSSAGSKRPTCVIMI--KP- 128

Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
                    D+ K  Y   VE+V  L
Sbjct: 129 --------HDEYKEAYDECVEEVTSL 146

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.

Danio rerio (taxid: 7955)

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

 Score = 63.9 bits (154), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 25/52 (48%), Positives = 39/52 (75%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLV 81
           + V+AG+  PI+V  H+P+LCE+ ++PY+Y+ SK DL  A  +KRPTC ++V
Sbjct: 78  IMVLAGDTLPIEVYCHLPVLCEDQNLPYVYIPSKTDLGAATGSKRPTCVIMV 129

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)

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

 Score = 63.9 bits (154), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/55 (49%), Positives = 38/55 (69%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLV 81
           E  + V+AG+  PI+V  H+P++CE+  IPY YV SK DL  A  +KRPTC +L+
Sbjct: 71  EKGIVVMAGDTLPIEVYCHIPVMCEDRGIPYSYVPSKSDLGAAAGSKRPTCVILI 125

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 = 63.5 bits (153), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 24/52 (46%), Positives = 39/52 (75%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLV 81
           + V+AG+  PI+V  H+P++CE+ ++PY+Y+ SK DL  A  +KRPTC ++V
Sbjct: 78  IMVLAGDTLPIEVYCHLPVMCEDRNLPYVYIPSKTDLGAAAGSKRPTCVIMV 129

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)

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	117
317106656	155	JHL10I11.6 [Jatropha curcas]	0.752	0.567	0.875	1e-37
224099217	155	predicted protein [Populus trichocarpa]	0.752	0.567	0.852	3e-37
225455760	157	PREDICTED: H/ACA ribonucleoprotein compl	0.752	0.560	0.840	1e-36
255541902	157	H/ACA ribonucleoprotein complex subunit,	0.752	0.560	0.840	8e-36
399604650	92	H/ACA ribonucleoprotein complex subunit,	0.752	0.956	0.829	2e-35
388520375	157	unknown [Lotus japonicus]	0.752	0.560	0.784	4e-34
388502198	157	unknown [Lotus japonicus]	0.752	0.560	0.784	5e-34
351721974	157	uncharacterized protein LOC100305515 [Gl	0.752	0.560	0.818	7e-34
116782694	155	unknown [Picea sitchensis]	0.752	0.567	0.795	1e-33
449439363	158	PREDICTED: H/ACA ribonucleoprotein compl	0.752	0.556	0.795	3e-33

>gi|317106656|dbj|BAJ53160.1| JHL10I11.6 [Jatropha curcas]

 Score =  160 bits (404), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 77/88 (87%), Positives = 83/88 (94%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
           LCVIAGNISPIDVITHVPILCEESDIPYIYV+SKEDLANAGATKRPTCCVLVLTKP KG+
Sbjct: 68  LCVIAGNISPIDVITHVPILCEESDIPYIYVSSKEDLANAGATKRPTCCVLVLTKPPKGD 127

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           +GQEEQ+KLKAD++ VV DV EL SSLF
Sbjct: 128 IGQEEQEKLKADFSQVVADVSELTSSLF 155

Source: Jatropha curcas

Species: Jatropha curcas

Genus: Jatropha

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224099217|ref|XP_002311407.1| predicted protein [Populus trichocarpa] gi|118483385|gb|ABK93593.1| unknown [Populus trichocarpa] gi|118485555|gb|ABK94629.1| unknown [Populus trichocarpa] gi|222851227|gb|EEE88774.1| predicted protein [Populus trichocarpa]

 Score =  158 bits (400), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 75/88 (85%), Positives = 82/88 (93%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
           LC+IAGNISPIDVITHVPILCEESDIPY+YV SKEDLA+AGATKRPTCCVLVLTKPTKGE
Sbjct: 68  LCIIAGNISPIDVITHVPILCEESDIPYVYVTSKEDLASAGATKRPTCCVLVLTKPTKGE 127

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           +G+E+Q+KLKADY  VV DV EL SSLF
Sbjct: 128 IGKEDQEKLKADYDQVVSDVSELTSSLF 155

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225455760|ref|XP_002269703.1| PREDICTED: H/ACA ribonucleoprotein complex subunit 2-like protein [Vitis vinifera] gi|147867156|emb|CAN80504.1| hypothetical protein VITISV_035185 [Vitis vinifera] gi|297734127|emb|CBI15374.3| unnamed protein product [Vitis vinifera]

 Score =  156 bits (395), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 74/88 (84%), Positives = 81/88 (92%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
            CVIAGNI+PIDVITHVPILCEE+DIPY+YV SKEDLANAG+TKRPTCCVLVLTKPTKGE
Sbjct: 70  FCVIAGNITPIDVITHVPILCEEADIPYVYVPSKEDLANAGSTKRPTCCVLVLTKPTKGE 129

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           LGQEEQ+KLKA+YT VV DV  L S+LF
Sbjct: 130 LGQEEQEKLKAEYTQVVSDVSGLTSTLF 157

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255541902|ref|XP_002512015.1| H/ACA ribonucleoprotein complex subunit, putative [Ricinus communis] gi|223549195|gb|EEF50684.1| H/ACA ribonucleoprotein complex subunit, putative [Ricinus communis]

 Score =  154 bits (388), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 74/88 (84%), Positives = 80/88 (90%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
           LCVIAGNISPIDVITHVPILCEE+DIPY+YV SKEDLANAG TKRPTCCVLVLTKP KGE
Sbjct: 70  LCVIAGNISPIDVITHVPILCEEADIPYVYVPSKEDLANAGVTKRPTCCVLVLTKPPKGE 129

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           + QEEQ+KLKAD++ V  DV ELASSLF
Sbjct: 130 IPQEEQEKLKADFSQVAADVSELASSLF 157

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|399604650|gb|AFP49327.1| H/ACA ribonucleoprotein complex subunit, partial [Olea europaea]

 Score =  152 bits (384), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 73/88 (82%), Positives = 80/88 (90%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
           LCVIAGNISPIDVITHVPILCEE+DIPYIYV SKEDLANAGATKRPTCCVLVLTKPTKGE
Sbjct: 5   LCVIAGNISPIDVITHVPILCEEADIPYIYVPSKEDLANAGATKRPTCCVLVLTKPTKGE 64

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           + Q+EQ+KLK DY  V  +V ELA+S+F
Sbjct: 65  IAQDEQEKLKGDYDQVASEVSELANSMF 92

Source: Olea europaea

Species: Olea europaea

Genus: Olea

Family: Oleaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388520375|gb|AFK48249.1| unknown [Lotus japonicus]

 Score =  148 bits (374), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 69/88 (78%), Positives = 79/88 (89%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
           LCVIAGNISPIDVITHVP+LCEESD+PY+YV SKEDLA+AGATKRPTCCVLVLTKP KGE
Sbjct: 70  LCVIAGNISPIDVITHVPVLCEESDVPYVYVTSKEDLASAGATKRPTCCVLVLTKPAKGE 129

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           + + EQ+KLK+DY  VV DV E+ +SLF
Sbjct: 130 MEKGEQEKLKSDYDQVVSDVTEITASLF 157

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388502198|gb|AFK39165.1| unknown [Lotus japonicus]

 Score =  148 bits (373), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 69/88 (78%), Positives = 79/88 (89%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
           LCVIAGNISPIDVITHVP+LCEESD+PY+YV SKEDLA+AGATKRPTCCVLVLTKP KGE
Sbjct: 70  LCVIAGNISPIDVITHVPVLCEESDVPYVYVTSKEDLASAGATKRPTCCVLVLTKPAKGE 129

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           + + EQ+KLK+DY  VV DV E+ +SLF
Sbjct: 130 MEKGEQEKLKSDYDQVVSDVTEITASLF 157

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351721974|ref|NP_001236460.1| uncharacterized protein LOC100305515 [Glycine max] gi|356562662|ref|XP_003549588.1| PREDICTED: H/ACA ribonucleoprotein complex subunit 2-like protein-like [Glycine max] gi|255625761|gb|ACU13225.1| unknown [Glycine max]

 Score =  147 bits (371), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 72/88 (81%), Positives = 77/88 (87%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
           LCVIAGNISPIDVITHVPILCEESDIPYIYV SKEDLA AGATKRPTCCVLV TKP KGE
Sbjct: 70  LCVIAGNISPIDVITHVPILCEESDIPYIYVPSKEDLAGAGATKRPTCCVLVQTKPAKGE 129

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           + Q EQ+KLK+DY  VV +V EL +SLF
Sbjct: 130 IEQGEQEKLKSDYDQVVAEVTELTTSLF 157

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116782694|gb|ABK22614.1| unknown [Picea sitchensis]

 Score =  146 bits (369), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 70/88 (79%), Positives = 76/88 (86%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
            CVIAGNISPIDVITHVPILCEE+DIPYIYV SKEDLA AGATKRPTCCVLVLT PTKG 
Sbjct: 68  FCVIAGNISPIDVITHVPILCEEADIPYIYVPSKEDLAGAGATKRPTCCVLVLTSPTKGS 127

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           L +EE  KLK DY  VV++V+ELA+S F
Sbjct: 128 LSEEEDKKLKEDYNEVVKEVRELATSFF 155

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449439363|ref|XP_004137455.1| PREDICTED: H/ACA ribonucleoprotein complex subunit 2-like protein-like [Cucumis sativus] gi|449486884|ref|XP_004157431.1| PREDICTED: H/ACA ribonucleoprotein complex subunit 2-like protein-like [Cucumis sativus]

 Score =  145 bits (366), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 70/88 (79%), Positives = 77/88 (87%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
           LCVIAGNISPIDVITHVPILCEES+I Y+YV SKEDLANAG+TKRPTCCVLV TKP KGE
Sbjct: 71  LCVIAGNISPIDVITHVPILCEESEIRYVYVPSKEDLANAGSTKRPTCCVLVQTKPNKGE 130

Query: 90  LGQEEQDKLKADYTLVVEDVKELASSLF 117
           LG  EQ+KLKAD+  VV +V EL S+LF
Sbjct: 131 LGSTEQEKLKADFDQVVAEVSELTSTLF 158

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	117
TAIR|locus:2181514	156	AT5G08180 [Arabidopsis thalian	0.743	0.557	0.735	5.4e-31
SGD|S000002367	156	NHP2 "Protein related to mamma	0.709	0.532	0.469	1.6e-17
CGD|CAL0000123	159	NHP2 [Candida albicans (taxid:	0.683	0.503	0.437	6.7e-17
POMBASE|SPAC1782.10c	154	nhp2 "box H/ACA snoRNP complex	0.692	0.525	0.421	9.8e-16
ASPGD|ASPL0000056326	224	AN0695 [Emericella nidulans (t	0.683	0.357	0.433	1.8e-14
DICTYBASE|DDB_G0289699	144	nola2 "ribosomal protein L7Ae"	0.452	0.368	0.641	2.3e-14
UNIPROTKB|Q8I7X7	159	Q8I7X7 "H/ACA ribonucleoprotei	0.598	0.440	0.459	2.1e-13
UNIPROTKB|G4N4M3	253	MGG_05999 "H/ACA ribonucleopro	0.598	0.276	0.428	3.4e-13
UNIPROTKB|Q60YI3	163	CBG18231 "Putative H/ACA ribon	0.504	0.361	0.459	9.1e-13
WB|WBGene00012964	163	Y48A6B.3 [Caenorhabditis elega	0.675	0.484	0.402	9.1e-13

TAIR|locus:2181514 AT5G08180 [Arabidopsis thaliana (taxid:3702)]

 Score = 341 (125.1 bits), Expect = 5.4e-31, P = 5.4e-31
 Identities = 64/87 (73%), Positives = 74/87 (85%)

Query:    30 LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
             LCVIAGNISPIDVITH+PILCEE+ +PY+YV SKEDLA AGATKRPTCCVLV+ KP KG+
Sbjct:    69 LCVIAGNISPIDVITHLPILCEEAGVPYVYVPSKEDLAQAGATKRPTCCVLVMLKPAKGD 128

Query:    90 LGQEEQDKLKADYTLVVEDVKELASSL 116
             L  EE  KLK DY  V +D+KELA+S+
Sbjct:   129 LTAEELAKLKTDYEQVSDDIKELATSV 155

GO:0003723 "RNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005730 "nucleolus" evidence=IEA;IDA

GO:0001510 "RNA methylation" evidence=RCA

GO:0009165 "nucleotide biosynthetic process" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0034968 "histone lysine methylation" evidence=RCA

SGD|S000002367 NHP2 "Protein related to mammalian high mobility group (HMG) proteins" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 39/83 (46%), Positives = 60/83 (72%)

Query:    30 LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
             L VIAG+ISP DVI+H+P+LCE+  +PYI++ SK+DL  AGATKRPT  V ++    K +
Sbjct:    74 LVVIAGDISPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSNKKK 133

Query:    90 LGQEEQDKLKADYTLVVEDVKEL 112
              G+ ++++ K  +  VV++V+ L
Sbjct:   134 DGKNKEEEYKESFNEVVKEVQAL 156

GO:0000469 "cleavage involved in rRNA processing" evidence=IMP

GO:0031118 "rRNA pseudouridine synthesis" evidence=IMP

GO:0031120 "snRNA pseudouridine synthesis" evidence=IMP;IDA

GO:0030515 "snoRNA binding" evidence=IDA

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0031429 "box H/ACA snoRNP complex" evidence=IPI

CGD|CAL0000123 NHP2 [Candida albicans (taxid:5476)]

 Score = 208 (78.3 bits), Expect = 6.7e-17, P = 6.7e-17
 Identities = 35/80 (43%), Positives = 59/80 (73%)

Query:    30 LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
             L +IAG+ISP DVI+H+P+LCE++ + YI++ SKEDL +AGATKRPT CV+++    K +
Sbjct:    76 LVIIAGDISPADVISHIPVLCEDNSVAYIFIPSKEDLGSAGATKRPTSCVMIVPGGGKSK 135

Query:    90 LGQEEQDKLKADYTLVVEDV 109
                ++ D+ +  +  +V+++
Sbjct:   136 KNADKTDEYRDGFDDIVKEI 155

GO:0031429 "box H/ACA snoRNP complex" evidence=IEA

GO:0034513 "box H/ACA snoRNA binding" evidence=IEA

GO:0031120 "snRNA pseudouridine synthesis" evidence=IEA

GO:0000469 "cleavage involved in rRNA processing" evidence=IEA

GO:0031118 "rRNA pseudouridine synthesis" evidence=IEA

POMBASE|SPAC1782.10c nhp2 "box H/ACA snoRNP complex subunit Nhp2" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 197 (74.4 bits), Expect = 9.8e-16, P = 9.8e-16
 Identities = 35/83 (42%), Positives = 58/83 (69%)

Query:    30 LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
             L ++AG+ISP+DVI+H+P+LCE++++PY+Y  SKE L  A  TKRPT CV+++    K +
Sbjct:    72 LVILAGDISPMDVISHIPVLCEDNNVPYLYTVSKELLGEASNTKRPTSCVMIVPGGKKKD 131

Query:    90 LGQEEQDKLKADYTLVVEDVKEL 112
             + + E+   K  Y  ++++V  L
Sbjct:   132 MSKVEE--YKESYEEIIKEVPAL 152

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

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

GO:0006364 "rRNA processing" evidence=ISO

GO:0019843 "rRNA binding" evidence=IC

GO:0030515 "snoRNA binding" evidence=ISS

GO:0031118 "rRNA pseudouridine synthesis" evidence=IGI;ISS

GO:0031120 "snRNA pseudouridine synthesis" evidence=IGI

GO:0031429 "box H/ACA snoRNP complex" evidence=IGI

GO:0034513 "box H/ACA snoRNA binding" evidence=IGI

ASPGD|ASPL0000056326 AN0695 [Emericella nidulans (taxid:162425)]

 Score = 185 (70.2 bits), Expect = 1.8e-14, P = 1.8e-14
 Identities = 36/83 (43%), Positives = 56/83 (67%)

Query:    32 VIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT-KGEL 90
             ++A +ISP+DVI+H+P+LCE+  IPY++V S+ +L NA ATKRPT   +V+ K   KG+ 
Sbjct:   135 ILAADISPMDVISHIPVLCEDHGIPYVFVTSRAELGNAAATKRPTSVAMVVPKSAAKGKK 194

Query:    91 GQEEQDKLKADYTLVVEDVKELA 113
                  D    D++ V E++ +LA
Sbjct:   195 KDANDDD--EDFSKVYEELVKLA 215

GO:0034513 "box H/ACA snoRNA binding" evidence=IEA

GO:0031429 "box H/ACA snoRNP complex" evidence=IEA

GO:0031120 "snRNA pseudouridine synthesis" evidence=IEA

GO:0031118 "rRNA pseudouridine synthesis" evidence=IEA

DICTYBASE|DDB_G0289699 nola2 "ribosomal protein L7Ae" [Dictyostelium discoideum (taxid:44689)]

 Score = 184 (69.8 bits), Expect = 2.3e-14, P = 2.3e-14
 Identities = 34/53 (64%), Positives = 42/53 (79%)

Query:    29 RLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLV 81
             R+C+IAG++SPIDVI+H+P+L EES I YIYV SKE L  A +TKRPT   LV
Sbjct:    68 RICIIAGDVSPIDVISHIPVLLEESGIKYIYVPSKESLGTASSTKRPTSIALV 120

GO:0005730 "nucleolus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA;ISS

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

GO:0000154 "rRNA modification" evidence=ISS

GO:0005840 "ribosome" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

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

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 34/74 (45%), Positives = 49/74 (66%)

Query:    30 LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE 89
             + +IAG+ +PI+V  H+P++CE++ IPY YV +K+DL  A  +KRPTCCVL+  KP   E
Sbjct:    84 IVLIAGDTTPIEVYCHLPVVCEDAKIPYCYVPAKQDLGEAAGSKRPTCCVLL--KPN--E 139

Query:    90 LGQEEQDKLKADYT 103
               Q   D+   D T
Sbjct:   140 SYQSSYDECLTDVT 153

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

GO:0030515 "snoRNA binding" evidence=ISS

GO:0031118 "rRNA pseudouridine synthesis" evidence=ISS

UNIPROTKB|G4N4M3 MGG_05999 "H/ACA ribonucleoprotein complex subunit 2" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 173 (66.0 bits), Expect = 3.4e-13, P = 3.4e-13
 Identities = 30/70 (42%), Positives = 51/70 (72%)

Query:    32 VIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELG 91
             +IAG+ISP +VI H+P+ CEE ++PY++V+S+ +L  A  TKRPT  V++L +  K E  
Sbjct:   155 IIAGDISPAEVIMHLPVYCEERNVPYLFVSSRAELGAAAKTKRPTSVVMLLAQGRKREAD 214

Query:    92 QEEQDKLKAD 101
             ++++D ++ D
Sbjct:   215 KKKKDVIEED 224

GO:0003674 "molecular_function" evidence=ND

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

 Score = 169 (64.5 bits), Expect = 9.1e-13, P = 9.1e-13
 Identities = 28/61 (45%), Positives = 45/61 (73%)

Query:    26 HECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 85
             +E  +C++AGN+SPIDV +H+P +CEE +IPY+Y+ S+E L  A   +RP+  +L+  KP
Sbjct:    83 NEKGICILAGNVSPIDVYSHIPAICEEKEIPYVYIPSREQLGLAVGHRRPS--ILIFVKP 140

Query:    86 T 86
             +
Sbjct:   141 S 141

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

GO:0030515 "snoRNA binding" evidence=ISS

GO:0031118 "rRNA pseudouridine synthesis" evidence=ISS

WB|WBGene00012964 Y48A6B.3 [Caenorhabditis elegans (taxid:6239)]

 Score = 169 (64.5 bits), Expect = 9.1e-13, P = 9.1e-13
 Identities = 33/82 (40%), Positives = 54/82 (65%)

Query:    26 HECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 85
             +E  +C++AGN+SPIDV +H+P +CEE +IPY+Y+ S+E L  A   +RP+  +L+  KP
Sbjct:    83 NEKGICILAGNVSPIDVYSHIPGICEEKEIPYVYIPSREQLGLAVGHRRPS--ILIFVKP 140

Query:    86 TKGELGQEEQDKLKADYTLVVE 107
             + G+  +   +  +A   L VE
Sbjct:   141 S-GDFKELYDEVAEALRHLTVE 161

GO:0003723 "RNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

---

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)
Q9LEY9	NHP2_ARATH	No assigned EC number	0.7272	0.7521	0.5641	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	eugene3.00081030	SubName- Full=Putative uncharacterized protein; (155 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	gw1.XVI.1402.1	hypothetical protein (482 aa)				•	•	•	•		0.735
	estExt_Genewise1_v1.C_LG_VII2715	hypothetical protein (380 aa)				•	•		•		0.730
	estExt_fgenesh4_pg.C_LG_VIII0110	SubName- Full=Putative uncharacterized protein; (65 aa)	•		•	•			•		0.725
	estExt_Genewise1_v1.C_LG_X3287	SubName- Full=Putative uncharacterized protein; (65 aa)	•		•	•			•		0.725
	estExt_fgenesh4_pm.C_LG_XVI0204	SubName- Full=Putative uncharacterized protein; (66 aa)	•		•	•			•		0.716
	estExt_fgenesh4_pg.C_LG_XV0629	hypothetical protein (314 aa)				•	•				0.709
	gw1.70.375.1	hypothetical protein (437 aa)			•	•			•		0.681
	gw1.XIII.1268.1	hypothetical protein (455 aa)			•	•			•		0.676
	gw1.VI.2308.1	hypothetical protein (550 aa)				•	•	•	•		0.674
	gw1.86.17.1	hypothetical protein (573 aa)				•	•				0.673

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	117
pfam01248	95	pfam01248, Ribosomal_L7Ae, Ribosomal protein L7Ae/	2e-14
PRK04175	122	PRK04175, rpl7ae, 50S ribosomal protein L7Ae; Vali	6e-12
COG1358	116	COG1358, RPL8A, Ribosomal protein HS6-type (S12/L3	8e-12
TIGR03677	117	TIGR03677, rpl7ae, 50S ribosomal protein L7Ae	3e-11
PTZ00222	263	PTZ00222, PTZ00222, 60S ribosomal protein L7a; Pro	5e-07
PTZ00365	266	PTZ00365, PTZ00365, 60S ribosomal protein L7Ae-lik	4e-05

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

 Score = 63.0 bits (154), Expect = 2e-14
 Identities = 18/57 (31%), Positives = 33/57 (57%)

Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT 83
          + +L +IA +  P + +  +P LC+E ++PY+YV SK++L  A    RP   + +  
Sbjct: 31 KAKLVIIAEDCDPEEKVKLLPALCKEKNVPYVYVPSKKELGEACGKPRPVSALAIKD 87

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 = 57.2 bits (139), Expect = 6e-12
 Identities = 21/43 (48%), Positives = 31/43 (72%)

Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA 69
            +L VIA ++ P +++ H+P+LCEE  IPY+YV SK+DL  A
Sbjct: 46 IAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKKDLGKA 88

Length = 122

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

 Score = 56.9 bits (138), Expect = 8e-12
 Identities = 27/71 (38%), Positives = 43/71 (60%), Gaps = 1/71 (1%)

Query: 30  LCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA-GATKRPTCCVLVLTKPTKG 88
           L VIA ++SP +++ H+P LCEE ++PY+YV SK++L  A G   R    ++      K 
Sbjct: 46  LVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSKKELGKAVGKEVRKVVAIVDKGFAKKL 105

Query: 89  ELGQEEQDKLK 99
           E   E+ ++LK
Sbjct: 106 EDLVEKVEELK 116

Length = 116

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

 Score = 55.5 bits (134), Expect = 3e-11
 Identities = 27/84 (32%), Positives = 42/84 (50%), Gaps = 11/84 (13%)

Query: 29  RLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKG 88
           +L VIA ++ P +++ H+P LCEE  IPYIYV +KEDL  A   +       ++      
Sbjct: 44  KLVVIAEDVEPPEIVAHLPALCEEKGIPYIYVKTKEDLGAAAGLEVGAAAAAIV------ 97

Query: 89  ELGQEEQDKLKADYTLVVEDVKEL 112
                +  K +     +VE V+ L
Sbjct: 98  -----DAGKAEELLKEIVEKVEAL 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|140249 PTZ00222, PTZ00222, 60S ribosomal protein L7a; Provisional

 Score = 46.2 bits (109), Expect = 5e-07
 Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 7/73 (9%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
           + R+ VIA N+ P++++  +P LC  + IPY  V     L +A   K  TC  +      
Sbjct: 148 QARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRKTATCVAIT----- 202

Query: 87  KGELGQEEQDKLK 99
             ++  E++  LK
Sbjct: 203 --DVNAEDEAALK 213

Length = 263

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

 Score = 40.6 bits (95), Expect = 4e-05
 Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 4/84 (4%)

Query: 29  RLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKG 88
           +L VIA ++ PI+++  +P LC + ++PY  +  K  L      K  T  V+ +    K 
Sbjct: 150 KLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQK--TAAVVAIDNVRKE 207

Query: 89  ELGQEEQDKLKADYTLVVEDVKEL 112
           +  Q E D L  ++  +  D  EL
Sbjct: 208 D--QAEFDNLCKNFRAMFNDNSEL 229

Length = 266

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	117
PRK13600	84	putative ribosomal protein L7Ae-like; Provisional	99.92
KOG3167	153	consensus Box H/ACA snoRNP component, involved in	99.91
TIGR03677	117	rpl7ae 50S ribosomal protein L7Ae. Multifunctional	99.9
PRK04175	122	rpl7ae 50S ribosomal protein L7Ae; Validated	99.89
PRK13601	82	putative L7Ae-like ribosomal protein; Provisional	99.88
PRK06683	82	hypothetical protein; Provisional	99.88
PRK13602	82	putative ribosomal protein L7Ae-like; Provisional	99.87
COG1358	116	RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Tr	99.84
PRK01018	99	50S ribosomal protein L30e; Reviewed	99.83
PTZ00106	108	60S ribosomal protein L30; Provisional	99.8
PTZ00222	263	60S ribosomal protein L7a; Provisional	99.79
PF01248	95	Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/G	99.79
PRK07714	100	hypothetical protein; Provisional	99.78
PTZ00365	266	60S ribosomal protein L7Ae-like; Provisional	99.77
PRK07283	98	hypothetical protein; Provisional	99.76
PRK05583	104	ribosomal protein L7Ae family protein; Provisional	99.7
KOG3387	131	consensus 60S ribosomal protein 15.5kD/SNU13, NHP2	99.56
PRK09190	220	hypothetical protein; Provisional	99.56
COG1911	100	RPL30 Ribosomal protein L30E [Translation, ribosom	99.28
KOG3406	134	consensus 40S ribosomal protein S12 [Translation,	99.04
KOG2988	112	consensus 60S ribosomal protein L30 [Translation,	98.13
KOG3166	209	consensus 60S ribosomal protein L7A [Translation,	97.73
PF08228	158	RNase_P_pop3: RNase P subunit Pop3; InterPro: IPR0	96.35
PF08032	76	SpoU_sub_bind: RNA 2'-O ribose methyltransferase s	95.29
PF15608	100	PELOTA_1: PELOTA RNA binding domain	94.08
PF03465	113	eRF1_3: eRF1 domain 3; InterPro: IPR005142 This do	93.97
PF10087	97	DUF2325: Uncharacterized protein conserved in bact	89.51
PRK05562	223	precorrin-2 dehydrogenase; Provisional	88.98
PRK04011	411	peptide chain release factor 1; Provisional	88.34
TIGR03676	403	aRF1/eRF1 peptide chain release factor 1, archaeal	86.14
TIGR00111	351	pelota probable translation factor pelota. This mo	86.03
TIGR00108	409	eRF peptide chain release factor eRF/aRF, subunit	85.63
PLN02821	460	1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate red	82.59
PF13727	175	CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.	81.81
PRK05234	142	mgsA methylglyoxal synthase; Validated	81.21
PRK13371	387	4-hydroxy-3-methylbut-2-enyl diphosphate reductase	81.04
TIGR01470	205	cysG_Nterm siroheme synthase, N-terminal domain. T	80.75
TIGR00186	237	rRNA_methyl_3 rRNA methylase, putative, group 3. t	80.7

>PRK13600 putative ribosomal protein L7Ae-like; Provisional

Probab=99.92  E-value=3e-25  Score=151.06  Aligned_cols=69  Identities=19%  Similarity=0.235  Sum_probs=66.9

Q ss_pred             eeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEe
Q 033552           13 CVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL   82 (117)
Q Consensus        13 ~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~   82 (117)
                      ++|+|||+++|++|++++||||.|++|. ++.|++.+|+++||||+|++||++||+|||+++++++++|.
T Consensus        15 vvG~kqt~Kai~kg~~~~v~iA~Da~~~-vv~~l~~lceek~Ip~v~V~s~~~LGkAcgi~V~aa~aai~   83 (84)
T PRK13600         15 VVGLKETLKALKKDQVTSLIIAEDVEVY-LMTRVLSQINQKNIPVSFFKSKHALGKHVGINVNATIVALI   83 (84)
T ss_pred             eeeHHHHHHHHhcCCceEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCcCeEEEEEe
Confidence            9999999999999999999999999995 89999999999999999999999999999999999999885

>KOG3167 consensus Box H/ACA snoRNP component, involved in ribosomal RNA pseudouridinylation [RNA processing and modification]

Probab=99.91  E-value=1.8e-24  Score=159.00  Aligned_cols=92  Identities=49%  Similarity=0.820  Sum_probs=87.3

Q ss_pred             eeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCccchH
Q 033552           14 VGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQE   93 (117)
Q Consensus        14 vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~~~~~   93 (117)
                      -|+|.+.+.+++|+.+|+|||+|++|+++++|||.+||++||||++++|+++||+|.|.+||++|++|..+         
T Consensus        62 rGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~psk~dlg~A~~~krpt~~v~v~p~---------  132 (153)
T KOG3167|consen   62 RGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYVYTPSKEDLGAAGGTKRPTCCVFVKPG---------  132 (153)
T ss_pred             HHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCccccccHHHHHHhcCCCCCceEEEEeeC---------
Confidence            38999999999999999999999999999999999999999999999999999999999999999999873         


Q ss_pred             HHHhhHHHHHHHHHHHHhhhccC
Q 033552           94 EQDKLKADYTLVVEDVKELASSL  116 (117)
Q Consensus        94 e~~~~~~~~~e~~~~~~~l~~~~  116 (117)
                        .+|++.|+|+.++++.|+.+.
T Consensus       133 --~eyke~ydev~eel~~l~~~~  153 (153)
T KOG3167|consen  133 --GEYKELYDEVLEELEALAVEV  153 (153)
T ss_pred             --hhHHHHHHHHHHHHHhhccCC
Confidence              389999999999999998764

>TIGR03677 rpl7ae 50S ribosomal protein L7Ae

Probab=99.90  E-value=7.8e-24  Score=150.90  Aligned_cols=91  Identities=27%  Similarity=0.445  Sum_probs=80.8

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCcc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGEL   90 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~~   90 (117)
                      +-+.|.+|++++|++|+++|||||+|++|.++.++++.+|++++|||++++||++||+|||+++++++++|++.++    
T Consensus        26 kl~~G~~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~~~~sk~eLG~a~Gk~~~~svvaI~d~g~----  101 (117)
T TIGR03677        26 KIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYVYVKKKEDLGAAAGLEVGAASAAIVDEGK----  101 (117)
T ss_pred             CEeEcHHHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCCCeEEEEEEchhh----
Confidence            4578999999999999999999999999977899999999999999999999999999999988999999997444    


Q ss_pred             chHHHHhhHHHHHHHHHHHHhh
Q 033552           91 GQEEQDKLKADYTLVVEDVKEL  112 (117)
Q Consensus        91 ~~~e~~~~~~~~~e~~~~~~~l  112 (117)
                             .+..++++.++++.|
T Consensus       102 -------a~~~~~~~~~~i~~~  116 (117)
T TIGR03677       102 -------AEELLKEIIEKVEAL  116 (117)
T ss_pred             -------hHHHHHHHHHHHHhc
Confidence                   344677777777665

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.

>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated

Probab=99.89  E-value=2.1e-23  Score=149.84  Aligned_cols=91  Identities=31%  Similarity=0.483  Sum_probs=79.1

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCcc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGEL   90 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~~   90 (117)
                      +=+.|.+|++++|++|+++|||||+|++|.+++++++.+|++++|||++++||++||+|||+++++++++|++.++    
T Consensus        30 klv~G~~~v~kaikkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk~eLG~a~Gk~~~~svvaI~d~g~----  105 (122)
T PRK04175         30 KIKKGTNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKKDLGKAAGLEVGAAAAAIVDAGK----  105 (122)
T ss_pred             CEeEcHHHHHHHHHcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCeEEEEEechhh----
Confidence            3468999999999999999999999999987889999999999999999999999999999998899999997444    


Q ss_pred             chHHHHhhHHHHHHHHHHHHhh
Q 033552           91 GQEEQDKLKADYTLVVEDVKEL  112 (117)
Q Consensus        91 ~~~e~~~~~~~~~e~~~~~~~l  112 (117)
                             .+..++++.+.++.|
T Consensus       106 -------a~~~~~~~~~~i~~~  120 (122)
T PRK04175        106 -------AKELVEDIVEKVNEL  120 (122)
T ss_pred             -------hHHHHHHHHHHHHHh
Confidence                   334566666666554

>PRK13601 putative L7Ae-like ribosomal protein; Provisional

Probab=99.88  E-value=5.6e-23  Score=139.12  Aligned_cols=78  Identities=17%  Similarity=0.201  Sum_probs=73.3

Q ss_pred             CCCCccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeec
Q 033552            6 DNLHSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTK   84 (117)
Q Consensus         6 ~~~~~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~   84 (117)
                      +.+..+-++|.+||+++|++|+++|||||+|++| +++++|+++|++++|||++++||+|||+|||+++++++++|+-+
T Consensus         3 ~~~~GKlv~G~~~vlkaIk~gkakLViiA~Da~~-~~~k~i~~~c~~~~Vpv~~~~t~~eLG~A~G~~v~aa~~~~~~~   80 (82)
T PRK13601          3 QDCPSKRVVGAKQTLKAITNCNVLQVYIAKDAEE-HVTKKIKELCEEKSIKIVYIDTMKELGVMCGIDVGAAAAADIIG   80 (82)
T ss_pred             cccCccEEEchHHHHHHHHcCCeeEEEEeCCCCH-HHHHHHHHHHHhCCCCEEEeCCHHHHHHHHCCccCeeeEEEeec
Confidence            5567788999999999999999999999999998 68999999999999999999999999999999999999998753

>PRK06683 hypothetical protein; Provisional

Probab=99.88  E-value=6.1e-23  Score=138.69  Aligned_cols=71  Identities=14%  Similarity=0.085  Sum_probs=68.0

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEe
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL   82 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~   82 (117)
                      +.++|.+||+++|++|++++||||+|++| ++.++|.++|++++|||++++||+|||+|||+++++++++|.
T Consensus        11 k~v~G~~~v~kaik~gkaklViiA~Da~~-~~~~~i~~~~~~~~Vpv~~~~t~~eLG~A~G~~~~~a~~ai~   81 (82)
T PRK06683         11 NVVVGHKRTLEAIKNGIVKEVVIAEDADM-RLTHVIIRTALQHNIPITKVESVRKLGKVAGIQVGASAIGII   81 (82)
T ss_pred             CEEEcHHHHHHHHHcCCeeEEEEECCCCH-HHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCcccEEEEEEe
Confidence            45999999999999999999999999999 479999999999999999999999999999999999999986

>PRK13602 putative ribosomal protein L7Ae-like; Provisional

Probab=99.87  E-value=2.3e-22  Score=135.64  Aligned_cols=71  Identities=20%  Similarity=0.243  Sum_probs=67.8

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEe
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL   82 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~   82 (117)
                      +-++|.+||+++|++|++++||||+|++| .+.++|+.+|++++|||++++|++|||+|||+++++++++|+
T Consensus        11 kl~~G~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~Vp~~~~~s~~eLG~a~G~~~~~a~~ai~   81 (82)
T PRK13602         11 SIVIGTKQTVKALKRGSVKEVVVAEDADP-RLTEKVEALANEKGVPVSKVDSMKKLGKACGIEVGAAAVAII   81 (82)
T ss_pred             CEEEcHHHHHHHHHcCCeeEEEEECCCCH-HHHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCcCEEEEEEe
Confidence            34899999999999999999999999999 589999999999999999999999999999999999999985

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

Probab=99.84  E-value=3.1e-21  Score=138.06  Aligned_cols=76  Identities=30%  Similarity=0.497  Sum_probs=67.9

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCC
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT   86 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~   86 (117)
                      .+=..|+++++++|++|+++|||||+|++|.+++.|+|.+|+++||||++++||++||+|||++. +.++++.+.++
T Consensus        26 ~ki~~G~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V~sk~~LG~a~g~~~-~~vv~i~~~~~  101 (116)
T COG1358          26 GKLKKGTNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVGSKKELGKAVGKEV-RKVVAIVDKGF  101 (116)
T ss_pred             CCchhhHHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCc-ceeEEEeehhh
Confidence            34568999999999999999999999999989999999999999999999999999999999984 45566666444

>PRK01018 50S ribosomal protein L30e; Reviewed

Probab=99.83  E-value=1e-20  Score=131.26  Aligned_cols=77  Identities=13%  Similarity=0.166  Sum_probs=69.9

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEE-CCHhHHHhhcCCCcceEEEEEeecCCC
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYV-ASKEDLANAGATKRPTCCVLVLTKPTK   87 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v-~tK~eLG~A~G~~~~~svv~I~~~~~~   87 (117)
                      .+-++|.+||+++|++|+++|||||+|+++ ++.++++.+|++++||++.+ +||+|||+|||+++++++++|++.++.
T Consensus        15 gkl~~G~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~~~vaI~D~G~a   92 (99)
T PRK01018         15 GKVILGSKRTIKAIKLGKAKLVIVASNCPK-DIKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTVSALAIVDPGES   92 (99)
T ss_pred             CCEEEcHHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCEEEEEEecCCHH
Confidence            356899999999999999999999999987 68999999999999998665 899999999999977899999986653

>PTZ00106 60S ribosomal protein L30; Provisional

Probab=99.80  E-value=8.5e-20  Score=128.95  Aligned_cols=77  Identities=13%  Similarity=0.086  Sum_probs=70.0

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEE-ECCHhHHHhhcCCCcceEEEEEeecCCCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIY-VASKEDLANAGATKRPTCCVLVLTKPTKG   88 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~-v~tK~eLG~A~G~~~~~svv~I~~~~~~~   88 (117)
                      +-++|.+||+++|++|++++||||+|+++ ++.++|..+|++++||++. .+|++|||+|||++.++++++|++.++..
T Consensus        25 Klv~G~~~vlkalk~gkaklViiA~D~~~-~~kkki~~~~~~~~Vpv~~~~~t~~eLG~A~Gk~~r~svvaI~D~G~a~  102 (108)
T PTZ00106         25 KYTLGTKSTLKALRNGKAKLVIISNNCPP-IRRSEIEYYAMLSKTGVHHYAGNNNDLGTACGRHFRVSVMSITDAGDSD  102 (108)
T ss_pred             CeeecHHHHHHHHHcCCeeEEEEeCCCCH-HHHHHHHHHHhhcCCCEEEeCCCHHHHHHHhCCccCeEEEEEeCcchHH
Confidence            45899999999999999999999999998 4799999999999999985 69999999999999778899999866643

>PTZ00222 60S ribosomal protein L7a; Provisional

Probab=99.79  E-value=1.4e-19  Score=144.25  Aligned_cols=73  Identities=26%  Similarity=0.499  Sum_probs=66.9

Q ss_pred             eeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCC
Q 033552           13 CVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT   86 (117)
Q Consensus        13 ~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~   86 (117)
                      +-|...++++|++|+++|||||+|+||++++.||+.+|++++|||++++||++||+|+|++ .+++++|++.+.
T Consensus       134 vsG~n~VtkaIekkKAkLVIIA~DVsPie~vk~LpaLCrk~~VPY~iVktKaeLG~AIGkK-travVAItD~g~  206 (263)
T PTZ00222        134 VTGLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRK-TATCVAITDVNA  206 (263)
T ss_pred             ccCHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHHCCC-CCeEEEEeeCCc
Confidence            5699999999999999999999999999988999999999999999999999999999997 466788887443

>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=99.79  E-value=1.2e-19  Score=122.94  Aligned_cols=76  Identities=32%  Similarity=0.527  Sum_probs=70.0

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT   86 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~   86 (117)
                      .=++|++++.++|++|++++||+|+|++|.....|++.+|++++|||++++||++||++||+++++++++|++.++
T Consensus        15 ~lv~G~~~v~k~l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~s~~eLG~~~g~~~~~~~~~i~d~~~   90 (95)
T PF01248_consen   15 RLVKGIKEVLKALKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVPSKEELGRACGKKRPVSALAIKDAGD   90 (95)
T ss_dssp             EEEESHHHHHHHHHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEESHHHHHHHHTTSSSTSSEEEEEESTT
T ss_pred             CEEEchHHHHHHHHcCCCcEEEEcCCCChhhhcccchhheeccceeEEEECCHHHHHHHHCCCCcEEEEEEECccc
Confidence            3578999999999999999999999999987667799999999999999999999999999998899999988554

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 ....

>PRK07714 hypothetical protein; Provisional

Probab=99.78  E-value=3e-19  Score=123.69  Aligned_cols=75  Identities=15%  Similarity=0.112  Sum_probs=68.7

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTK   87 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~   87 (117)
                      +-++|.++++++|++|++++||+|+|++|. ..+++..+|+.++|||++++|++|||+|||++ ++++++|+++++.
T Consensus        18 k~v~G~~~v~~al~~g~~~lViiA~D~s~~-~~~ki~~~~~~~~vp~~~~~sk~eLG~a~Gk~-~~~~vai~d~g~a   92 (100)
T PRK07714         18 KVISGEELVLKEVRSGKAKLVLLSEDASVN-TTKKITDKCTYYNVPMRKVENRQQLGHAIGKD-ERVVVAVLDEGFA   92 (100)
T ss_pred             CeeecHHHHHHHHHhCCceEEEEeCCCCHH-HHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCC-cceEEEEeCchhH
Confidence            458899999999999999999999999994 79999999999999999999999999999998 5668999886663

>PTZ00365 60S ribosomal protein L7Ae-like; Provisional

Probab=99.77  E-value=7.3e-19  Score=140.33  Aligned_cols=69  Identities=23%  Similarity=0.487  Sum_probs=65.3

Q ss_pred             eeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEee
Q 033552           14 VGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT   83 (117)
Q Consensus        14 vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~   83 (117)
                      -|++.++++|++|+++|||||+|+||++++.++|++|++++|||++++||++||+|+|++ ++++++|++
T Consensus       135 ~Gin~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~~VPY~iv~sK~eLG~AIGkk-traVVAItd  203 (266)
T PTZ00365        135 YGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQK-TAAVVAIDN  203 (266)
T ss_pred             hhhHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhccCCCEEEECCHHHHHHHhCCC-CceEEEecc
Confidence            599999999999999999999999999999999999999999999999999999999996 677888876

>PRK07283 hypothetical protein; Provisional

Probab=99.76  E-value=1.1e-18  Score=120.90  Aligned_cols=74  Identities=14%  Similarity=0.029  Sum_probs=67.2

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTK   87 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~   87 (117)
                      +=++|.+||+++|++|++++||+|+|++| +..+++.++|++++||++.++|++|||+|||++  +++++|++.+++
T Consensus        18 klv~G~~~v~~aik~gk~~lVi~A~Das~-~~~kk~~~~~~~~~Vp~~~~~t~~eLG~a~Gk~--~~vvai~d~g~a   91 (98)
T PRK07283         18 RIISGEELVVKAIQSGQAKLVFLANDAGP-NLTKKVTDKSNYYQVEVSTVFSTLELSAAVGKP--RKVLAVTDAGFS   91 (98)
T ss_pred             CeeEcHHHHHHHHHcCCccEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCC--ceEEEEeChhHH
Confidence            34789999999999999999999999999 579999999999999999999999999999985  567899886653

>PRK05583 ribosomal protein L7Ae family protein; Provisional

Probab=99.70  E-value=3.1e-17  Score=115.07  Aligned_cols=73  Identities=25%  Similarity=0.223  Sum_probs=67.7

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCC
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT   86 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~   86 (117)
                      =+.|..+++++|++|+++|||+|+|++| +..++|..+|+.++||++..+|++|||.|||++ .+++++|+++++
T Consensus        18 lv~G~~~v~~aik~gk~~lVI~A~D~s~-~~kkki~~~~~~~~vp~~~~~t~~eLg~a~Gk~-~~~~iai~d~g~   90 (104)
T PRK05583         18 LLEGYNKCEEAIKKKKVYLIIISNDISE-NSKNKFKNYCNKYNIPYIEGYSKEELGNAIGRD-EIKILGVKDKNM   90 (104)
T ss_pred             eeecHHHHHHHHHcCCceEEEEeCCCCH-hHHHHHHHHHHHcCCCEEEecCHHHHHHHhCCC-CeEEEEEeChHH
Confidence            3679999999999999999999999999 569999999999999999999999999999997 489999998655

>KOG3387 consensus 60S ribosomal protein 15

Probab=99.56  E-value=7.8e-15  Score=106.50  Aligned_cols=78  Identities=26%  Similarity=0.462  Sum_probs=71.4

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcC---CCcceEEEEEeecCCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGA---TKRPTCCVLVLTKPTK   87 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G---~~~~~svv~I~~~~~~   87 (117)
                      +...|.+-+.+++.+|...+|++|.|+.|..+..|+|.+|+.+||||+||+++..||.+||   ..+++.++.|+....+
T Consensus        34 ql~kg~NEaTk~Lnrgi~~~Vv~aaD~kP~eIt~HLp~LcedknVp~v~Vpsk~alG~~cg~~~~~r~~~a~~i~~~~~~  113 (131)
T KOG3387|consen   34 QLKKGANEATKTLNRGISEFVVMAADVKPLEITLHLPLLCEDKNVPYVFVPSKQALGLACGELVVLRPVIACSITTNEAS  113 (131)
T ss_pred             HHhcccchHhhhhccCceeEEEEEccCCHHHHHHHhHHHhhccCCceEEeeccHHhhhhhhhHhhcCcceeEEEEecccc
Confidence            4457888899999999999999999999999999999999999999999999999999999   8899988999875554


Q ss_pred             C
Q 033552           88 G   88 (117)
Q Consensus        88 ~   88 (117)
                      .
T Consensus       114 ~  114 (131)
T KOG3387|consen  114 I  114 (131)
T ss_pred             c
Confidence            3

5kD/SNU13, NHP2/L7A family (includes ribonuclease P subunit p38), involved in splicing [RNA processing and modification; Translation, ribosomal structure and biogenesis]

>PRK09190 hypothetical protein; Provisional

Probab=99.56  E-value=4.2e-15  Score=116.35  Aligned_cols=90  Identities=12%  Similarity=-0.004  Sum_probs=78.8

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhh------CCCCEEEECCHhHHHhhcCCCcceEEEEEeec
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEE------SDIPYIYVASKEDLANAGATKRPTCCVLVLTK   84 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~------~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~   84 (117)
                      +=+.|.-++.++|++|++.|||+|+|+|+. ..++|..+|+.      ++|||+..+|++|||.|+|++ ++++++|+++
T Consensus       111 klVsG~~~V~~alk~gk~~Lvi~A~DaS~~-t~kKl~~~~~~~~~~~~~~Vp~v~~~tk~eLg~AlGr~-~~~~vav~d~  188 (220)
T PRK09190        111 QVVSGFEKVDAALRSGEAAALIHASDGAAD-GKRKLDQARRALVHETGREIPVIGLFTAAELGLAFGRE-NVIHAALLAG  188 (220)
T ss_pred             CEeecHHHHHHHHHcCCceEEEEeccCChh-HHHHHHHHHHhhcccccCCccEEEecCHHHHHHHhCCC-ceeEEEEcCh
Confidence            346799999999999999999999999995 69999999999      999999999999999999997 6888999998


Q ss_pred             CCCCccchHHHHhhHHHHH
Q 033552           85 PTKGELGQEEQDKLKADYT  103 (117)
Q Consensus        85 ~~~~~~~~~e~~~~~~~~~  103 (117)
                      ++... ..++.++|..+-+
T Consensus       189 gfA~~-l~~~~~rl~~~~~  206 (220)
T PRK09190        189 GAAER-VVKRAQRLAGYRG  206 (220)
T ss_pred             HHHHH-HHHHHHHHHhhhc
Confidence            87664 5677788877543

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

Probab=99.28  E-value=6.2e-12  Score=87.81  Aligned_cols=76  Identities=14%  Similarity=0.194  Sum_probs=67.4

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEEC-CHhHHHhhcCCCcceEEEEEeecCCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVA-SKEDLANAGATKRPTCCVLVLTKPTK   87 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~-tK~eLG~A~G~~~~~svv~I~~~~~~   87 (117)
                      +-++|.|+|+++++.|++++||||+++-+ ++.+.|.-.++=.+||+.+.. |..|||.+||+.-.+++++|++.+.+
T Consensus        19 kvilG~k~tiK~lk~gkaKliiiAsN~P~-~~k~~ieyYAkLs~ipV~~y~Gt~~eLG~~cgkpf~v~~laIiD~G~S   95 (100)
T COG1911          19 KVILGSKRTIKSLKLGKAKLIIIASNCPK-ELKEDIEYYAKLSDIPVYVYEGTSVELGTVCGKPFRVAALAIIDEGDS   95 (100)
T ss_pred             CEEEehHHHHHHHHcCCCcEEEEecCCCH-HHHHHHHHHHHHcCCcEEEecCCceeHHhhhCCCceEEEEEEecCchh
Confidence            45789999999999999999999999987 689999888888899987665 99999999999988999999985553

>KOG3406 consensus 40S ribosomal protein S12 [Translation, ribosomal structure and biogenesis]

Probab=99.04  E-value=4.7e-10  Score=81.73  Aligned_cols=76  Identities=26%  Similarity=0.344  Sum_probs=66.3

Q ss_pred             CccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCC-----------cceE
Q 033552            9 HSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATK-----------RPTC   77 (117)
Q Consensus         9 ~~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~-----------~~~s   77 (117)
                      |..-.=|++.+-|+|.+.++.||++|+|+++..+++-+..||.+++||++.+++..+||.++|..           .+.|
T Consensus        32 ~dGlarGi~Ea~KaldkrqA~lcvLaencdep~yvKLVeALcaeh~iplikV~d~k~LGew~Glckid~eGnarKvvGcs  111 (134)
T KOG3406|consen   32 HDGLARGIHEAAKALDKRQAHLCVLAENCDEPMYVKLVEALCAEHQIPLIKVGDAKELGEWAGLCKIDSEGNARKVVGCS  111 (134)
T ss_pred             hchHHhHHHHHHHHHhhCceeEEEEeccCCchHHHHHHHHHHhhcCCCeEEeccchhhhhhhceeeecCCCCeeEeecce
Confidence            34445689999999999999999999998876899999999999999999999999999998853           2677


Q ss_pred             EEEEeec
Q 033552           78 CVLVLTK   84 (117)
Q Consensus        78 vv~I~~~   84 (117)
                      ++++++-
T Consensus       112 ~vvVkd~  118 (134)
T KOG3406|consen  112 CVVVKDY  118 (134)
T ss_pred             EEEEeec
Confidence            8888863

>KOG2988 consensus 60S ribosomal protein L30 [Translation, ribosomal structure and biogenesis]

Probab=98.13  E-value=4.9e-06  Score=59.35  Aligned_cols=76  Identities=11%  Similarity=0.090  Sum_probs=60.1

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEE-ECCHhHHHhhcCCCcceEEEEEeecCC
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIY-VASKEDLANAGATKRPTCCVLVLTKPT   86 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~-v~tK~eLG~A~G~~~~~svv~I~~~~~   86 (117)
                      ++-+.|-|||++.+|.|+++|+++|+++-|-. .+.|.-.+--.+.+|.+ -++-.+||.+||+--..+|..|++-+.
T Consensus        25 gkY~lgyK~T~k~~r~gkakL~~is~n~p~lr-ks~ieyyamlak~~v~~~sg~n~~lgt~~g~~fRv~v~~ivd~gd  101 (112)
T KOG2988|consen   25 GKYILGYKQTLKSLRQGKAKLIIISSNCPPLR-KSEIEYYAMLAKTGVHHYSGNNVELGTACGKTFRVSVLSIVDLGD  101 (112)
T ss_pred             cceeechHHHHHHHHhccceEEEeecCCCCcc-hhHHHHHHHHhcCceeeecCCcEeHHHHhcCeeEeeEEEEEeccc
Confidence            46789999999999999999999999999843 55555554444455554 458889999999987788889887444

>KOG3166 consensus 60S ribosomal protein L7A [Translation, ribosomal structure and biogenesis]

Probab=97.73  E-value=1.9e-05  Score=61.83  Aligned_cols=81  Identities=22%  Similarity=0.377  Sum_probs=56.6

Q ss_pred             eeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCC---cc
Q 033552           14 VGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKG---EL   90 (117)
Q Consensus        14 vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~---~~   90 (117)
                      .|+.-+...+++.++.||++|.|++|++++.++|.+|..+     ++..+       ..+ .++++++....+.+   .+
T Consensus       112 ~gvnTVttLVenKKAQLVV~ahDvDPIELVvFLPaLC~km-----ivk~~-------~~k-T~t~~a~v~~edk~~l~kl  178 (209)
T KOG3166|consen  112 AGVNTVTTLVENKKAQLVVTAHDVDPIELVVFLPALCRKM-----IVKGK-------HRK-TCTTVAFVNSEDKGALAKL  178 (209)
T ss_pred             cCcceEeehhhccccceeEEecccCchhheeecHHhhhhh-----ccccc-------ccc-eeeeeeeechhhHHHHHHH
Confidence            4777788889999999999999999999999999999988     33333       333 34445553322233   22


Q ss_pred             chHHHHhhHHHHHHHHH
Q 033552           91 GQEEQDKLKADYTLVVE  107 (117)
Q Consensus        91 ~~~e~~~~~~~~~e~~~  107 (117)
                      ...-...|.+-|||+.+
T Consensus       179 ~e~i~tn~ndrydei~~  195 (209)
T KOG3166|consen  179 VEAIRTNYNDRYDEICR  195 (209)
T ss_pred             HHHHhcccccchhhhhh
Confidence            23335578888888754

>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=96.35  E-value=0.0059  Score=45.99  Aligned_cols=74  Identities=15%  Similarity=0.090  Sum_probs=58.7

Q ss_pred             ccceeeeecchhhhhcCCc--cEEEEeCCCCCcchheeHHHHhhhCC--CCEEEEC--CHhHHHhhcCCCcceEEEEEee
Q 033552           10 SFNCVGVVNDPLPLLFHEC--RLCVIAGNISPIDVITHVPILCEESD--IPYIYVA--SKEDLANAGATKRPTCCVLVLT   83 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~--~LViLA~Dasp~~i~~~i~~lce~~~--IP~i~v~--tK~eLG~A~G~~~~~svv~I~~   83 (117)
                      ..=.+|+..+.+.|.....  .+||++..-.|.-+..|||.+|.-.+  |..+..+  +.+.|+.++|.. .+++++|..
T Consensus        54 ~~v~~GfNsi~~~Le~~~~~~~~vFVcr~D~ps~L~~h~P~Lva~as~~vrLV~Lpkgs~~rLs~aLgi~-r~g~l~v~~  132 (158)
T PF08228_consen   54 WGVTVGFNSIVRYLECQASDNVYVFVCRSDQPSILTSHFPQLVATASKSVRLVQLPKGSEARLSEALGIP-RVGILAVRA  132 (158)
T ss_pred             ccEEEehHHHHHHHhcccCCCeEEEEECCCCcHHHHHHHHHHHHhccCcceEEeCChhHHHHHHHHhCCC-CccEEEEec
Confidence            4458999999999994332  36677655477678999999999988  8888876  788999999997 577888876


Q ss_pred             c
Q 033552           84 K   84 (117)
Q Consensus        84 ~   84 (117)
                      +
T Consensus       133 ~  133 (158)
T PF08228_consen  133 D  133 (158)
T ss_pred             C
Confidence            3

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.

>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=95.29  E-value=0.045  Score=34.66  Aligned_cols=69  Identities=19%  Similarity=0.121  Sum_probs=50.5

Q ss_pred             eeeeecchhhhhcCC-ccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEee
Q 033552           13 CVGVVNDPLPLLFHE-CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT   83 (117)
Q Consensus        13 ~vG~kqt~kaL~kg~-~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~   83 (117)
                      +-|.+-+..+|+.+. ..-|++..+..... ...+..+|...++|+..+ +++.|.+.++...+-.++++..
T Consensus         2 ieG~~~V~eaL~~~~~i~~l~~~~~~~~~~-~~~i~~~~~~~~i~v~~v-~~~~l~~ls~~~~hQGv~a~v~   71 (76)
T PF08032_consen    2 IEGRHAVEEALKSGPRIKKLFVTEEKADKR-IKEILKLAKKKGIPVYEV-SKKVLDKLSDTENHQGVVAVVK   71 (76)
T ss_dssp             EESHHHHHHHHHCTGGEEEEEEETT---CC-THHHHHHHHHCT-EEEEE--HHHHHHCTTTSS-TTEEEEEE
T ss_pred             EEEHHHHHHHHcCCCCccEEEEEcCccchh-HHHHHHHHHHcCCeEEEe-CHHHHHHHcCCCCCCeEEEEEe
Confidence            347788889999986 88889998833222 678899999999999888 5667999998776666666655

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.

>PF15608 PELOTA_1: PELOTA RNA binding domain

Probab=94.08  E-value=0.07  Score=37.56  Aligned_cols=47  Identities=21%  Similarity=0.280  Sum_probs=41.6

Q ss_pred             eeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCH
Q 033552           15 GVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASK   63 (117)
Q Consensus        15 G~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK   63 (117)
                      |+--|.+.|-+...-.|++-...+| + ..||..||+++|||+..++++
T Consensus        43 GIgEaTRvLLRRvP~~vLVr~~~~p-d-~~Hl~~LA~ekgVpVe~~~d~   89 (100)
T PF15608_consen   43 GIGEATRVLLRRVPWKVLVRDPDDP-D-LAHLLLLAEEKGVPVEVYPDL   89 (100)
T ss_pred             ChhHHHHHHHhcCCCEEEECCCCCc-c-HHHHHHHHHHcCCcEEEeCCC
Confidence            6777888898888889999877777 5 899999999999999999886

>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=93.97  E-value=0.04  Score=38.73  Aligned_cols=60  Identities=13%  Similarity=0.128  Sum_probs=50.6

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcc------------------hheeHHHHhhhCCCCEEEECCHhHHHhhc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPID------------------VITHVPILCEESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~------------------i~~~i~~lce~~~IP~i~v~tK~eLG~A~   70 (117)
                      .-+.|.++|.+|++.|.+..++|..|..-..                  ++..+...+++.|.-+.++++..+-|.-+
T Consensus        21 ~~~yG~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~~~a~~~g~~v~iis~~~e~G~~L   98 (113)
T PF03465_consen   21 LAVYGIEEVKKALEMGAVETLLISDDLFRSRDVERCKCPECGGELEVVELIEELIELAEQSGAKVEIISSEHEEGEQL   98 (113)
T ss_dssp             SEEESHHHHHHHHHTT-EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHHHHHHHTTSEEEEE-TTSHHHHHH
T ss_pred             cEEECHHHHHHHHHhCCCcEEEEecccccccceeccccccccchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHH
Confidence            4588999999999999999999999877432                  36788899999999999999999888766

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 ....

>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=89.51  E-value=0.83  Score=30.70  Aligned_cols=36  Identities=19%  Similarity=0.304  Sum_probs=31.8

Q ss_pred             CccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECC
Q 033552           27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVAS   62 (117)
Q Consensus        27 ~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~t   62 (117)
                      ++-+||+-.|.-.-+....+...|+.+++|+++..+
T Consensus        48 ~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~   83 (97)
T PF10087_consen   48 KADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRS   83 (97)
T ss_pred             CCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECC
Confidence            368999999988777899999999999999999983

>PRK05562 precorrin-2 dehydrogenase; Provisional

Probab=88.98  E-value=0.95  Score=35.65  Aligned_cols=62  Identities=15%  Similarity=0.048  Sum_probs=43.5

Q ss_pred             ccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcC---CCcceEEEEEeecCCCCccch
Q 033552           28 CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGA---TKRPTCCVLVLTKPTKGELGQ   92 (117)
Q Consensus        28 ~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G---~~~~~svv~I~~~~~~~~~~~   92 (117)
                      +.|||.|.|-.  ++-..+-..|+++++++..+.+. +++...-   .+++-..++|.+++.+..+..
T Consensus        86 ~~LViaATdD~--~vN~~I~~~a~~~~~lvn~vd~p-~~~dFi~PAiv~rg~l~IaIST~G~sP~lar  150 (223)
T PRK05562         86 KHLIVIATDDE--KLNNKIRKHCDRLYKLYIDCSDY-KKGLCIIPYQRSTKNFVFALNTKGGSPKTSV  150 (223)
T ss_pred             CcEEEECCCCH--HHHHHHHHHHHHcCCeEEEcCCc-ccCeEEeeeEEecCCEEEEEECCCcCcHHHH
Confidence            67899998733  57889999999999999988775 4464321   123445688888776664443

>PRK04011 peptide chain release factor 1; Provisional

Probab=88.34  E-value=0.79  Score=38.93  Aligned_cols=59  Identities=14%  Similarity=0.133  Sum_probs=48.7

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCC-----------------------------------------CcchheeHHHHh
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNIS-----------------------------------------PIDVITHVPILC   50 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Das-----------------------------------------p~~i~~~i~~lc   50 (117)
                      -+-|..+|.+|++.|.+..++|..|..                                         ..+.+..+...+
T Consensus       297 avyG~~~V~~Ale~GAVetLLV~d~l~~~r~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~v~~l~e~a  376 (411)
T PRK04011        297 AVYGEEEVRKALEMGAVDTLLISEDLRKDRVTYKCPNCGYEEEKTVKRREELPEKTCPKCGSELEIVEEEDIIEELSELA  376 (411)
T ss_pred             EEEcHHHHHHHHHcCCceEEEEeccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHHHHHHH
Confidence            456999999999999999999986541                                         123577788999


Q ss_pred             hhCCCCEEEECCHhHHHhhc
Q 033552           51 EESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        51 e~~~IP~i~v~tK~eLG~A~   70 (117)
                      +++|..+.++.+..+-|.-+
T Consensus       377 ~~~g~~v~iis~~~e~G~qL  396 (411)
T PRK04011        377 EQSGTKVEVISTDTEEGEQL  396 (411)
T ss_pred             HHcCCEEEEECCCChhHHHH
Confidence            99999999999999888655

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

Probab=86.14  E-value=1.4  Score=37.47  Aligned_cols=59  Identities=15%  Similarity=0.147  Sum_probs=48.9

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCC-----------------------------------------CcchheeHHHHh
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNIS-----------------------------------------PIDVITHVPILC   50 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Das-----------------------------------------p~~i~~~i~~lc   50 (117)
                      -+-|..+|.+|++.|.+..++|..|..                                         ..+++..+...+
T Consensus       289 avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~rc~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ve~L~e~a  368 (403)
T TIGR03676       289 AAYGEEEVRKALEMGAVDTLLISEDLRKIRVTFKCPNCGYEEEKTVKPEEGDKSEACPKCGSELEIVEEEDIIEELSELA  368 (403)
T ss_pred             EEEcHHHHHHHHHhCCCcEEEEEccccceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHHHHHHH
Confidence            355999999999999999999988762                                         123567788899


Q ss_pred             hhCCCCEEEECCHhHHHhhc
Q 033552           51 EESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        51 e~~~IP~i~v~tK~eLG~A~   70 (117)
                      +++|.-+.++.++.+-|.-+
T Consensus       369 ~~~Ga~V~~iS~~~eeG~ql  388 (403)
T TIGR03676       369 EESGAKVEIISTDTEEGEQL  388 (403)
T ss_pred             HHcCCEEEEECCCChhHHHH
Confidence            99999999999998888554

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.

>TIGR00111 pelota probable translation factor pelota

Probab=86.03  E-value=0.97  Score=37.49  Aligned_cols=61  Identities=7%  Similarity=0.011  Sum_probs=51.3

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCC-CCcchheeHHHHhhhCCCCEEEECCHhHHHhhcC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNI-SPIDVITHVPILCEESDIPYIYVASKEDLANAGA   71 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Da-sp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G   71 (117)
                      .-+.|.+++.+|++.|.+.-++|..+. ....-+..+.+.+++.|..+.++++..+-|.-+.
T Consensus       277 ~~~YG~~eV~~Ale~GAVetLLIsD~l~~~r~~~~~l~~~v~~~gg~V~i~Ss~~e~G~qL~  338 (351)
T TIGR00111       277 KAVYGEDEVVKAAEYGAIEYLLVTDKVLVQREEIEKLLDSVESMGGKVVILSTEHELGKQLD  338 (351)
T ss_pred             eEEECHHHHHHHHHcCCceEEEEecchhhhHHHHHHHHHHHHHcCCEEEEEcCCCccHHHHh
Confidence            568899999999999999999999988 3212256678888999999999999999997663

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.

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

Probab=85.63  E-value=1.4  Score=37.32  Aligned_cols=59  Identities=12%  Similarity=0.167  Sum_probs=48.6

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCCC-----------------------------------------cchheeHHHHh
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNISP-----------------------------------------IDVITHVPILC   50 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Dasp-----------------------------------------~~i~~~i~~lc   50 (117)
                      -+-|..+|.+|++.|.+..++|..|..-                                         .+++..+.+.|
T Consensus       293 avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~ve~L~e~a  372 (409)
T TIGR00108       293 ACYGEDEVLKALDLGAVETLIVSEDLEYIRVTYKCAECGEVIEKTVRELKDKKFAICPACGQEMDVVEERDLIEWLSELA  372 (409)
T ss_pred             EEeCHHHHHHHHHhCCCcEEEEeccccceeEEEEcCCCCceeecccccccccccccCcccCccccchhhhhHHHHHHHHH
Confidence            3569999999999999999999998620                                         13456788889


Q ss_pred             hhCCCCEEEECCHhHHHhhc
Q 033552           51 EESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        51 e~~~IP~i~v~tK~eLG~A~   70 (117)
                      +++|..+.++.++.+=|.-+
T Consensus       373 ~~~Ga~V~iiS~~~eeG~ql  392 (409)
T TIGR00108       373 ENFGAKLEFISTESEEGAQL  392 (409)
T ss_pred             HHcCCEEEEECCCChhHHHH
Confidence            99999999999999888544

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

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

Probab=82.59  E-value=3.5  Score=36.02  Aligned_cols=48  Identities=19%  Similarity=0.362  Sum_probs=35.9

Q ss_pred             hhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHh
Q 033552           20 PLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN   68 (117)
Q Consensus        20 ~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~   68 (117)
                      +..|-..++-++|+-++-...+ ..||..+|+++++|-.++.+.++|+.
T Consensus       355 ~~~L~~~~vDlmiVVGG~NSSN-T~~L~eIa~~~g~~sy~Ie~~~eI~~  402 (460)
T PLN02821        355 MYKLVEEKLDLMLVVGGWNSSN-TSHLQEIAEHKGIPSYWIDSEERIGP  402 (460)
T ss_pred             HHHHhhcCCCEEEEECCCCCcc-HHHHHHHHHHhCCCEEEECCHHHcCc
Confidence            4455334466555555554335 79999999999999999999999985

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

Probab=81.81  E-value=0.94  Score=31.81  Aligned_cols=52  Identities=17%  Similarity=0.094  Sum_probs=36.9

Q ss_pred             ccceee-eecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEEC
Q 033552           10 SFNCVG-VVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVA   61 (117)
Q Consensus        10 ~~~~vG-~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~   61 (117)
                      ...+.| ..+..+.++++.+.-|++|-+-++.+...++.+.|+++++.+..+|
T Consensus       123 ~~~~lg~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v~~vP  175 (175)
T PF13727_consen  123 GVPVLGDLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRVRVVP  175 (175)
T ss_dssp             TEEEE--GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EEEE--
T ss_pred             CceeEcCHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEEEEeC
Confidence            456777 4777788899999999999888877789999999999999998765

>PRK05234 mgsA methylglyoxal synthase; Validated

Probab=81.21  E-value=2.1  Score=31.29  Aligned_cols=47  Identities=9%  Similarity=0.005  Sum_probs=35.5

Q ss_pred             eeecchhhhhcCCccEEEEeCC-CCC---cchheeHHHHhhhCCCCEEEEC
Q 033552           15 GVVNDPLPLLFHECRLCVIAGN-ISP---IDVITHVPILCEESDIPYIYVA   61 (117)
Q Consensus        15 G~kqt~kaL~kg~~~LViLA~D-asp---~~i~~~i~~lce~~~IP~i~v~   61 (117)
                      |--|....|++|++.+||--.| .++   ..-...|...|-++||||+.-.
T Consensus        63 g~~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T~l  113 (142)
T PRK05234         63 GDQQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVATNR  113 (142)
T ss_pred             CchhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEcCH
Confidence            6678899999999999988664 222   1125588999999999997543

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

Probab=81.04  E-value=5.2  Score=34.17  Aligned_cols=81  Identities=17%  Similarity=0.160  Sum_probs=51.1

Q ss_pred             hhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHh------------------hcCCCcceEEEEE
Q 033552           20 PLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN------------------AGATKRPTCCVLV   81 (117)
Q Consensus        20 ~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~------------------A~G~~~~~svv~I   81 (117)
                      ++.|...++-++|+-++-...+ ..+|-.+|++.+.|..++.+.++|-.                  ++-.  ....|+|
T Consensus       281 ~~~La~~~vD~miVVGG~nSSN-T~rL~eia~~~g~~ty~Ie~~~eL~~~~~i~h~~~~~~~~~t~~wl~~--~~~~VGI  357 (387)
T PRK13371        281 MFSLVEEPLDLMVVIGGYNSSN-TTHLQEIAIERGIPSYHIDSPERILSGNSIEHKPLGKELVVTENWLPE--GPVTVGI  357 (387)
T ss_pred             HHHHhhcCCCEEEEECCCCCcc-HHHHHHHHHhcCCCEEEECCHHHcCCccccccccccchhhhhhhhhcc--CCCEEEE
Confidence            4555443455555544444334 79999999999999999999999965                  3321  1335788


Q ss_pred             eecCCCC-ccchHHHHhhHHHHH
Q 033552           82 LTKPTKG-ELGQEEQDKLKADYT  103 (117)
Q Consensus        82 ~~~~~~~-~~~~~e~~~~~~~~~  103 (117)
                      +.|-+-. .+.++-.++++.+|+
T Consensus       358 TAGASTP~~lI~eVi~~l~~l~~  380 (387)
T PRK13371        358 TSGASTPDKVVEDVIEKIFALKE  380 (387)
T ss_pred             ecCCCCCHHHHHHHHHHHHHhhc
Confidence            8766533 223344555555544

>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain

Probab=80.75  E-value=2.6  Score=32.22  Aligned_cols=59  Identities=14%  Similarity=0.090  Sum_probs=40.0

Q ss_pred             ccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcC---CCcceEEEEEeecCCCCc
Q 033552           28 CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGA---TKRPTCCVLVLTKPTKGE   89 (117)
Q Consensus        28 ~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G---~~~~~svv~I~~~~~~~~   89 (117)
                      +.+||+|.|-..  +-.++-..|+..+||+..++.. +++...=   ..++-..++|.+++....
T Consensus        70 ~~lVi~at~d~~--ln~~i~~~a~~~~ilvn~~d~~-e~~~f~~pa~~~~g~l~iaisT~G~sP~  131 (205)
T TIGR01470        70 AFLVIAATDDEE--LNRRVAHAARARGVPVNVVDDP-ELCSFIFPSIVDRSPVVVAISSGGAAPV  131 (205)
T ss_pred             cEEEEECCCCHH--HHHHHHHHHHHcCCEEEECCCc-ccCeEEEeeEEEcCCEEEEEECCCCCcH
Confidence            678899988753  5678999999999999766554 3443211   123455688887776553

This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.

>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3

Probab=80.70  E-value=8.2  Score=30.06  Aligned_cols=68  Identities=13%  Similarity=0.104  Sum_probs=49.1

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCC-CCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeec
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNI-SPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTK   84 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Da-sp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~   84 (117)
                      .+-|.+-+..+++++ .++.+. ... .+ + ...+..+|++.+||+..+ ++++|-+.++...+-.++++...
T Consensus         3 ~i~G~~~v~eal~~~-~~~~~~-~~~~~~-~-~~~~~~~~~~~~~~~~~v-~~~~l~~l~~~~~~qGv~a~~~~   71 (237)
T TIGR00186         3 YLYGKNAVLEALLNQ-QRVFIL-KGLESK-R-LKKLIQLAKKQGINIQLV-DRQKLDQLTKGGNHQGIAAKVKP   71 (237)
T ss_pred             EEEehHHHHHHHhCC-CEEEEE-ecCcch-H-HHHHHHHHHHcCCcEEEe-CHHHHHHHhCCCCCCeEEEEEec
Confidence            456888999999988 333332 222 23 2 455778899999999988 58899999998767777777653

this is part of the trmH (spoU) family of rRNA methylases

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	117
2lbx_A	121	Solution Structure Of The S. Cerevisiae HACA RNP PR		5e-19
2lbw_A	121	Solution Structure Of The S. Cerevisiae HACA RNP PR		3e-18
3paf_A	117	M. Jannaschii L7ae Mutant Length = 117		4e-11
1ra4_A	120	Crystal Structure Of The Methanococcus Jannaschii L		4e-09
1sds_A	117	Structure Of Protein L7ae Bound To A K-Turn Derived		5e-09
1rlg_A	119	Molecular Basis Of Box CD RNA-Protein Interaction:		2e-08
3id5_C	130	Crystal Structure Of Sulfolobus Solfataricus CD RNP		1e-07
1pxw_A	128	Crystal Structure Of L7ae Srnp Core Protein From Py		3e-07
3lwo_C	123	Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONT		3e-07
3nmu_C	129	Crystal Structure Of Substrate-Bound Halfmer Box CD		3e-07
2hvy_D	130	Crystal Structure Of An HACA BOX RNP FROM PYROCOCCU		3e-07
2czw_A	124	Crystal Structure Analysis Of Protein Component Ph1		3e-07
2jnb_A	144	Solution Structure Of Rna-Binding Protein 15.5k Len		3e-07
1e7k_A	128	Crystal Structure Of The Spliceosomal 15.5kd Protei		3e-07
2fc3_A	124	Crystal Structure Of The Extremely Thermostable Aer		3e-07
2ozb_A	130	Structure Of A Human Prp31-15.5k-U4 Snrna Complex L		3e-07
3hjw_C	120	Structure Of A Functional Ribonucleoprotein Pseudou		4e-07
2ale_A	134	Crystal Structure Of Yeast Rna Splicing Factor Snu1		5e-06
1zwz_A	126	Structural Comparison Of Yeast Snornp And Splicesom		6e-06
3zf7_x	276	High-resolution Cryo-electron Microscopy Structure		8e-06
3o85_A	122	Giardia Lamblia 15.5kd Rna Binding Protein Length =		9e-06
2aif_A	135	Crystal Structure Of High Mobility Like Protein, Nh		1e-05
4a17_F	255	T.Thermophila 60s Ribosomal Subunit In Complex With		1e-04
1s72_F	120	Refined Crystal Structure Of The Haloarcula Marismo		2e-04
3g4s_F	119	Co-Crystal Structure Of Tiamulin Bound To The Large		2e-04
1ffk_E	119	Crystal Structure Of The Large Ribosomal Subunit Fr		3e-04

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

Iteration: 1
 Score = 89.0 bits (219), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 41/90 (45%), Positives = 62/90 (68%)
Query: 23  LLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL 82
           L   E  L VIAG+ISP DVI+H+P+LCE+  +PYI++ SK+DL  AGATKRPT  V ++
Sbjct: 32  LRKGEKGLVVIAGDISPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIV 91
Query: 83  TKPTKGELGQEEQDKLKADYTLVVEDVKEL 112
               K + G+ ++++ K  +  VV++V+ L
Sbjct: 92  PGSNKKKDGKNKEEEYKESFNEVVKEVQAL 121

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

Iteration: 1
 Score = 87.0 bits (214), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 39/86 (45%), Positives = 60/86 (69%)
Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
           E  L VIAG+I P DVI+H+P+LCE+  +PYI++ SK+DL  AGATKRPT  V ++    
Sbjct: 36  EKGLVVIAGDIWPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSN 95
Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
           K + G+ ++++ K  +  VV++V+ L
Sbjct: 96  KKKDGKNKEEEYKESFNEVVKEVQAL 121

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

Iteration: 1
 Score = 62.8 bits (151), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 27/63 (42%), Positives = 38/63 (60%)
Query: 28  CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTK 87
            +L +IA ++ P +V+ H+P LCEE  IPY YVASK+DL  A    RP   V ++ +   
Sbjct: 43  AKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGVSRPASSVAIINEGDA 102
Query: 88  GEL 90
            EL
Sbjct: 103 EEL 105

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

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 37/63 (58%)
Query: 28  CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTK 87
            +L +IA ++ P +V+ H+P LCEE  IPY YVASK+DL  A   +     V ++ +   
Sbjct: 46  AKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGDA 105
Query: 88  GEL 90
            EL
Sbjct: 106 EEL 108

>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 = 56.2 bits (134), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 37/63 (58%)
Query: 28  CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTK 87
            +L +IA ++ P +V+ H+P LCEE  IPY YVASK+DL  A   +     V ++ +   
Sbjct: 43  AKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGDA 102
Query: 88  GEL 90
            EL
Sbjct: 103 EEL 105

>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 = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 40/66 (60%), Gaps = 3/66 (4%)
Query: 28  CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTK 87
            +L  IA ++ P +++ H+P+LCEE ++PYIYV SK DL  A   + P     ++    +
Sbjct: 44  AKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAII---NE 100
Query: 88  GELGQE 93
           GEL +E
Sbjct: 101 GELRKE 106

>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 = 51.2 bits (121), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 36/56 (64%)
Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL 82
           + +L +IA ++ P +++ H+P+LC+E  IPY+YV+SK+ L  A   +  T    +L
Sbjct: 50  QAKLVIIAEDVQPEEIVAHLPLLCDEKKIPYVYVSSKKALGEACGLQVATASAAIL 105

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 31/41 (75%)
Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 67
          + +L +IA ++ P +++ H+P LCEE +IPYIYV SK++L 
Sbjct: 52 QAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 92

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 31/41 (75%)
Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 67
          + +L +IA ++ P +++ H+P LCEE +IPYIYV SK++L 
Sbjct: 47 QAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 87

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 31/41 (75%)
Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 67
          + +L +IA ++ P +++ H+P LCEE +IPYIYV SK++L 
Sbjct: 53 QAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 93

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 31/41 (75%)
Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 67
          + +L +IA ++ P +++ H+P LCEE +IPYIYV SK++L 
Sbjct: 48 QAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 88

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 31/41 (75%)
Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 67
          + +L +IA ++ P +++ H+P LCEE +IPYIYV SK++L 
Sbjct: 48 QAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 88

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 20/53 (37%), Positives = 33/53 (62%)
Query: 32  VIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTK 84
           V+A +  P+++I H+P+LCE+ ++PY++V SK+ L  A    RP     V  K
Sbjct: 71  VMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIK 123

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 18/44 (40%), Positives = 31/44 (70%)
Query: 32 VIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRP 75
          V+A +  P+++I H+P+LCE+ ++PY++V SK+ L  A    RP
Sbjct: 55 VMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRP 98

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 34/55 (61%)
Query: 28 CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL 82
           +L VIA ++ P +++ H+P+LC+E  IPY+YV SK+ L  A   +     V ++
Sbjct: 45 AKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAII 99

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 18/44 (40%), Positives = 31/44 (70%)
Query: 32  VIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRP 75
           V+A +  P+++I H+P+LCE+ ++PY++V SK+ L  A    RP
Sbjct: 57  VMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRP 100

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 31/41 (75%)
Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA 67
          + +L +IA ++ P +++ H+P LCEE +IPYIYV SK++L 
Sbjct: 45 QAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 85

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 40/76 (52%)
Query: 32  VIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELG 91
           ++A +  PI+++ H+P+LCE+ ++PY++V S+  L  A    RP     + T        
Sbjct: 53  IMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKT 112
Query: 92  QEEQDKLKADYTLVVE 107
           Q    K K +  L++E
Sbjct: 113 QIYAVKDKIETLLILE 128

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 32/52 (61%)
Query: 32  VIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT 83
           ++A +  PI+++ H+P+LCE+ ++PY++V S+  L  A    RP     + T
Sbjct: 53  IMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITT 104

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 28/54 (51%)
Query: 28  CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLV 81
            RL +IA N+ PI+++  +P LC  + IPY  V  K  L +A   K  TC    
Sbjct: 161 ARLVLIANNVDPIELVLWMPTLCRANKIPYAIVKDKARLGDAIGRKTATCVAFT 214

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 21/74 (28%), Positives = 38/74 (51%)
Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
           +  L +IA +  PI+++ H+P+ CE+  +PY+++ SK  L  A     PT    +     
Sbjct: 47  KAELVIIAADADPIEIVLHLPLACEDKGVPYVFIGSKNALGRACNVSVPTIVASIGKHDA 106
Query: 87  KGELGQEEQDKLKA 100
            G +  E   K++A
Sbjct: 107 LGNVVAEIVGKVEA 120

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 33/57 (57%)
Query: 28  CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTK 84
             + ++A +  P++++ H+P++CE+ + PY++V SK  L  A    RP     + +K
Sbjct: 58  AEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSK 114

>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 = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLV 81
           + +L VIA ++ PI+++  +P LC ++D+P+ +V  K  L      K  T   L 
Sbjct: 140 QAKLVVIAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKTATAVALT 194

>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 = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 30/54 (55%)
Query: 28 CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLV 81
            L  +A ++ P +++ H+P L +E  +P+I+V  ++DL +A   +  +    V
Sbjct: 46 AELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAV 99

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 30/54 (55%)
Query: 28 CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLV 81
            L  +A ++ P +++ H+P L +E  +P+I+V  ++DL +A   +  +    V
Sbjct: 45 AELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAV 98

>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 = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 13/44 (29%), Positives = 27/44 (61%)
Query: 28 CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGA 71
            L  +A ++ P +++ H+P L +E  +P+I+V  ++DL +A  
Sbjct: 45 AELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAG 88

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	117
2lbw_A	121	H/ACA ribonucleoprotein complex subunit 2; L7AE, s	4e-21
2jnb_A	144	NHP2-like protein 1; splicing, KINK-turn RNA-bindi	1e-20
2ale_A	134	SNU13, NHP2/L7AE family protein YEL026W; splicing,	3e-20
3izc_H	256	60S ribosomal protein RPL8 (L7AE); eukaryotic ribo	1e-19
2aif_A	135	Ribosomal protein L7A; high-mobility like protein,	2e-19
3o85_A	122	Ribosomal protein L7AE; alpha beta sandwich fold,	1e-18
2zkr_f	266	60S ribosomal protein L7A; protein-RNA complex, 60	2e-18
3iz5_H	258	60S ribosomal protein L7A (L7AE); eukaryotic ribos	5e-18
1rlg_A	119	50S ribosomal protein L7AE; protein-RNA, structura	1e-17
2fc3_A	124	50S ribosomal protein L7AE; alpha-beta-alpha sandw	1e-17
4a17_F	255	RPL7A, 60S ribosomal protein L9; eukaryotic riboso	2e-17
1vq8_F	120	50S ribosomal protein L7AE; ribosome 50S, protein-	7e-17
1xbi_A	120	50S ribosomal protein L7AE; alpha-beta-alpha sandw	1e-16
3jyw_G	113	60S ribosomal protein L8(A); eukaryotic ribosome,	7e-15
3v7e_A	82	Ribosome-associated protein L7AE-like; RNA-protein	3e-14
2xzm_U	126	Ribosomal protein L7AE containing protein; ribosom	5e-14
3u5c_M	143	40S ribosomal protein S12, 40S ribosomal protein S	6e-06
3v7q_A	101	Probable ribosomal protein YLXQ; L7AE superfamily,	7e-05
3on1_A	101	BH2414 protein; structural genomics, PSI-2, protei	2e-04

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

 Score = 80.4 bits (198), Expect = 4e-21
 Identities = 39/86 (45%), Positives = 60/86 (69%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
           E  L VIAG+I P DVI+H+P+LCE+  +PYI++ SK+DL  AGATKRPT  V ++    
Sbjct: 36  EKGLVVIAGDIWPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSN 95

Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
           K + G+ ++++ K  +  VV++V+ L
Sbjct: 96  KKKDGKNKEEEYKESFNEVVKEVQAL 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 = 80.0 bits (197), Expect = 1e-20
 Identities = 24/86 (27%), Positives = 42/86 (48%), Gaps = 9/86 (10%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
                V+A +  P+++I H+P+LCE+ ++PY++V SK+ L  A    RP     V  K  
Sbjct: 66  ISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIK-- 123

Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
                  E  +LK     + + ++ L
Sbjct: 124 -------EGSQLKQQIQSIQQSIERL 142

>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 = 78.5 bits (193), Expect = 3e-20
 Identities = 20/86 (23%), Positives = 40/86 (46%), Gaps = 9/86 (10%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
                ++A +  PI+++ H+P+LCE+ ++PY++V S+  L  A    RP     + T   
Sbjct: 48  ISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITT--- 104

Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
                  +   +K     V + ++ L
Sbjct: 105 ------NDASAIKTQIYAVKDKIETL 124

>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 = 76.5 bits (188), Expect = 2e-19
 Identities = 17/86 (19%), Positives = 43/86 (50%), Gaps = 9/86 (10%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
              + ++A +  P++++ H+P++CE+ + PY++V SK  L  A    RP     + +   
Sbjct: 57  IAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITS--- 113

Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
                 ++   L +  T + + ++++
Sbjct: 114 ------KDGSSLSSQITELKDQIEQI 133

>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 = 74.1 bits (182), Expect = 1e-18
 Identities = 21/75 (28%), Positives = 38/75 (50%)

Query: 26  HECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 85
            +  L +IA +  PI+++ H+P+ CE+  +PY+++ SK  L  A     PT    +    
Sbjct: 46  GKAELVIIAADADPIEIVLHLPLACEDKGVPYVFIGSKNALGRACNVSVPTIVASIGKHD 105

Query: 86  TKGELGQEEQDKLKA 100
             G +  E   K++A
Sbjct: 106 ALGNVVAEIVGKVEA 120

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

 Score = 77.3 bits (189), Expect = 2e-18
 Identities = 16/84 (19%), Positives = 37/84 (44%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
           + +L VIA ++ PI+++  +P LC +  +PY  +  K  L +    K  T          
Sbjct: 151 KAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGHLVHRKTCTTVAFTQVNSE 210

Query: 87  KGELGQEEQDKLKADYTLVVEDVK 110
                 +  + ++ +Y    ++++
Sbjct: 211 DKGALAKLVEAIRTNYNDRYDEIR 234

>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 = 71.8 bits (176), Expect = 1e-17
 Identities = 23/74 (31%), Positives = 40/74 (54%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
             +L  IA ++ P +++ H+P+LCEE ++PYIYV SK DL  A   + P     ++ +  
Sbjct: 43  LAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAIINEGE 102

Query: 87  KGELGQEEQDKLKA 100
             +      +K+K 
Sbjct: 103 LRKELGSLVEKIKG 116

>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 = 71.3 bits (175), Expect = 1e-17
 Identities = 24/74 (32%), Positives = 41/74 (55%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
             +L VIA ++ P +++ H+P+LC+E  IPY+YV SK+ L  A   +     V ++    
Sbjct: 44  LAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAIIEPGD 103

Query: 87  KGELGQEEQDKLKA 100
              L +E  +K+K 
Sbjct: 104 AETLVREIVEKVKE 117

>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 = 74.2 bits (181), Expect = 2e-17
 Identities = 20/77 (25%), Positives = 37/77 (48%)

Query: 26  HECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 85
            + +L VIA ++ PI+++  +P LC ++D+P+ +V  K  L      K  T   L   + 
Sbjct: 139 KQAKLVVIAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKTATAVALTEVRN 198

Query: 86  TKGELGQEEQDKLKADY 102
                 Q+  +  K +Y
Sbjct: 199 EDKAKLQQFSELFKTNY 215

>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 = 69.5 bits (170), Expect = 7e-17
 Identities = 19/87 (21%), Positives = 40/87 (45%), Gaps = 11/87 (12%)

Query: 26  HECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 85
               L  +A ++ P +++ H+P L +E  +P+I+V  ++DL +A   +  +    V    
Sbjct: 44  GSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVT--- 100

Query: 86  TKGELGQEEQDKLKADYTLVVEDVKEL 112
                   +  +  AD   + + V+EL
Sbjct: 101 --------DAGEADADVEDIADKVEEL 119

>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 = 69.2 bits (169), Expect = 1e-16
 Identities = 26/74 (35%), Positives = 41/74 (55%), Gaps = 1/74 (1%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
             +L +IA ++ P +V+ H+P LCEE  IPY YVASK+DL  A   +     V ++ +  
Sbjct: 45  IAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGD 104

Query: 87  KGELGQEEQDKLKA 100
             EL +   +K+  
Sbjct: 105 AEEL-KVLIEKVNV 117

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

 Score = 64.2 bits (156), Expect = 7e-15
 Identities = 15/59 (25%), Positives = 28/59 (47%)

Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 85
          + +L +IA ++ PI+++  +P LC++  +PY  V  K  L      K      L   + 
Sbjct: 41 KAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKTSAVAALTEVRA 99

>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 = 61.9 bits (151), Expect = 3e-14
 Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 1/56 (1%)

Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL 82
            +  V+A +  P  + + V  L E+  I    V S + L  A   +     V ++
Sbjct: 27 SVKEVVVAKDADP-ILTSSVVSLAEDQGISVSMVESMKKLGKACGIEVGAAAVAII 81

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

 Score = 62.4 bits (151), Expect = 5e-14
 Identities = 14/87 (16%), Positives = 28/87 (32%), Gaps = 12/87 (13%)

Query: 26  HECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAG----------ATKRP 75
            +     +A +    + +  V  LC +++I Y+ V  +  L                K  
Sbjct: 39  KQALFVCVAEDCDQGNYVKLVKALCAKNEIKYVSVPKRASLGEYLGHFTANAKGEIKKVK 98

Query: 76  TCCVLVLTKPTKGELGQEEQDKLKADY 102
            C  L + K        E++ K+    
Sbjct: 99  GCSSLAIRKY--APEITEDEKKIIEGA 123

>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 = 41.7 bits (97), Expect = 6e-06
 Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 2/51 (3%)

Query: 26  HECRLCVIAGNISPIDVITHVPILCE--ESDIPYIYVASKEDLANAGATKR 74
            E  L V+  +++  ++I  V  L    E+ +P I VA  + L       +
Sbjct: 55  GEALLVVLVSSVTEANIIKLVEGLANDPENKVPLIKVADAKQLGEWAGLGK 105

>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 = 38.1 bits (89), Expect = 7e-05
 Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 2/55 (3%)

Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA-GATKRPTCCVL 80
            +L ++  + S  +    V   C    +PY  V S+  L  + G   R    V 
Sbjct: 35 RAKLVLLTEDASS-NTAKKVTDKCNYYKVPYKKVESRAVLGRSIGKEARVVVAVT 88

>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 = 36.5 bits (85), Expect = 2e-04
 Identities = 10/55 (18%), Positives = 20/55 (36%), Gaps = 2/55 (3%)

Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANA-GATKRPTCCVL 80
          +  L +++ +         +   C    IP   V +++ L  A G  +R    V 
Sbjct: 34 QVTLVILSSDAGI-HTKKKLLDKCGSYQIPVKVVGNRQMLGRAIGKHERVVIGVK 87

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	117
2lbw_A	121	H/ACA ribonucleoprotein complex subunit 2; L7AE, s	99.95
3o85_A	122	Ribosomal protein L7AE; alpha beta sandwich fold,	99.9
2ale_A	134	SNU13, NHP2/L7AE family protein YEL026W; splicing,	99.9
2jnb_A	144	NHP2-like protein 1; splicing, KINK-turn RNA-bindi	99.9
1vq8_F	120	50S ribosomal protein L7AE; ribosome 50S, protein-	99.89
2fc3_A	124	50S ribosomal protein L7AE; alpha-beta-alpha sandw	99.89
1rlg_A	119	50S ribosomal protein L7AE; protein-RNA, structura	99.89
2aif_A	135	Ribosomal protein L7A; high-mobility like protein,	99.89
1xbi_A	120	50S ribosomal protein L7AE; alpha-beta-alpha sandw	99.88
3v7e_A	82	Ribosome-associated protein L7AE-like; RNA-protein	99.88
3u5e_c	105	L32, RP73, YL38, 60S ribosomal protein L30; transl	99.84
3jyw_G	113	60S ribosomal protein L8(A); eukaryotic ribosome,	99.84
3on1_A	101	BH2414 protein; structural genomics, PSI-2, protei	99.84
4a18_G	104	RPL30; ribosome, eukaryotic initiation factor 6, E	99.84
3iz5_f	112	60S ribosomal protein L30 (L30E); eukaryotic ribos	99.84
3j21_Z	99	50S ribosomal protein L30E; archaea, archaeal, KIN	99.83
3v7q_A	101	Probable ribosomal protein YLXQ; L7AE superfamily,	99.82
1w41_A	101	50S ribosomal protein L30E; electrostatic interact	99.82
2xzm_U	126	Ribosomal protein L7AE containing protein; ribosom	99.82
3cpq_A	110	50S ribosomal protein L30E; RNA-protein, elongatio	99.81
2zkr_f	266	60S ribosomal protein L7A; protein-RNA complex, 60	99.81
4a17_F	255	RPL7A, 60S ribosomal protein L9; eukaryotic riboso	99.79
3u5c_M	143	40S ribosomal protein S12, 40S ribosomal protein S	99.79
3izc_H	256	60S ribosomal protein RPL8 (L7AE); eukaryotic ribo	99.78
2kg4_A	165	Growth arrest and DNA-damage-inducible protein GA	99.75
3vi6_A	125	60S ribosomal protein L30; three-layer alpha/beta/	99.75
3iz5_H	258	60S ribosomal protein L7A (L7AE); eukaryotic ribos	99.74
3cg6_A	146	Growth arrest and DNA-damage-inducible 45 gamma; a	98.87
3ffm_A	167	Growth arrest and DNA-damage-inducible protein GAD	98.64
3ir9_A	166	Peptide chain release factor subunit 1; structural	93.22
3nkl_A	141	UDP-D-quinovosamine 4-dehydrogenase; alpha-beta fo	89.05
1gz0_A	253	Hypothetical tRNA/RRNA methyltransferase YJFH; 2'O	88.07
1x52_A	124	Pelota homolog, CGI-17; ERF1_3 domain, structural	86.4
3nk6_A	277	23S rRNA methyltransferase; nosiheptide, nosihepti	86.35
3agk_A	373	Peptide chain release factor subunit 1; translatio	83.68
2ohw_A	133	YUEI protein; structural genomics, PSI-2, protein	83.05
2qi2_A	347	Pelota, cell division protein pelota related prote	82.13
1dt9_A	437	ERF1, protein (eukaryotic peptide chain release fa	81.59
3e20_C	441	Eukaryotic peptide chain release factor subunit 1;	80.88
1vmd_A	178	MGS, methylglyoxal synthase; TM1185, structural ge	80.82
1b93_A	152	Protein (methylglyoxal synthase); glycolytic bypas	80.56

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

Probab=99.95  E-value=2.7e-28  Score=173.08  Aligned_cols=103  Identities=41%  Similarity=0.666  Sum_probs=95.8

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCc
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE   89 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~   89 (117)
                      .+-+.|.++++++|++|+++|||||+|++|.+++++|+.+|++++|||++++||++||+|||+++++++++|++.+++..
T Consensus        19 gkl~~G~~~v~kai~~gkakLViiA~D~~~~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~g~k~~~s~v~I~d~g~a~~   98 (121)
T 2lbw_A           19 KNVKRGVKEVVKALRKGEKGLVVIAGDIWPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSNKKK   98 (121)
T ss_dssp             TCEEESHHHHHHHHHHSCCCEEEECTTCSCTTHHHHHHHHHHHTCCCEEECCCHHHHHHHHTCSSCCSEEEECCSCTTGG
T ss_pred             CCccccHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCCcEEEECCHHHHHHHhCCCCCEEEEEEEcCcchHH
Confidence            45578999999999999999999999999988899999999999999999999999999999988899999999888776


Q ss_pred             cchHHHHhhHHHHHHHHHHHHhh
Q 033552           90 LGQEEQDKLKADYTLVVEDVKEL  112 (117)
Q Consensus        90 ~~~~e~~~~~~~~~e~~~~~~~l  112 (117)
                      ...+..+.|++.|+|+.++|++|
T Consensus        99 ~~~~~~~~y~~~y~~~~~~~~~~  121 (121)
T 2lbw_A           99 DGKNKEEEYKESFNEVVKEVQAL  121 (121)
T ss_dssp             GCSSTHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhC
Confidence            66667889999999999999986

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

Probab=99.90  E-value=4.4e-24  Score=151.87  Aligned_cols=91  Identities=24%  Similarity=0.414  Sum_probs=82.5

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCcc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGEL   90 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~~   90 (117)
                      +-+.|.++++++|++|++++||||+|++|.+++++++.+|++++|||++++||++||+|||+++++++++|++.+     
T Consensus        31 klv~G~~~v~kai~~gka~lViiA~D~~p~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~Gk~~~vs~vaI~d~~-----  105 (122)
T 3o85_A           31 AIKRGANEALKQVNRGKAELVIIAADADPIEIVLHLPLACEDKGVPYVFIGSKNALGRACNVSVPTIVASIGKHD-----  105 (122)
T ss_dssp             CEEESHHHHHHHHHTTCCSEEEEETTCSSGGGGTTHHHHHHTTTCCEEEESCHHHHHHHTTCSSCCSEEEECCCT-----
T ss_pred             CEeEcHHHHHHHHHcCCceEEEEeCCCChHHHHHHHHHHHHHhCCCEEEECCHHHHHHHhCCCCCEEEEEEEccc-----
Confidence            456799999999999999999999999998789999999999999999999999999999999999999998722     


Q ss_pred             chHHHHhhHHHHHHHHHHHHhh
Q 033552           91 GQEEQDKLKADYTLVVEDVKEL  112 (117)
Q Consensus        91 ~~~e~~~~~~~~~e~~~~~~~l  112 (117)
                            +|++.|+++..++++|
T Consensus       106 ------~~~~~~~~~~~~i~~~  121 (122)
T 3o85_A          106 ------ALGNVVAEIVGKVEAL  121 (122)
T ss_dssp             ------TTHHHHHHHHHHHHTT
T ss_pred             ------chHHHHHHHHHHHHhh
Confidence                  2777888888888776

>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=99.90  E-value=5.1e-24  Score=154.00  Aligned_cols=95  Identities=23%  Similarity=0.443  Sum_probs=84.0

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCcc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGEL   90 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~~   90 (117)
                      +-+.|.+|++++|++|+++|||||+|++|.+++++|+.+|+++||||++++||++||+|||+++++++++|++.+     
T Consensus        32 kl~~G~~~v~kai~~gkakLViiA~D~~p~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~G~~~~~s~vaI~d~~-----  106 (134)
T 2ale_A           32 QLKKGANEATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTND-----  106 (134)
T ss_dssp             CEEESHHHHHHHHHHTCEEEEEEETTCSSGGGGTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEECCT-----
T ss_pred             CcccCchHHHHHHHhCCCeEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCCCCeEEEEEEcCC-----
Confidence            457899999999999999999999999997789999999999999999999999999999999887889998622     


Q ss_pred             chHHHHhhHHHHHHHHHHHHhhhc
Q 033552           91 GQEEQDKLKADYTLVVEDVKELAS  114 (117)
Q Consensus        91 ~~~e~~~~~~~~~e~~~~~~~l~~  114 (117)
                          ...+.++++++...++.|+.
T Consensus       107 ----~s~~~~l~~~i~~~~~~~~~  126 (134)
T 2ale_A          107 ----ASAIKTQIYAVKDKIETLLI  126 (134)
T ss_dssp             ----TCTTHHHHHHHHHHHHHHHH
T ss_pred             ----hHHHHHHHHHHHHHHHHhHH
Confidence                23577788888888887753

>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=2.5e-24  Score=157.56  Aligned_cols=94  Identities=27%  Similarity=0.479  Sum_probs=84.8

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCc
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE   89 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~   89 (117)
                      .+-+.|.+|++++|++|+++|||||+|++|.+++++|+.+|+++||||++++||++||+|||+++++++++|++.+.   
T Consensus        49 gkl~~G~kev~KaI~~gkakLVIIA~D~~p~e~~~~l~~lC~~~~VP~~~v~sk~eLG~a~Gk~~~vs~vaI~~~~~---  125 (144)
T 2jnb_A           49 KQLRKGANEATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEG---  125 (144)
T ss_dssp             TCCCBCHHHHHHHHHHTCEEEEEEETTCSCHHHHTTSCSSCGGGCCCCEEESCSHHHHHHHTCSSCCSEEEEECCTT---
T ss_pred             CCccccHHHHHHHHHhCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCEEEECCHHHHHHHhCCCCceEEEEEEeCCc---
Confidence            34578999999999999999999999999977899999999999999999999999999999999988899986332   


Q ss_pred             cchHHHHhhHHHHHHHHHHHHhh
Q 033552           90 LGQEEQDKLKADYTLVVEDVKEL  112 (117)
Q Consensus        90 ~~~~e~~~~~~~~~e~~~~~~~l  112 (117)
                            .+|.+.|+++.++|++|
T Consensus       126 ------s~i~~~~~~~~~~i~~l  142 (144)
T 2jnb_A          126 ------SQLKQQIQSIQQSIERL  142 (144)
T ss_dssp             ------CTTHHHHHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHHHHHHH
Confidence                  35788899999998887

>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=99.89  E-value=1.1e-23  Score=148.60  Aligned_cols=92  Identities=22%  Similarity=0.396  Sum_probs=81.0

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCc
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE   89 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~   89 (117)
                      .+-+.|.++++++|++|++++||+|+|++|.++++||+.+|++++|||++++|+++||+|||+++++++++|++.++.  
T Consensus        28 g~l~~G~~~v~kal~~gka~lViiA~D~~~~~~~~~l~~lc~~~~Vp~~~~~sk~eLG~a~G~~~~~~~vaI~d~g~a--  105 (120)
T 1vq8_F           28 GAVKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVTDAGEA--  105 (120)
T ss_dssp             SCEEESHHHHHHHHHHTCCSEEEEESCCSSGGGTTTHHHHHHTTCCCEEEESCHHHHHHHTTCSSCCSEEEESSCSSC--
T ss_pred             CCEeECHHHHHHHHHcCCceEEEEeCCCChHHHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCCCCeEEEEEecCchH--
Confidence            455889999999999999999999999999878999999999999999999999999999999988999999986553  


Q ss_pred             cchHHHHhhHHHHHHHHHHHHhh
Q 033552           90 LGQEEQDKLKADYTLVVEDVKEL  112 (117)
Q Consensus        90 ~~~~e~~~~~~~~~e~~~~~~~l  112 (117)
                               +.+++++.+.+++|
T Consensus       106 ---------~~~~~~l~~~~~~l  119 (120)
T 1vq8_F          106 ---------DADVEDIADKVEEL  119 (120)
T ss_dssp             ---------HHHHHHHHHHHHHT
T ss_pred             ---------HHHHHHHHHHHHhc
Confidence                     33566666666655

>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=99.89  E-value=1.1e-23  Score=149.43  Aligned_cols=93  Identities=29%  Similarity=0.477  Sum_probs=82.1

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCc
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE   89 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~   89 (117)
                      .+-+.|.++++++|++|++++||+|+|++|.++++||+.+|++++|||++++|+++||+|||+++++++++|++.++   
T Consensus        27 gkl~~G~~~v~kal~~gka~lViiA~D~~~~~~~~~l~~lc~~~~Vp~~~v~sk~eLG~a~G~~~~~~~vaI~d~g~---  103 (124)
T 2fc3_A           27 GRIKKGTNETTKAVERGLAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAIIEPGD---  103 (124)
T ss_dssp             SEEEESHHHHHHHHHTTCCSEEEEETTCSSGGGTTTHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEEECGG---
T ss_pred             CCccCCHHHHHHHHHcCCceEEEEcCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCEEEEEEECcch---
Confidence            34588999999999999999999999999987899999999999999999999999999999998899999998544   


Q ss_pred             cchHHHHhhHHHHHHHHHHHHhhh
Q 033552           90 LGQEEQDKLKADYTLVVEDVKELA  113 (117)
Q Consensus        90 ~~~~e~~~~~~~~~e~~~~~~~l~  113 (117)
                              .+..++++.+++++|+
T Consensus       104 --------a~~~~~~l~~~~~~l~  119 (124)
T 2fc3_A          104 --------AETLVREIVEKVKELR  119 (124)
T ss_dssp             --------GHHHHHHHHHHHHHHH
T ss_pred             --------HHHHHHHHHHHHHHhH
Confidence                    2446777777777765

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

Probab=99.89  E-value=1.4e-23  Score=147.84  Aligned_cols=92  Identities=29%  Similarity=0.527  Sum_probs=81.0

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCc
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE   89 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~   89 (117)
                      .+-+.|.++++++|++|++++||+|+|++|.++++||+.+|++++|||++++|+++||+|||+++++++++|++.++   
T Consensus        26 g~l~~G~~~v~kal~~gka~lViiA~D~~~~~~~~~l~~lc~~~~Vp~~~~~sk~eLG~a~G~~~~~~~vaI~d~g~---  102 (119)
T 1rlg_A           26 GKVKKGTNETTKAVERGLAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAIINEGE---  102 (119)
T ss_dssp             SEEEESHHHHHHHHTTTCCSEEEEESCCSCSTTTTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECGG---
T ss_pred             CCeeECHHHHHHHHHcCCCcEEEEeCCCChHHHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCCCeEEEEEecCch---
Confidence            34588999999999999999999999999987899999999999999999999999999999998899999998544   


Q ss_pred             cchHHHHhhHHHHHHHHHHHHhh
Q 033552           90 LGQEEQDKLKADYTLVVEDVKEL  112 (117)
Q Consensus        90 ~~~~e~~~~~~~~~e~~~~~~~l  112 (117)
                              .+..++++.+.+++|
T Consensus       103 --------a~~~~~~l~~~~~~l  117 (119)
T 1rlg_A          103 --------LRKELGSLVEKIKGL  117 (119)
T ss_dssp             --------GHHHHHHHHHHHHTT
T ss_pred             --------HHHHHHHHHHHHHHh
Confidence                    234667777777665

>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=99.89  E-value=1.2e-23  Score=151.79  Aligned_cols=94  Identities=21%  Similarity=0.450  Sum_probs=84.0

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCc
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGE   89 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~   89 (117)
                      .+-+.|.++++++|++|++++||+|+|++|.+++++|+.+|++++|||++++|+++||+|||+++++++++|++.+    
T Consensus        40 gklv~G~~~v~kal~~gkaklViiA~D~~~~~~~~~l~~lc~~~~IP~~~v~sk~eLG~a~G~~~~v~~vaI~d~~----  115 (135)
T 2aif_A           40 KQLRKGANEATKALNRGIAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSKD----  115 (135)
T ss_dssp             TCEEESHHHHHHHHHTTCEEEEEEETTCSCHHHHHHHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEECCT----
T ss_pred             CCcccCHHHHHHHHHcCCCeEEEEecCCChHHHHhHHHHHHHhcCCcEEEECCHHHHHHHhCCCCcEEEEEEEcCC----
Confidence            3557899999999999999999999999997777999999999999999999999999999999988889998633    


Q ss_pred             cchHHHHhhHHHHHHHHHHHHhh
Q 033552           90 LGQEEQDKLKADYTLVVEDVKEL  112 (117)
Q Consensus        90 ~~~~e~~~~~~~~~e~~~~~~~l  112 (117)
                           ..+|.++|+++.++|++|
T Consensus       116 -----~s~i~~~~~~~~~~~~~~  133 (135)
T 2aif_A          116 -----GSSLSSQITELKDQIEQI  133 (135)
T ss_dssp             -----TCTTHHHHHHHHHTTCC-
T ss_pred             -----cHHHHHHHHHHHHHHHHH
Confidence                 246888899999988876

>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=99.88  E-value=1.2e-22  Score=143.69  Aligned_cols=77  Identities=31%  Similarity=0.501  Sum_probs=72.0

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCC
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT   86 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~   86 (117)
                      .+-+.|.++++++|++|++++||||+|++|.+++++|+.+|++++|||++++|+++||+|||+++++++++|++.++
T Consensus        28 gkl~~G~~~v~kai~~gka~lViiA~D~~p~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~G~~~~~s~vaI~d~g~  104 (120)
T 1xbi_A           28 QKIKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGD  104 (120)
T ss_dssp             SEEEESHHHHHHHHHHTCCSEEEEESCCSSGGGTTTHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECSC
T ss_pred             CCccccHHHHHHHHHcCCceEEEEcCCCChHHHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCCCEEEEEEeccch
Confidence            34578999999999999999999999999987899999999999999999999999999999998899999998554

>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=99.88  E-value=3.1e-23  Score=138.21  Aligned_cols=71  Identities=20%  Similarity=0.203  Sum_probs=67.8

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEe
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL   82 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~   82 (117)
                      +-+.|.+||+++|++|+++|||||+|++| +++++|+.+|++++|||++++||++||+|||+++++++++|+
T Consensus        11 k~~~G~~~v~kai~~gkaklViiA~D~~~-~~~~~i~~lc~~~~Ip~~~v~sk~eLG~a~Gk~~~~~~~ai~   81 (82)
T 3v7e_A           11 SIIIGTKQTVKALKRGSVKEVVVAKDADP-ILTSSVVSLAEDQGISVSMVESMKKLGKACGIEVGAAAVAII   81 (82)
T ss_dssp             EEEESHHHHHHHHTTTCEEEEEEETTSCH-HHHHHHHHHHHHHTCCEEEESCHHHHHHHHTCSSCCSEEEEE
T ss_pred             CeeEcHHHHHHHHHcCCeeEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCEEEEEEe
Confidence            45889999999999999999999999999 789999999999999999999999999999999999998885

>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=99.84  E-value=8.2e-22  Score=136.46  Aligned_cols=79  Identities=14%  Similarity=0.060  Sum_probs=72.9

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEE-EECCHhHHHhhcCCCcceEEEEEeecCCCC
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYI-YVASKEDLANAGATKRPTCCVLVLTKPTKG   88 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i-~v~tK~eLG~A~G~~~~~svv~I~~~~~~~   88 (117)
                      .+-+.|.+||+++|++|++++||+|+|++| +.+++++.+|++++|||+ +++|++|||+|||+++++++++|++.++..
T Consensus        21 gk~v~G~~~v~kai~~gkaklVilA~D~~~-~~~~~i~~~c~~~~ip~~~~~~s~~eLG~A~Gk~~~~~~vaI~D~G~a~   99 (105)
T 3u5e_c           21 GKYTLGYKSTVKSLRQGKSKLIIIAANTPV-LRKSELEYYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSILEAGDSD   99 (105)
T ss_dssp             SEEEESHHHHHHHHHTTCCSEEEECTTSCH-HHHHHHHHHHHHHTCEEEECSSCHHHHHHHTTCSSCCSEEEEEECCSCC
T ss_pred             CCeeECHHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEeCCCHHHHHHHhCCcccEEEEEEeccchHH
Confidence            356899999999999999999999999998 579999999999999999 799999999999999888889999988865


Q ss_pred             c
Q 033552           89 E   89 (117)
Q Consensus        89 ~   89 (117)
                      .
T Consensus       100 ~  100 (105)
T 3u5e_c          100 I  100 (105)
T ss_dssp             T
T ss_pred             H
Confidence            4

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

Probab=99.84  E-value=3.1e-22  Score=141.49  Aligned_cols=70  Identities=21%  Similarity=0.419  Sum_probs=65.6

Q ss_pred             eeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEee
Q 033552           13 CVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLT   83 (117)
Q Consensus        13 ~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~   83 (117)
                      ..|+++++++|++|+++|||||+|++|++++.||+.+|+++||||++++||++||+|||+++ +++++|++
T Consensus        27 ~~G~~~v~kaI~~gka~LVvIA~D~~p~~i~~~l~~lC~~~~VP~~~v~sk~~LG~a~G~k~-~a~vai~d   96 (113)
T 3jyw_G           27 KYGLNHVVALIENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKT-SAVAALTE   96 (113)
T ss_dssp             EESHHHHHHTTTTTCCSEEEECSCCSSHHHHTTHHHHHHHTTCCCEECSCSTTTHHHHCSSS-CCSEEEEC
T ss_pred             hchHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCC-cEEEEEEe
Confidence            46999999999999999999999999988999999999999999999999999999999996 56677776

>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=99.84  E-value=9.7e-22  Score=134.85  Aligned_cols=75  Identities=12%  Similarity=0.046  Sum_probs=68.5

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCC
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT   86 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~   86 (117)
                      .+-+.|.+||+++|++|++++||+|+|++|. .+++|+.+|++++|||++++|++|||+|||++ ++++++|++.++
T Consensus        17 gk~v~G~~~v~kai~~gka~lViiA~D~~~~-~~~~i~~~c~~~~ip~~~~~s~~eLG~a~Gk~-~~~~vai~d~g~   91 (101)
T 3on1_A           17 RQLLTGEEQVVKAVQNGQVTLVILSSDAGIH-TKKKLLDKCGSYQIPVKVVGNRQMLGRAIGKH-ERVVIGVKDAGF   91 (101)
T ss_dssp             TCEEESHHHHHHHHHTTCCSEEEEETTSCHH-HHHHHHHHHHHHTCCEEEESCHHHHHHHTTSS-CCSEEEECCHHH
T ss_pred             CCEeECHHHHHHHHHcCCCcEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCc-CeEEEEEECccH
Confidence            3568899999999999999999999999994 79999999999999999999999999999997 677899987444

>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=99.84  E-value=7.7e-22  Score=136.27  Aligned_cols=78  Identities=13%  Similarity=0.142  Sum_probs=72.2

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEE-EECCHhHHHhhcCCCcceEEEEEeecCCCCc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYI-YVASKEDLANAGATKRPTCCVLVLTKPTKGE   89 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i-~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~   89 (117)
                      +-+.|.+||+++|++|++++||+|+|++|. ..++++.+|++++|||+ |++|++|||+|||+++++++++|++.+++..
T Consensus        22 klv~G~~~v~kai~~gkaklViiA~D~~~~-~~~~i~~~c~~~~ip~~~~~~s~~eLG~a~Gk~~~~~~vaI~D~G~a~~  100 (104)
T 4a18_G           22 KATLGYKSTIKAIRNGTAKLVFISNNCPTV-RKSEIEYYASLAQISIHHFVGSNVELGTACGKYHRCSTMAILDAGDSDI  100 (104)
T ss_dssp             EEEESHHHHHHHHHHTCCCEEEECTTSCHH-HHHHHHHHHHHHTCEEEECSSCHHHHHHHTTCSSCCSEEEEEECSSCGG
T ss_pred             CEeECHHHHHHHHHcCCceEEEEeCCCCHH-HHHHHHHHHHHcCCcEEEecCCHHHHHHHhCCccCEEEEEEeccchHHH
Confidence            458899999999999999999999999994 79999999999999999 6999999999999998888999999887654

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

Probab=99.83  E-value=2.3e-21  Score=132.51  Aligned_cols=78  Identities=12%  Similarity=0.071  Sum_probs=70.9

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEE-CCHhHHHhhcCCCcceEEEEEeecCCCCc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYV-ASKEDLANAGATKRPTCCVLVLTKPTKGE   89 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v-~tK~eLG~A~G~~~~~svv~I~~~~~~~~   89 (117)
                      +-+.|.+||+++|++|++++||+|+|+++ +++++|+.+|++++|||+.+ +|++|||+|||+++++++++|++.+++..
T Consensus        15 k~v~G~~~v~kai~~gka~lViiA~D~~~-~~~~~i~~~c~~~~ip~~~~~~s~~eLG~a~Gk~~~~~~vaI~d~g~a~~   93 (99)
T 3j21_Z           15 KVVLGSNETIRLAKTGGAKLIIVAKNAPK-EIKDDIYYYAKLSDIPVYEFEGTSVELGTLLGKPFVVASLAIVDPGESKI   93 (99)
T ss_dssp             CEEESHHHHHHHHHHTCCSEEEEECCCCH-HHHHHHHHHHHHTTCCEEEECCCSCGGGGTTCSTTCSEEEEESSCSSCSH
T ss_pred             CEeECHHHHHHHHHcCCccEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEeCCCHHHHHHHHCCCCCEEEEEEEccchHHH
Confidence            45889999999999999999999999876 78999999999999997555 99999999999998889999999887653

>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=99.82  E-value=3.6e-21  Score=132.28  Aligned_cols=74  Identities=16%  Similarity=0.114  Sum_probs=67.3

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT   86 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~   86 (117)
                      +-+.|.+||+++|++|++++||+|+|++|. ..++|+.+|++++|||++++|++|||+|||++ .+++++|++.++
T Consensus        19 k~v~G~~~v~kai~~gka~lViiA~D~~~~-~~~~i~~~c~~~~vp~~~~~s~~eLG~A~Gk~-~~~~~ai~D~g~   92 (101)
T 3v7q_A           19 KVVSGEDLVIKEIRNARAKLVLLTEDASSN-TAKKVTDKCNYYKVPYKKVESRAVLGRSIGKE-ARVVVAVTDQGF   92 (101)
T ss_dssp             CEEESHHHHHHHHHTTCCSEEEEETTSCHH-HHHHHHHHHHHTTCCEEEESCHHHHHHHTTSS-CCSEEEECCHHH
T ss_pred             hcccchhhhHHHHhcCceeEEEEecccccc-chhhhcccccccCCCeeeechHHHHHhhhCcc-ceEEEEEeccHH
Confidence            457899999999999999999999999995 79999999999999999999999999999998 456789887444

>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=99.82  E-value=1e-20  Score=129.57  Aligned_cols=77  Identities=14%  Similarity=0.160  Sum_probs=69.8

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEE-CCHhHHHhhcCCCcceEEEEEeecCCCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYV-ASKEDLANAGATKRPTCCVLVLTKPTKG   88 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v-~tK~eLG~A~G~~~~~svv~I~~~~~~~   88 (117)
                      +-+.|.++++++|++|++++||+|+|+++ +++++|+.+|++++|||+.+ +|+++||+|||+++++++++|++.+++.
T Consensus        16 kl~~G~~~v~kai~~gka~lViiA~D~~~-~~~~~l~~~c~~~~vp~~~~~~s~~eLG~a~G~~~~~~~vai~d~g~a~   93 (101)
T 1w41_A           16 KIVMGARKSIQYAKMGGAKLIIVARNARP-DIKEDIEYYARLSGIPVYEFEGTSVELGTLLGRPHTVSALAVVDPGASR   93 (101)
T ss_dssp             EEEESHHHHHHHHHHTCCSEEEEETTSCH-HHHHHHHHHHHHHTCCEEEESSCHHHHHHHTTCSSCCCEEEEEECTTCC
T ss_pred             CEeECHHHHHHHHHcCCCcEEEEeCCCCH-HHHHHHHHHHHhcCCCEEEecCCHHHHHHHhCCCCcEEEEEEecCCHHH
Confidence            44789999999999999999999999765 78999999999999998875 9999999999999777889999877755

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

Probab=99.82  E-value=1.5e-20  Score=134.60  Aligned_cols=78  Identities=12%  Similarity=0.169  Sum_probs=70.2

Q ss_pred             CccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCC-----------CcceE
Q 033552            9 HSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGAT-----------KRPTC   77 (117)
Q Consensus         9 ~~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~-----------~~~~s   77 (117)
                      |.+-+.|.++++++|++|+++|||||+|++|.+++++|+.+|++++|||++++||++||+|||+           ..+++
T Consensus        22 ~gkl~~G~~~v~Kai~~gka~LViiA~D~~p~~~~~~i~~lc~~~~Ip~~~v~sk~~LG~a~G~~k~d~~g~~rk~v~~s  101 (126)
T 2xzm_U           22 QDAISKGLHEVLRTIEAKQALFVCVAEDCDQGNYVKLVKALCAKNEIKYVSVPKRASLGEYLGHFTANAKGEIKKVKGCS  101 (126)
T ss_dssp             SSCEEESHHHHHHHHHHTCCSEEEEESSCCSTTHHHHHHHHHHHTTCCEEEESCSHHHHHHHTCCCBCTTCCBSCCCCCC
T ss_pred             cCCEeecHHHHHHHHHcCCceEEEEeCCCChHHHHHHHHHHHHHhCCCEEEECCHHHHHHHHCCCccccccCcCceeeEE
Confidence            4566899999999999999999999999998788999999999999999999999999999997           24488


Q ss_pred             EEEEeecCC
Q 033552           78 CVLVLTKPT   86 (117)
Q Consensus        78 vv~I~~~~~   86 (117)
                      +++|++.+.
T Consensus       102 ~vaI~d~g~  110 (126)
T 2xzm_U          102 SLAIRKYAP  110 (126)
T ss_dssp             EEEESSCCT
T ss_pred             EEEEEecCc
Confidence            899987443

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

Probab=99.81  E-value=1.8e-20  Score=130.55  Aligned_cols=77  Identities=23%  Similarity=0.239  Sum_probs=69.8

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEE-CCHhHHHhhcCCCcceEEEEEeecCCCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYV-ASKEDLANAGATKRPTCCVLVLTKPTKG   88 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v-~tK~eLG~A~G~~~~~svv~I~~~~~~~   88 (117)
                      +-+.|.++++++|++|++++||||+|++ .+++++|+.+|++++|||+.+ +|+++||.|||+++++++++|++.++..
T Consensus        21 kl~~G~~~v~kai~~gka~lViiA~D~~-~~~~~~l~~~c~~~~Vp~~~~~~sk~eLG~a~G~~~~~s~vaI~d~g~a~   98 (110)
T 3cpq_A           21 KVILGSKRTIKFVKHGEGKLVVLAGNIP-KDLEEDVKYYAKLSNIPVYQHKITSLELGAVCGKPFPVAALLVLDEGLSN   98 (110)
T ss_dssp             EEEESHHHHHHHHHTTCCSEEEECTTCB-HHHHHHHHHHHHHTTCCEEECCSCHHHHHHHTTCSSCCSEEEEEECTTCC
T ss_pred             CeeeCHHHHHHHHHcCCceEEEEeCCCC-HHHHHHHHHHHHHcCCCEEEEcCCHHHHHHHhCCccceEEEEEecCCHHH
Confidence            4478999999999999999999999994 579999999999999998887 9999999999999777789999877644

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

Probab=99.81  E-value=9.9e-21  Score=150.34  Aligned_cols=95  Identities=20%  Similarity=0.319  Sum_probs=70.1

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCC-Cc-
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTK-GE-   89 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~-~~-   89 (117)
                      =+.|.++|+++|++|+++|||||+|++|.+++.+++.+|++++|||++++|+++||+|||+++ +++++|++.+.. .. 
T Consensus       136 L~~G~keV~KaIekgkAkLVIIA~DasP~ei~~~Lp~LC~~~~VPyi~v~sk~eLG~A~Gkk~-~s~VAItD~G~eD~~a  214 (266)
T 2zkr_f          136 LRAGVNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGHLVHRKT-CTTVAFTQVNSEDKGA  214 (266)
T ss_dssp             CCBSHHHHHHHHHTTCCSEEEEESCCSSSTTTTHHHHHHHHHTCCEEEESCHHHHHHHHTSSC-CSEEEETTCSSTTTTH
T ss_pred             eeeChHHHHHHHHhCCceEEEEecCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCCC-ceEEEEeecCcchHHH
Confidence            367999999999999999999999999999999999999999999999999999999999984 666777765443 21 


Q ss_pred             ---cchHHHHhhHHHHHHHHH
Q 033552           90 ---LGQEEQDKLKADYTLVVE  107 (117)
Q Consensus        90 ---~~~~e~~~~~~~~~e~~~  107 (117)
                         +.+.-.+.|.+.|+|+.+
T Consensus       215 l~klve~ik~~y~d~y~e~~~  235 (266)
T 2zkr_f          215 LAKLVEAIRTNYNDRYDEIRR  235 (266)
T ss_dssp             HHHHHHHHC------------
T ss_pred             HHHHHHHHHHhhhhhhhHHHH
Confidence               112234567777887764

>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=99.79  E-value=1.2e-19  Score=143.26  Aligned_cols=86  Identities=24%  Similarity=0.417  Sum_probs=72.6

Q ss_pred             eeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCccchH
Q 033552           14 VGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQE   93 (117)
Q Consensus        14 vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~~~~~   93 (117)
                      .|++.++++|++|+++|||||+|++|++++.|||.+|+++||||++++|+++||+|||+++ +++++|++-         
T Consensus       127 ~GvneVtKaIekgKAqLVVIA~DvdPielv~~LPaLCee~~VPY~~V~sK~~LG~avGrKt-~s~Vaitdv---------  196 (255)
T 4a17_F          127 YGLNHITTLIENKQAKLVVIAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKT-ATAVALTEV---------  196 (255)
T ss_dssp             ECHHHHHHHHHTSCCSEEEEESCCSSTHHHHHHHHHHHHTTCCEEEESCHHHHHHHHTSSC-CSEEEECCC---------
T ss_pred             cchHHHHHHHHcCCceEEEEeCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCc-ceEEEeecc---------
Confidence            4999999999999999999999999999999999999999999999999999999999986 456777651         


Q ss_pred             HHHhhHHHHHHHHHHHH
Q 033552           94 EQDKLKADYTLVVEDVK  110 (117)
Q Consensus        94 e~~~~~~~~~e~~~~~~  110 (117)
                       .++++..|+++++.++
T Consensus       197 -~~EDk~al~kLve~ik  212 (255)
T 4a17_F          197 -RNEDKAKLQQFSELFK  212 (255)
T ss_dssp             -CHHHHHHHHHHHHHHH
T ss_pred             -CHHHHHHHHHHHHHHH
Confidence             2234445555555554

>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=99.79  E-value=3.4e-20  Score=135.83  Aligned_cols=78  Identities=22%  Similarity=0.236  Sum_probs=70.5

Q ss_pred             CccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhh--hCCCCEEEECCHhHHHhhcCCC-----------cc
Q 033552            9 HSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCE--ESDIPYIYVASKEDLANAGATK-----------RP   75 (117)
Q Consensus         9 ~~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce--~~~IP~i~v~tK~eLG~A~G~~-----------~~   75 (117)
                      |.+-++|++|++|+|++|+++|||||+|++|.+++++|+.+|+  +++|||++++||++||+|||+.           .+
T Consensus        38 ~g~l~~G~~et~Kal~kg~a~LvvLA~D~~~~~i~k~i~~lC~~~e~~IP~i~V~s~keLG~a~Gl~k~d~~Gk~rkVv~  117 (143)
T 3u5c_M           38 HDGLARGLRESTKALTRGEALLVVLVSSVTEANIIKLVEGLANDPENKVPLIKVADAKQLGEWAGLGKIDREGNARKVVG  117 (143)
T ss_dssp             TTCEEESHHHHHHHHSSTTCSCEECCSCCSTTHHHHHHHHHHHCSSSCCCCCCCSCHHHHHHHSSCCCCSSSSCCSCCCC
T ss_pred             cCCEeEcHHHHHHHHhcCceeEEEEeCCCCHHHHHHHHHHHHhhhhhCCCEEEECCHHHHhHHhCcCccccCCCccccce
Confidence            4567899999999999999999999999998789999999999  9999999999999999999964           24


Q ss_pred             eEEEEEeecCC
Q 033552           76 TCCVLVLTKPT   86 (117)
Q Consensus        76 ~svv~I~~~~~   86 (117)
                      ++|++|++-+.
T Consensus       118 ~s~v~I~d~G~  128 (143)
T 3u5c_M          118 ASVVVVKNWGA  128 (143)
T ss_dssp             CSCEEESCCCC
T ss_pred             eEEEEEcccch
Confidence            67899987555

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

Probab=99.75  E-value=1.8e-18  Score=129.28  Aligned_cols=96  Identities=22%  Similarity=0.205  Sum_probs=75.9

Q ss_pred             Cccceeeeecchhhh--hcCCccEEEEeCCCC-CcchheeHH-----HHhhhCCCCEEEECCHhHHHhhcCC--------
Q 033552            9 HSFNCVGVVNDPLPL--LFHECRLCVIAGNIS-PIDVITHVP-----ILCEESDIPYIYVASKEDLANAGAT--------   72 (117)
Q Consensus         9 ~~~~~vG~kqt~kaL--~kg~~~LViLA~Das-p~~i~~~i~-----~lce~~~IP~i~v~tK~eLG~A~G~--------   72 (117)
                      |..-++|++|+.|+|  .+|.+.+||||+|++ |..+..|++     .+|++++|||++|+||++||+|||+        
T Consensus        33 ~~~l~~G~kEt~KaL~~~k~~a~lcvLA~D~d~~~~i~~hi~~~li~alC~E~~Ip~i~V~s~k~LG~a~Gi~~~~~~~~  112 (165)
T 2kg4_A           33 QRTITVGVYEAAKLLNVDPDNVVLCLLAADEDDDRDVALQIHFTLIQAFCCENDINILRVSNPGRLAELLLLETDAGPAA  112 (165)
T ss_dssp             HTCEEECGGGHHHHHHHCTTTEEEEEEECCTGGGGCHHHHHHHHHHHHHHHHTTCCEEEESCHHHHHHHHHHTTTCSSCC
T ss_pred             cCCeeecHHHHHHHHhcCCCcEEEEEEeCCCCccchhhhhccHHHHHHHHHHcCCCEEEECCHHHHHHHHCCcccccccc
Confidence            456799999999999  999999999999997 666656655     9999999999999999999999996        


Q ss_pred             ------CcceEEEEEeecCCCCccchHHHHhhHHHHHHH
Q 033552           73 ------KRPTCCVLVLTKPTKGELGQEEQDKLKADYTLV  105 (117)
Q Consensus        73 ------~~~~svv~I~~~~~~~~~~~~e~~~~~~~~~e~  105 (117)
                            .|+++|++|++.+.... ..+..+.+.+++++.
T Consensus       113 ~d~~g~~r~~scv~V~~~g~~s~-~~~a~~~l~~~~~e~  150 (165)
T 2kg4_A          113 SEGAEQPPDLHCVLVTNPHSSQW-KDPALSQLICFCRES  150 (165)
T ss_dssp             CCSSCCCSCSCEEEEECCSSCCC-CCHHHHHHHHHHHHH
T ss_pred             cccCCCcccceEEEEeccccccc-cchHHHHHHHHHHHh
Confidence                  26688999987554321 113345555555554

>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=9e-19  Score=125.06  Aligned_cols=78  Identities=10%  Similarity=0.098  Sum_probs=70.2

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEE-EECCHhHHHhhcCCCcceEEEEEeecCCCCc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYI-YVASKEDLANAGATKRPTCCVLVLTKPTKGE   89 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i-~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~   89 (117)
                      +-+.|.+||+++|++|+++|||||+|++| +++.+++.+|...++|+. +++|++|||+|||+++++++++|++.++...
T Consensus        27 klv~G~~~v~kaIr~gkakLVIiA~Das~-~~~~ki~~~~~~~~~~V~~~~~sk~eLG~A~Gk~~~v~~vaI~D~G~a~~  105 (125)
T 3vi6_A           27 KYVLGYKQTLKMIRQGKAKLVILANNCPA-LRKSEIEYYAMLAKTGVHHYSGNNIELGTACGKYYRVCTLAIIDPGDSDI  105 (125)
T ss_dssp             EEEESHHHHHHHHHTTCCSEEEECTTSCH-HHHHHHHHHHHHTTCEEEECSSCHHHHHHHTTCSSCCCEEEEEECTTCCC
T ss_pred             CeeeCHHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHHhCCCcEEEcCCHHHHHHHhCCcccEEEEEEeCchhHHH
Confidence            45889999999999999999999999999 689999999888877754 6999999999999998888899999888764

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

Probab=98.87  E-value=3e-09  Score=78.03  Aligned_cols=95  Identities=19%  Similarity=0.223  Sum_probs=69.2

Q ss_pred             CccceeeeecchhhhhcC--CccEEEEeCCCCC------cchheeHHHHhhhCCCCEEEECCHhHHHhhcCC------Cc
Q 033552            9 HSFNCVGVVNDPLPLLFH--ECRLCVIAGNISP------IDVITHVPILCEESDIPYIYVASKEDLANAGAT------KR   74 (117)
Q Consensus         9 ~~~~~vG~kqt~kaL~kg--~~~LViLA~Dasp------~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~------~~   74 (117)
                      |..=++|+.-+.|+|.+.  .+.|+|||.|++.      ...++-|..+|.+++||++-|++.+.||+++|+      .|
T Consensus        23 ~dgL~~Gl~EaaKaLdk~p~~a~lCvLA~dcd~e~D~a~~~y~kLveAlC~E~~I~lIkVdd~kkLgew~Gk~d~~g~pr  102 (146)
T 3cg6_A           23 QGCLTAGVYESAKVLNVDPDNVTFCVLAADEEDEGDIALQIHFTLIQAFCCENDIDIVRVGDVQRLAAIVGSDEEGGAPG  102 (146)
T ss_dssp             HTCEEESHHHHHHHHHHCGGGEEEEEEECCTGGGGCHHHHHHHHHHHHHHHHTTCEEEEECCHHHHHHHC----------
T ss_pred             hCCccccHHHHHHHHhcCCCeEEEEEecCCCccccchhHHHHHHHHHHHHhhcCCCeEEeCchhHHHHHhCCcCCCCCCC
Confidence            445578999999999997  8999999999982      135777889999999999999999999999994      34


Q ss_pred             ceEEEEEeecCCCCccchHHHHhhHHHHHH
Q 033552           75 PTCCVLVLTKPTKGELGQEEQDKLKADYTL  104 (117)
Q Consensus        75 ~~svv~I~~~~~~~~~~~~e~~~~~~~~~e  104 (117)
                      ..+|++|++-+...- .....+.+.++++|
T Consensus       103 ~~sCvvV~d~g~e~~-~s~al~~l~~y~~e  131 (146)
T 3cg6_A          103 DLHCILISNPNEDTW-KDPALEKLSLFCEE  131 (146)
T ss_dssp             CCSEEEEECCC---C-CCHHHHHHHHHHHH
T ss_pred             CCEEEEEecCCcccc-cCHHHHHHHHHHHH
Confidence            577899886443210 11224455555554

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

Probab=98.64  E-value=8.6e-08  Score=71.54  Aligned_cols=78  Identities=22%  Similarity=0.310  Sum_probs=64.8

Q ss_pred             CccceeeeecchhhhhcC--CccEEEEeCCCC-Ccc-----hheeHHHHhhhCCCCEEEECCHhHHHhhcCCC------c
Q 033552            9 HSFNCVGVVNDPLPLLFH--ECRLCVIAGNIS-PID-----VITHVPILCEESDIPYIYVASKEDLANAGATK------R   74 (117)
Q Consensus         9 ~~~~~vG~kqt~kaL~kg--~~~LViLA~Das-p~~-----i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~------~   74 (117)
                      |..=++|+.-+.|+|.+.  .+.|+|||.|++ +.+     .++-|..+|.+++||++.|.+.+.||.++|+.      +
T Consensus        44 ~dgL~~Gl~EaaKaLd~~p~~a~LCvLA~dc~~e~D~alqmy~kLVeAlC~E~~I~LIkV~d~kkLgew~G~~~~~~k~~  123 (167)
T 3ffm_A           44 QGCLTAGVYESAKVLNVDPDNVTFCVLAAGEEDEGDIALQIHFTLIQAFCCENDIDIVRVGDVQRLAAIVGAGEEAGAPG  123 (167)
T ss_dssp             TTCEEESHHHHHHHHHHCGGGEEEEEEECCGGGTTCHHHHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHTTSCCSSSCS
T ss_pred             hCCccccHHHHHHHhccCCCeEEEEEEeCCCCcccchhHHHHHHHHHHHHhhcCCCeEEeCCcchHHHHhCcCCCCCCCC
Confidence            455678999999999884  899999999986 334     36778899999999999999999999999952      3


Q ss_pred             ceEEEEEeecCC
Q 033552           75 PTCCVLVLTKPT   86 (117)
Q Consensus        75 ~~svv~I~~~~~   86 (117)
                      ..+|++|++-+.
T Consensus       124 ~csCVlVtd~ge  135 (167)
T 3ffm_A          124 DLHCILISNPNE  135 (167)
T ss_dssp             CCSEEEEECSSS
T ss_pred             ccEEEEECCCCc
Confidence            578899986444

>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=93.22  E-value=0.12  Score=37.67  Aligned_cols=60  Identities=12%  Similarity=0.181  Sum_probs=50.6

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCc--------------------------------------------chheeH
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPI--------------------------------------------DVITHV   46 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~--------------------------------------------~i~~~i   46 (117)
                      .-+.|.++|++|+.-|.+..++|..|....                                            +++..+
T Consensus        46 ~~~yG~~ev~~Ale~GAVetLlv~e~l~~~r~~~~c~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~e~~~~ve~L  125 (166)
T 3ir9_A           46 KVAYGESQVRANLEINSVDVLLLSEDLRAERVTTKCSVCGYENKWTRRWKPGEPAPAAGNCPKCGSSLEVTDVTDIVDEF  125 (166)
T ss_dssp             CEEESHHHHHHHHTTTCEEEEEEETTCCCEEEEEEESSSSCEEEEEECCCC--CCCCCCBCTTTCCBEEEEEEEEHHHHH
T ss_pred             cEEEcHHHHHHHHHhCCceEEEEecCccceEEEEECCCCCceeEEEeecChhhcccccccccccCccchhhhHHHHHHHH
Confidence            458899999999999999999999886421                                            345678


Q ss_pred             HHHhhhCCCCEEEECCHhHHHhhc
Q 033552           47 PILCEESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        47 ~~lce~~~IP~i~v~tK~eLG~A~   70 (117)
                      ...++++|.-+.++.++.+-|.-+
T Consensus       126 ~e~~~~~G~~v~ivs~~~eeG~ql  149 (166)
T 3ir9_A          126 SELADKSNAKVVFVSTDFDEGSQL  149 (166)
T ss_dssp             HHHHHHTTCEEEEECSCSHHHHHH
T ss_pred             HHHHHhcCCEEEEECCCChhHHHH
Confidence            889999999999999999988654

>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=89.05  E-value=0.34  Score=32.39  Aligned_cols=59  Identities=7%  Similarity=-0.077  Sum_probs=44.8

Q ss_pred             CccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHH
Q 033552            9 HSFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLA   67 (117)
Q Consensus         9 ~~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG   67 (117)
                      +...++|..+..+.+++..+..|++|-..........+...|+..++.+..+++..++-
T Consensus        47 ~g~pV~g~~~l~~~~~~~~id~viia~~~~~~~~~~~i~~~l~~~gv~v~~vP~~~~~~  105 (141)
T 3nkl_A           47 QGITIYRPKYLERLIKKHCISTVLLAVPSASQVQKKVIIESLAKLHVEVLTIPNLDDLV  105 (141)
T ss_dssp             TTEEEECGGGHHHHHHHHTCCEEEECCTTSCHHHHHHHHHHHHTTTCEEEECCCHHHHH
T ss_pred             cCeEEECHHHHHHHHHHCCCCEEEEeCCCCCHHHHHHHHHHHHHcCCeEEECCCHHHHh
Confidence            34566774444555677788899999765443567889999999999999999998864

>1gz0_A Hypothetical tRNA/RRNA methyltransferase YJFH; 2'O-methyltransferase, knot, montreal- kingston bacterial structural genomics initiative, BSGI; 2.5A {Escherichia coli} SCOP: c.116.1.1 d.79.3.3

Probab=88.07  E-value=0.83  Score=34.86  Aligned_cols=78  Identities=8%  Similarity=-0.069  Sum_probs=55.3

Q ss_pred             CCCCCccceeeeecchhhhhcC--CccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEe
Q 033552            5 NDNLHSFNCVGVVNDPLPLLFH--ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL   82 (117)
Q Consensus         5 ~~~~~~~~~vG~kqt~kaL~kg--~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~   82 (117)
                      .+....+-+-|.+-+..+|+.+  ...-+++..+..... ...+..+|+..++|+..+ +++.|-+.++...+-.++++.
T Consensus         7 r~~~~~~~veG~~~V~eal~~~~~~i~~l~~~~~~~~~~-~~~l~~~~~~~~i~v~~v-~~~~l~~ls~~~~~qGv~a~~   84 (253)
T 1gz0_A            7 RGSHMSEMIYGIHAVQALLERAPERFQEVFILKGREDKR-LLPLIHALESQGVVIQLA-NRQYLDEKSDGAVHQGIIARV   84 (253)
T ss_dssp             -----CEEEESHHHHHHHHHSCGGGEEEEEEESSCCCTT-THHHHHHHHHHTCEEEEE-CSHHHHHTTTSCCCTTEEEEE
T ss_pred             cCCCCcEEEEEHHHHHHHHhcCCCCeEEEEEECCccchh-HHHHHHHHHHCCCcEEEe-CHHHHHHHhCCCCCcEEEEEE
Confidence            3444567778999999999988  477888888765422 456777888899998766 568899988876566666666


Q ss_pred             ec
Q 033552           83 TK   84 (117)
Q Consensus        83 ~~   84 (117)
                      ..
T Consensus        85 ~~   86 (253)
T 1gz0_A           85 KP   86 (253)
T ss_dssp             CC
T ss_pred             ec
Confidence            53

>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=86.40  E-value=0.44  Score=33.08  Aligned_cols=59  Identities=7%  Similarity=-0.138  Sum_probs=48.7

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCC--C-----cchheeHHHHhhhCCCCEEEECCHhHHHhhc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNIS--P-----IDVITHVPILCEESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Das--p-----~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~   70 (117)
                      .-+-|.++|.+|+..|.+..++|..|.-  +     .++.. +...++++|..+.++.+..+-|.-+
T Consensus        38 ~~~yG~~eV~~Ale~GAVetLLI~d~l~r~~d~~~~~~~~e-l~e~~~~~G~~V~ivs~~~~~G~qL  103 (124)
T 1x52_A           38 RAFYGLKQVEKANEAMAIDTLLISDELFRHQDVATRSRYVR-LVDSVKENAGTVRIFSSLHVSGEQL  103 (124)
T ss_dssp             GEEESHHHHHHHHHTTCEEEEEEEHHHHTCSSHHHHHHHHH-HHHHHHHTTCEEEEECSSSHHHHHH
T ss_pred             cEEECHHHHHHHHHcCCccEEEechhhhcCCChHHHHHHHH-HHHHHHHcCCEEEEECCCCccHHHH
Confidence            4578999999999999999999998842  1     22445 7888899999999999998888665

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

Probab=86.35  E-value=1.2  Score=34.46  Aligned_cols=73  Identities=10%  Similarity=-0.025  Sum_probs=52.6

Q ss_pred             CccceeeeecchhhhhcC-CccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecC
Q 033552            9 HSFNCVGVVNDPLPLLFH-ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP   85 (117)
Q Consensus         9 ~~~~~vG~kqt~kaL~kg-~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~   85 (117)
                      ..+-+-|.+-+..+|+.| ...-+++..+... .  ..+...|...++|+..+ +++.|.+.++...+-.++++...+
T Consensus        33 g~flveG~~~V~eaL~~~~~i~~l~~~~~~~~-~--~~l~~~~~~~~~~v~~v-~~~~l~~ls~~~~~qGv~a~~~~~  106 (277)
T 3nk6_A           33 KTTLIEDTEPLMECIRAGVQFIEVYGSSGTPL-D--PALLDLCRQREIPVRLI-DVSIVNQLFKAERKAKVFGIARVP  106 (277)
T ss_dssp             CEEEEESHHHHHHHHHTTCCEEEEEEETTSCC-C--HHHHHHHHHTTCCEEEE-CHHHHTTCC-----CCEEEEEECC
T ss_pred             CCEEEEeHHHHHHHHhCCCCeEEEEEeCCccC-c--HHHHHHHHhcCCcEEEE-CHHHHHHhhCCCCCCeEEEEEecC
Confidence            345677999999999988 4677888887664 2  45667788899998877 788999988876666667776644

>3agk_A Peptide chain release factor subunit 1; translation; 2.10A {Aeropyrum pernix}

Probab=83.68  E-value=0.7  Score=36.97  Aligned_cols=55  Identities=13%  Similarity=0.028  Sum_probs=49.2

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHh
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLAN   68 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~   68 (117)
                      .=+-|+..+.+|++.|.+..++|..|  . +++..+...++..|-.+.++.+..+-|.
T Consensus       299 ~a~yG~~eV~~Al~~GaVetLlv~d~--r-d~~~~L~e~a~~~G~~V~ivs~~~~~g~  353 (373)
T 3agk_A          299 MIVYGEKDVEAALEMGAVKTLLIHES--R-EDLEEWVEKAKSSGAQVIVVPESLAEAE  353 (373)
T ss_dssp             CEEESHHHHHHHHHTTCEEEEEEETT--C-TTHHHHHHHHTTTTCEEEEECTTSTTHH
T ss_pred             cEeeCHHHHHHHHHhCCccEEEEeCC--h-hHHHHHHHHHHHcCCEEEEECCCCccHH
Confidence            34789999999999999999999998  3 6789999999999999999999977774

>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=83.05  E-value=3.3  Score=29.15  Aligned_cols=43  Identities=12%  Similarity=0.135  Sum_probs=39.4

Q ss_pred             chhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECC
Q 033552           19 DPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVAS   62 (117)
Q Consensus        19 t~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~t   62 (117)
                      ..+.|++.....++|.++.+. +....+..+|.++|+|+..|.+
T Consensus        55 ~~~~l~~~~~~~l~ing~l~~-~~~~~YiklA~~~~i~fTiV~~   97 (133)
T 2ohw_A           55 AEHELKNSHNVTLLINGELQY-QSYSSYIQMASRYGVPFKIVSD   97 (133)
T ss_dssp             HHHHHHTCSSEEEEEETTSCH-HHHHHHHHHHHHTTCCEEEECC
T ss_pred             HHHHHhhCCCcEEEEcCCCCH-HHHHHHHHHHHHcCCCeEEecC
Confidence            466888899999999999997 6899999999999999999988

>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=82.13  E-value=0.38  Score=38.67  Aligned_cols=59  Identities=10%  Similarity=0.006  Sum_probs=51.5

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCC-CcchheeHHHHhhhCCCCEEEECCHhHHHhhc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNIS-PIDVITHVPILCEESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Das-p~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~   70 (117)
                      .=+.|.+++.+|++.|.+..++|..+.. ..+ +..+.+.++++|.-+.++.+..+-|..+
T Consensus       265 ~~~YG~~eV~~Ale~GAVetLlV~d~l~rr~~-~~~L~e~~~~~G~~V~ivs~~~e~G~qL  324 (347)
T 2qi2_A          265 MGVYGRDQTESALQMGALSDLIITDEMFRTED-GRRSLSIAQTVGTRIHIVSVSNDPGQIV  324 (347)
T ss_dssp             CEEESHHHHHHHHHTTCEEEEEEEHHHHTSHH-HHHHHHHHHHHTCEEEEECTTSHHHHHH
T ss_pred             CEEEcHHHHHHHHHcCCCeEEEEecccccchh-HHHHHHHHHHcCCEEEEECCCCcchHHH
Confidence            4578999999999999999999999875 334 7888899999999999999998888665

>1dt9_A ERF1, protein (eukaryotic peptide chain release factor subunit 1); tRNA mimicry, protein sythesis, STOP codon recognition, peptidyl-tRNA hydrolysis; 2.70A {Homo sapiens} SCOP: c.55.4.2 d.79.3.2 d.91.1.1 PDB: 3e1y_A* 2ktu_A 2ktv_A 2lgt_A 2hst_A

Probab=81.59  E-value=1.4  Score=35.96  Aligned_cols=59  Identities=12%  Similarity=0.164  Sum_probs=47.8

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCC--------C-----------------------------------cchheeHH
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNIS--------P-----------------------------------IDVITHVP   47 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Das--------p-----------------------------------~~i~~~i~   47 (117)
                      .=+-|...|.+|++.|.+..++|..|..        +                                   .+++..|.
T Consensus       300 ~a~yG~~eV~~Al~~GaVetLLv~d~l~~~r~~~r~~~~g~~~~~~~~~~~~~~r~~~~~~~~g~~~~~~~~~d~ve~L~  379 (437)
T 1dt9_A          300 KYCFGVEDTLKALEMGAVEILIVYENLDIMRYVLHCQGTEEEKILYLTPEQEKDKSHFTDKETGQEHELIESMPLLEWFA  379 (437)
T ss_dssp             CEEESHHHHHHHHHSSCCSEEEEESCCCCBCCCC---------CCCBCTTCSSCCCCCC-----------CCCBHHHHHH
T ss_pred             cEEecHHHHHHHHHhCCccEEEEecCcccceEEEEcCCCCceeeeeeccccccccccccCcccCccccccccccHHHHHH
Confidence            4578999999999999999999998865        1                                   01233377


Q ss_pred             HHhhhCCCCEEEECCHhHHHhh
Q 033552           48 ILCEESDIPYIYVASKEDLANA   69 (117)
Q Consensus        48 ~lce~~~IP~i~v~tK~eLG~A   69 (117)
                      ..++++|..+.++.+..+-|..
T Consensus       380 e~~~~~G~~V~ivs~~~e~G~q  401 (437)
T 1dt9_A          380 NNYKKFGATLEIVTDKSQEGSQ  401 (437)
T ss_dssp             HTCTTTTSCEEEECSSSHHHHH
T ss_pred             HHHHHcCCEEEEECCCChhHHH
Confidence            7888999999999999988865

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

Probab=80.88  E-value=2.2  Score=35.34  Aligned_cols=59  Identities=10%  Similarity=0.080  Sum_probs=49.3

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCCC---------------------------------------------cchheeH
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNISP---------------------------------------------IDVITHV   46 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Dasp---------------------------------------------~~i~~~i   46 (117)
                      -+.|.++|.+|++.|.+..++|..+..-                                             .+++..+
T Consensus       306 a~YG~~eV~~Ale~GAVetLLIsD~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~g~~~~~~e~~~~ve~l  385 (441)
T 3e20_C          306 YCFGVVDTMNALQEGAVETLLCFADLDMIRYEFKNSEGNPVITYMTKEQEEKDSTNSFLLDKDTGAEMELVSSMLLSEWL  385 (441)
T ss_dssp             CCCSHHHHHHHHHSSCCSEEEEETTCCCEEC----------CCEECSCTTTCCC-----------------CCEEHHHHH
T ss_pred             EEECHHHHHHHHHhCCccEEEEecccccceeEEECCCCceEEEecCccccccccccccccCcccCccceecchhhHHHHH
Confidence            5789999999999999999999987740                                             1344467


Q ss_pred             HHHhhhCCCCEEEECCHhHHHhhc
Q 033552           47 PILCEESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        47 ~~lce~~~IP~i~v~tK~eLG~A~   70 (117)
                      ...++++|.-+.++.++.+-|..+
T Consensus       386 ~e~a~~~G~~v~~vs~~~~eG~ql  409 (441)
T 3e20_C          386 AEHYKDYGANLEFVSDRSQEGMQF  409 (441)
T ss_dssp             HHHGGGGSCCEEEECTTSHHHHHH
T ss_pred             HHHHHHcCCEEEEECCCCHHHHHH
Confidence            889999999999999999999654

>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=80.82  E-value=1.2  Score=33.16  Aligned_cols=46  Identities=9%  Similarity=0.040  Sum_probs=37.4

Q ss_pred             eeecchhhhhcCCccEEEEeCC---CCC--cchheeHHHHhhhCCCCEEEEC
Q 033552           15 GVVNDPLPLLFHECRLCVIAGN---ISP--IDVITHVPILCEESDIPYIYVA   61 (117)
Q Consensus        15 G~kqt~kaL~kg~~~LViLA~D---asp--~~i~~~i~~lce~~~IP~i~v~   61 (117)
                      |--|....|++|++.+||--.|   ..|  .+ ...|...|-.+||||..--
T Consensus        86 G~pqI~d~I~~geIdlVInt~dPl~~~~h~~D-~~~IRR~A~~~~IP~~Tnl  136 (178)
T 1vmd_A           86 GDQQIGAMIAEGKIDVLIFFWDPLEPQAHDVD-VKALIRIATVYNIPVAITR  136 (178)
T ss_dssp             HHHHHHHHHHTTSCCEEEEECCSSSCCTTSCC-HHHHHHHHHHTTCCEESSH
T ss_pred             CCchHHHHHHCCCccEEEEccCccCCCccccc-HHHHHHHHHHcCCCEEeCH
Confidence            5568899999999999999888   333  24 7789999999999996543

>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=80.56  E-value=1  Score=32.51  Aligned_cols=46  Identities=11%  Similarity=-0.032  Sum_probs=36.7

Q ss_pred             eeecchhhhhcCCccEEEEeCC---CCC-cchheeHHHHhhhCCCCEEEE
Q 033552           15 GVVNDPLPLLFHECRLCVIAGN---ISP-IDVITHVPILCEESDIPYIYV   60 (117)
Q Consensus        15 G~kqt~kaL~kg~~~LViLA~D---asp-~~i~~~i~~lce~~~IP~i~v   60 (117)
                      |--|....|++|++.+||--.|   ..| ..=...|...|-.+||||..-
T Consensus        70 G~p~I~d~I~~geIdlVInt~~pl~~~~h~~D~~~IrR~A~~~~IP~~T~  119 (152)
T 1b93_A           70 GDQQVGALISEGKIDVLIFFWDPLNAVPHDPDVKALLRLATVWNIPVATN  119 (152)
T ss_dssp             HHHHHHHHHHTTCCCEEEEECCTTSCCTTHHHHHHHHHHHHHTTCCEESS
T ss_pred             CCchHHHHHHCCCccEEEEcCCcccCCcccccHHHHHHHHHHcCCCEEeC
Confidence            5567899999999999999888   333 222677999999999999643

---

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	117
d2ozba1	125	d.79.3.1 (A:4-128) Spliceosomal 15.5kd protein {Hu	8e-16
d2alea1	126	d.79.3.1 (A:1-126) Small nuclear ribonucleoprotein	1e-15
d1rlga_	113	d.79.3.1 (A:) Ribosomal protein L7ae {Archaeon Arc	1e-15
d1xbia1	115	d.79.3.1 (A:2-116) Ribosomal protein L7ae {Archaeo	3e-15
d1vqof1	119	d.79.3.1 (F:1-119) Ribosomal protein L7ae {Archaeo	1e-14
d2aifa1	115	d.79.3.1 (A:16-130) Ribosomal protein L7ae {Crypto	3e-14
d2fc3a1	124	d.79.3.1 (A:4-127) Ribosomal protein L7ae {Aeropyr	5e-14
d1t0kb_	97	d.79.3.1 (B:) Eukaryotic ribosomal protein L30 (L3	3e-10
d1w3ex1	98	d.79.3.1 (X:1-98) Eukaryotic ribosomal protein L30	5e-10
d2bo1a1	100	d.79.3.1 (A:1-100) Eukaryotic ribosomal protein L3	2e-09

>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 = 66.1 bits (161), Expect = 8e-16
 Identities = 24/86 (27%), Positives = 42/86 (48%), Gaps = 9/86 (10%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
                V+A +  P+++I H+P+LCE+ ++PY++V SK+ L  A    RP     V  K  
Sbjct: 47  ISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIK-- 104

Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
                  E  +LK     + + ++ L
Sbjct: 105 -------EGSQLKQQIQSIQQSIERL 123

>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 = 65.7 bits (160), Expect = 1e-15
 Identities = 19/86 (22%), Positives = 39/86 (45%), Gaps = 9/86 (10%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
                ++A +  PI+++ H+P+LCE+ ++PY++V S+  L  A    RP     +     
Sbjct: 48  ISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASIT---- 103

Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
                  +   +K     V + ++ L
Sbjct: 104 -----TNDASAIKTQIYAVKDKIETL 124

>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 = 65.2 bits (159), Expect = 1e-15
 Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 11/87 (12%)

Query: 26  HECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP 85
              +L  IA ++ P +++ H+P+LCEE ++PYIYV SK DL  A   + P     ++   
Sbjct: 36  GLAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAII--- 92

Query: 86  TKGELGQEEQDKLKADYTLVVEDVKEL 112
                    + +L+ +   +VE +K L
Sbjct: 93  --------NEGELRKELGSLVEKIKGL 111

>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 = 64.1 bits (156), Expect = 3e-15
 Identities = 28/86 (32%), Positives = 45/86 (52%), Gaps = 12/86 (13%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
             +L +IA ++ P +V+ H+P LCEE  IPY YVASK+DL  A   +     V ++ +  
Sbjct: 41  IAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINE-- 98

Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
                  + ++LK     ++E V  L
Sbjct: 99  ------GDAEELKV----LIEKVNVL 114

>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 = 62.6 bits (152), Expect = 1e-14
 Identities = 19/86 (22%), Positives = 40/86 (46%), Gaps = 11/86 (12%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
              L  +A ++ P +++ H+P L +E  +P+I+V  ++DL +A   +  +    V     
Sbjct: 44  SAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVT---- 99

Query: 87  KGELGQEEQDKLKADYTLVVEDVKEL 112
                  +  +  AD   + + V+EL
Sbjct: 100 -------DAGEADADVEDIADKVEEL 118

>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 = 61.4 bits (149), Expect = 3e-14
 Identities = 18/85 (21%), Positives = 42/85 (49%), Gaps = 9/85 (10%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
              + ++A +  P++++ H+P++CE+ + PY++V SK  L  A    RP     + +K  
Sbjct: 40  IAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSK-- 97

Query: 87  KGELGQEEQDKLKADYTLVVEDVKE 111
                  +   L +  T + + +++
Sbjct: 98  -------DGSSLSSQITELKDQIEQ 115

>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 = 61.4 bits (149), Expect = 5e-14
 Identities = 24/74 (32%), Positives = 41/74 (55%)

Query: 27  ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT 86
             +L VIA ++ P +++ H+P+LC+E  IPY+YV SK+ L  A   +     V ++    
Sbjct: 44  LAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAIIEPGD 103

Query: 87  KGELGQEEQDKLKA 100
              L +E  +K+K 
Sbjct: 104 AETLVREIVEKVKE 117

>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 = 51.0 bits (122), Expect = 3e-10
 Identities = 10/57 (17%), Positives = 18/57 (31%), Gaps = 2/57 (3%)

Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIP-YIYVASKEDLANAGATKRPTCCVLVL 82
          + +L +IA N       + +      S    Y +     +L  A         V +L
Sbjct: 30 KSKLIIIAANTPV-LRKSELEYYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSIL 85

>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 = 50.5 bits (121), Expect = 5e-10
 Identities = 10/57 (17%), Positives = 20/57 (35%), Gaps = 2/57 (3%)

Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIP-YIYVASKEDLANAGATKRPTCCVLVL 82
            +L ++A N  P D+   +      S I  Y +  +  +L            + V+
Sbjct: 31 GAKLIIVARNARP-DIKEDIEYYARLSGIAVYEFEGTSVELGTLLGRPHTVSALAVV 86

>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 = 49.0 bits (117), Expect = 2e-09
 Identities = 13/57 (22%), Positives = 20/57 (35%), Gaps = 2/57 (3%)

Query: 27 ECRLCVIAGNISPIDVITHVPILCEESDIP-YIYVASKEDLANAGATKRPTCCVLVL 82
            +L +IA N  P D    +      S  P Y +  +  +L  A         V +L
Sbjct: 31 GSKLIIIARNTRP-DRKEDLEYYARLSGTPVYEFEGTNVELGTAVGKPHTVSVVSIL 86

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	117
d2ozba1	125	Spliceosomal 15.5kd protein {Human (Homo sapiens)	99.9
d2alea1	126	Small nuclear ribonucleoprotein-associated protein	99.9
d1xbia1	115	Ribosomal protein L7ae {Archaeon Methanococcus jan	99.89
d1rlga_	113	Ribosomal protein L7ae {Archaeon Archaeoglobus ful	99.89
d1vqof1	119	Ribosomal protein L7ae {Archaeon Haloarcula marism	99.89
d2fc3a1	124	Ribosomal protein L7ae {Aeropyrum pernix [TaxId: 5	99.88
d2aifa1	115	Ribosomal protein L7ae {Cryptosporidium parvum [Ta	99.88
d1w3ex1	98	Eukaryotic ribosomal protein L30 (L30e) {Archaeon	99.82
d1t0kb_	97	Eukaryotic ribosomal protein L30 (L30e) {Baker's y	99.81
d2bo1a1	100	Eukaryotic ribosomal protein L30 (L30e) {Archaeon	99.8
d1gz0a2	76	RlmB, N-terminal domain {Escherichia coli [TaxId:	96.22
d1dt9a2	146	C-terminal domain of eukaryotic peptide chain rele	93.25
d2qi2a3	95	Cell division protein pelota {Thermoplasma acidoph	89.54
d2vgna3	104	Dom34 {Saccharomyces cerevisiae [TaxId: 4932]}	88.98
d1x52a1	111	Cell division protein pelota {Human (Homo sapiens)	88.82
d1ko7a1	129	HPr kinase/phoshatase HprK N-terminal domain {Stap	83.57
d1knxa1	132	HPr kinase/phoshatase HprK N-terminal domain {Myco	82.99
d1ipaa2	105	RrmA (RrmH), N-terminal domain {Thermus thermophil	82.71
d2qy9a2	211	GTPase domain of the signal recognition particle r	80.22

>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=99.90  E-value=3.8e-24  Score=151.17  Aligned_cols=93  Identities=27%  Similarity=0.489  Sum_probs=83.8

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCccc
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELG   91 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~~~   91 (117)
                      =+.|.+|+.++|++|+++|||||+|++|.++++|++.+|++++|||++++||++||.|||+++++++++|...+      
T Consensus        32 l~~G~~ev~k~i~~gka~lViiA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~~~~~~~~i~~~~------  105 (125)
T d2ozba1          32 LRKGANEATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKE------  105 (125)
T ss_dssp             EEESHHHHHHHHHHTCEEEEEEETTCSSGGGSTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEECCT------
T ss_pred             cccChHHHHHHHHcCCceEEEEeCCCChHHHHHHHHHHHhcCCceEEEECCchHHHHHhCCCCCeEEEEEEecC------
Confidence            36799999999999999999999999999999999999999999999999999999999999888777765422      


Q ss_pred             hHHHHhhHHHHHHHHHHHHhhh
Q 033552           92 QEEQDKLKADYTLVVEDVKELA  113 (117)
Q Consensus        92 ~~e~~~~~~~~~e~~~~~~~l~  113 (117)
                         ..++++.|+++.+.+++|+
T Consensus       106 ---~~~~~~~~~el~~~i~~L~  124 (125)
T d2ozba1         106 ---GSQLKQQIQSIQQSIERLL  124 (125)
T ss_dssp             ---TCTTHHHHHHHHHHHHTTC
T ss_pred             ---cHHHHHHHHHHHHHHHhhc
Confidence               2467889999999999987

>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=99.90  E-value=5e-24  Score=150.95  Aligned_cols=93  Identities=24%  Similarity=0.470  Sum_probs=82.5

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCccc
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELG   91 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~~~   91 (117)
                      =..|++||.++|++|+++|||||+|++|.++++|++.+|++++|||++++||++||+|||+++++++++|..+ +     
T Consensus        33 l~~G~~ev~K~i~~g~a~lVviA~D~~p~~~~~~l~~lc~~~~Ip~~~v~sk~~LG~a~G~~~~~~~~~i~~~-~-----  106 (126)
T d2alea1          33 LKKGANEATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTN-D-----  106 (126)
T ss_dssp             EEESHHHHHHHHHHTCEEEEEEETTCSSGGGGTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEECC-T-----
T ss_pred             cccCHHHHHHHHHcCCCeEEEEeCCCChHHHHHHHHHHHhccCCCEEEECchhHHHHHhCCCCCeEEEEEecc-c-----
Confidence            3679999999999999999999999999999999999999999999999999999999999998888887652 2     


Q ss_pred             hHHHHhhHHHHHHHHHHHHhhh
Q 033552           92 QEEQDKLKADYTLVVEDVKELA  113 (117)
Q Consensus        92 ~~e~~~~~~~~~e~~~~~~~l~  113 (117)
                         ..++.+.|+++.+.++.|.
T Consensus       107 ---~~~~~~~~~~i~~~i~~L~  125 (126)
T d2alea1         107 ---ASAIKTQIYAVKDKIETLL  125 (126)
T ss_dssp             ---TCTTHHHHHHHHHHHHHHH
T ss_pred             ---hHHHHHHHHHHHHHHHhhc
Confidence               2356777888888888774

>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=99.89  E-value=4.1e-24  Score=148.64  Aligned_cols=74  Identities=32%  Similarity=0.535  Sum_probs=69.7

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecC
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP   85 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~   85 (117)
                      -+.|++|++++|++|++++||||+|++|.++..|++.+|++++|||++++||++||+|||+++++++++|++.+
T Consensus        26 l~~G~~~v~kai~~~~a~lVilA~D~~p~~~~~~l~~lc~~~~Vp~~~v~sk~~LG~a~g~~~~~s~vai~~~g   99 (115)
T d1xbia1          26 IKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEG   99 (115)
T ss_dssp             EEESHHHHHHHHHHTCCSEEEEESCCSSGGGTTTHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECS
T ss_pred             ccccHHHHHHHHHcCCCeEEEEeCCCCcHHHHHHHHHHHHhcCCCEEEECcHhHHHHHhCCCcceEEEEEEchh
Confidence            34699999999999999999999999998899999999999999999999999999999999999999998743

>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=99.89  E-value=8.9e-24  Score=146.09  Aligned_cols=91  Identities=30%  Similarity=0.547  Sum_probs=81.5

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCccc
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELG   91 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~~~   91 (117)
                      =+.|++|++++|++|+++|||||+|++|.+++.|++.+|++++|||++++|+++||+|||+++++++++|++.+      
T Consensus        22 l~~G~~~v~k~l~~~ka~lViiA~D~~p~~~~~~i~~lc~~~~vp~~~~~sk~~LG~a~G~~~~~s~~~i~~~g------   95 (113)
T d1rlga_          22 VKKGTNETTKAVERGLAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAIINEG------   95 (113)
T ss_dssp             EEESHHHHHHHHTTTCCSEEEEESCCSCSTTTTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECG------
T ss_pred             ccccHHHHHHHHHcCCceEEEEeCCCCcHHHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCCCEEEEEEEecc------
Confidence            35899999999999999999999999998899999999999999999999999999999999889999998733      


Q ss_pred             hHHHHhhHHHHHHHHHHHHhhh
Q 033552           92 QEEQDKLKADYTLVVEDVKELA  113 (117)
Q Consensus        92 ~~e~~~~~~~~~e~~~~~~~l~  113 (117)
                           ..++.|+++.++++.|+
T Consensus        96 -----~~~~~~~~l~e~i~~l~  112 (113)
T d1rlga_          96 -----ELRKELGSLVEKIKGLQ  112 (113)
T ss_dssp             -----GGHHHHHHHHHHHHTTT
T ss_pred             -----chHHHHHHHHHHHHhcc
Confidence                 23467888888888775

>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=99.89  E-value=1.1e-23  Score=147.39  Aligned_cols=76  Identities=20%  Similarity=0.387  Sum_probs=71.4

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPT   86 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~   86 (117)
                      +=+.|+++++++|++|+++|||||+|++|.++.+|++.+|++++|||++++||++||+|||+++++++++|++.++
T Consensus        28 kl~~G~~~v~k~l~~gka~lVilA~D~~p~~~~~~l~~lc~~~~Vp~~~~~tk~~LG~a~G~~~~~s~v~I~d~g~  103 (119)
T d1vqof1          28 AVKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVTDAGE  103 (119)
T ss_dssp             CEEESHHHHHHHHHHTCCSEEEEESCCSSGGGTTTHHHHHHTTTCCEEEESCHHHHHHHTTCSSCCSEEEESSCSS
T ss_pred             CccccHHHHHHHHHcCCceEEEEECCCChHHHHHHHHHHHhcCCCCEEEECCHHHHHHHhCCCCCeEEEEEEeccc
Confidence            3467999999999999999999999999988999999999999999999999999999999998899999998555

>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=99.88  E-value=3e-23  Score=146.01  Aligned_cols=90  Identities=30%  Similarity=0.515  Sum_probs=78.9

Q ss_pred             eeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecCCCCccch
Q 033552           13 CVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKPTKGELGQ   92 (117)
Q Consensus        13 ~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~~~~~   92 (117)
                      +.|++|++++|++|++++||||+|++|.+++.|++.+|++++|||++++||++||+|||+++++|+++|++.+       
T Consensus        30 ~~G~~~v~k~i~~~ka~lVvlA~D~~p~~~~~~l~~~c~~~~Vp~~~~~sk~~LG~a~G~~~~~s~v~i~~~g-------  102 (124)
T d2fc3a1          30 KKGTNETTKAVERGLAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAIIEPG-------  102 (124)
T ss_dssp             EESHHHHHHHHHTTCCSEEEEETTCSSGGGTTTHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEEECG-------
T ss_pred             eecHHHHHHHHHcCCCeEEEEeCCCChHHHHHHHHHHHHcCCCcEEEeCCHHHHHHHHCCCCCEEEEEEEecc-------
Confidence            4599999999999999999999999998899999999999999999999999999999999888899998733       


Q ss_pred             HHHHhhHHHHHHHHHHHHhhh
Q 033552           93 EEQDKLKADYTLVVEDVKELA  113 (117)
Q Consensus        93 ~e~~~~~~~~~e~~~~~~~l~  113 (117)
                          .+..+++++.+++++|.
T Consensus       103 ----~~~~l~~~l~~~~~~lr  119 (124)
T d2fc3a1         103 ----DAETLVREIVEKVKELR  119 (124)
T ss_dssp             ----GGHHHHHHHHHHHHHHH
T ss_pred             ----chHHHHHHHHHHHHHHH
Confidence                34455666666666654

>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=99.88  E-value=2.1e-23  Score=144.86  Aligned_cols=74  Identities=24%  Similarity=0.505  Sum_probs=69.6

Q ss_pred             ceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecC
Q 033552           12 NCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP   85 (117)
Q Consensus        12 ~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~   85 (117)
                      =+.|++|++++|++|+++|||||+|++|.+++.|++.+|++++|||++++|+.+||.|||+++++++++|.++.
T Consensus        25 l~~G~~~v~k~i~~g~a~lViiA~D~~p~~~~~~i~~~c~~~~ip~~~~~sk~~LG~a~G~~~~~~~~~i~~~~   98 (115)
T d2aifa1          25 LRKGANEATKALNRGIAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSKD   98 (115)
T ss_dssp             EEESHHHHHHHHHTTCEEEEEEETTCSCHHHHHHHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEECCT
T ss_pred             eeecHHHHHHHHHcCCCcEEEEeCCCCchhHHHHHHHHHhcCCCCEEEeCchHHHHHHhCCCCCeEEEEEecCc
Confidence            46799999999999999999999999998899999999999999999999999999999999999999987643

>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=99.82  E-value=4.8e-21  Score=129.89  Aligned_cols=77  Identities=13%  Similarity=0.117  Sum_probs=70.2

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEE-ECCHhHHHhhcCCCcceEEEEEeecCCCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIY-VASKEDLANAGATKRPTCCVLVLTKPTKG   88 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~-v~tK~eLG~A~G~~~~~svv~I~~~~~~~   88 (117)
                      +-+.|.+|++++|++|++++||||+|++| +++++|+.+|++++||++. .+|++|||+|||+++++++++|++.+++.
T Consensus        15 klv~G~~~v~kal~~gkaklVilA~D~~~-~~~~~i~~~c~~~~Ip~~~~~~t~~eLG~a~Gk~~~vs~vaI~d~G~s~   92 (98)
T d1w3ex1          15 KIVMGARKSIQYAKMGGAKLIIVARNARP-DIKEDIEYYARLSGIAVYEFEGTSVELGTLLGRPHTVSALAVVDPGESR   92 (98)
T ss_dssp             EEEESHHHHHHHHHHTCCSEEEEETTSCH-HHHHHHHHHHHHHTCEEEEESSCHHHHHHHTTCSSCCCEEEEEECTTCC
T ss_pred             CEEEcHHHHHHHHHcCCccEEEEECCCCH-HHHHHHHHHHHhcCCCeEEECCCHHHHHHHhCCCCCEEEEEEeccCHHH
Confidence            34679999999999999999999999987 6899999999999999975 58999999999999889999999977654

>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=99.81  E-value=6.4e-21  Score=128.70  Aligned_cols=78  Identities=15%  Similarity=0.084  Sum_probs=70.7

Q ss_pred             ccceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEE-ECCHhHHHhhcCCCcceEEEEEeecCCCC
Q 033552           10 SFNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIY-VASKEDLANAGATKRPTCCVLVLTKPTKG   88 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~-v~tK~eLG~A~G~~~~~svv~I~~~~~~~   88 (117)
                      .+-++|.+|++++|++|++++||+|+|++| ++.++++.+|++++||++. .+|++|||.|||+++++++++|++.+++.
T Consensus        13 gklv~G~~~v~k~i~~gkaklVilA~D~~~-~~~~~i~~~~~~~~vp~~~~~~t~~eLG~a~Gk~~~vs~v~I~d~G~s~   91 (97)
T d1t0kb_          13 GKYTLGYKSTVKSLRQGKSKLIIIAANTPV-LRKSELEYYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSILEAGDSD   91 (97)
T ss_dssp             SCEEESHHHHHHHHHHTCCSEEEECTTCCH-HHHHHHHHHHHHHTCEEEECSSCHHHHHHHTTCSSCCSEEEECCCSSCC
T ss_pred             CCeeEcHHHHHHHHHcCCCcEEEEeCCCCH-HHHHHHHHHHHhcCCceEEEcCCHHHHHHHhCCCCCEEEEEEeccchHH
Confidence            456899999999999999999999999987 6799999999999999655 68999999999999889999999877654

>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=99.80  E-value=2.4e-20  Score=126.54  Aligned_cols=77  Identities=18%  Similarity=0.202  Sum_probs=70.0

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCE-EEECCHhHHHhhcCCCcceEEEEEeecCCCC
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPY-IYVASKEDLANAGATKRPTCCVLVLTKPTKG   88 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~-i~v~tK~eLG~A~G~~~~~svv~I~~~~~~~   88 (117)
                      +-++|.+|++++|++|++++||+|+|++| +.+++++.+|++++||+ .+.+|+.+||++||+++++++++|++.+++.
T Consensus        15 klv~G~~~v~kai~~gkaklVilA~D~~~-~~~~~i~~~c~~~~vp~~~~~~s~~eLG~a~Gk~~~vs~vaI~d~G~s~   92 (100)
T d2bo1a1          15 KYTLGYRKTVQSLKMGGSKLIIIARNTRP-DRKEDLEYYARLSGTPVYEFEGTNVELGTAVGKPHTVSVVSILDAGESR   92 (100)
T ss_dssp             EEEESHHHHHHHHHTTCCSEEEEETTSCH-HHHHHHHHHHHHHTCCEEEESSCHHHHHHHTTCSSCCSEEEEEECTTCC
T ss_pred             CEEEcHHHHHHHHHcCCceEEEEeCCCCH-HHHHHHHHHHHhcCCCeEEEcCcHHHHHHHhCCcCcEEEEEEecccHHH
Confidence            45789999999999999999999999987 67999999999999985 5567999999999999889999999977765

>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=96.22  E-value=0.0037  Score=37.96  Aligned_cols=68  Identities=7%  Similarity=-0.045  Sum_probs=53.2

Q ss_pred             eeeeecchhhhhcC--CccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEe
Q 033552           13 CVGVVNDPLPLLFH--ECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVL   82 (117)
Q Consensus        13 ~vG~kqt~kaL~kg--~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~   82 (117)
                      +-|..-+..+|+++  .+.-++++.+... .....+..+|+.++||+.++ ++++|.+.++...+=.+++-+
T Consensus         4 IyG~haV~eaL~~~~r~i~~l~v~~~~~~-~~~~~i~~~a~~~~i~i~~v-~~~~Ld~l~~~~~HQGVva~v   73 (76)
T d1gz0a2           4 IYGIHAVQALLERAPERFQEVFILKGRED-KRLLPLIHALESQGVVIQLA-NRQYLDEKSDGAVHQGIIARV   73 (76)
T ss_dssp             EESHHHHHHHHHSCGGGEEEEEEESSCCC-TTTHHHHHHHHHHTCEEEEE-CSHHHHHTTTSCCCTTEEEEE
T ss_pred             EEEhHHHHHHHhCCCCceEEEEEeccccc-HHHHHHHHHHHHcCCCEEEE-CHHHHHHhcCCCCCCeEEEEE
Confidence            56888889999886  4788888888764 34788999999999999998 678899999865444444443

>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=93.25  E-value=0.058  Score=36.88  Aligned_cols=59  Identities=12%  Similarity=0.168  Sum_probs=48.9

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCC-------------------------------------------CcchheeHH
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNIS-------------------------------------------PIDVITHVP   47 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Das-------------------------------------------p~~i~~~i~   47 (117)
                      .-+-|.++|++|+..|.+..++|..|..                                           ..+++..+.
T Consensus        24 ~a~YG~~ev~~ALe~GAVetLLise~L~~~r~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lie~l~  103 (146)
T d1dt9a2          24 KYCFGVEDTLKALEMGAVEILIVYENLDIMRYVLHCQGTEEEKILYLTPEQEKDKSHFTDKETGQEHELIESMPLLEWFA  103 (146)
T ss_dssp             CEEESHHHHHHHHHSSCCSEEEEESCCCCBCCCC---------CCCBCTTCSSCCCCCC-----------CCCBHHHHHH
T ss_pred             cEEECHHHHHHHHHcCCccEEeeeeecccceEEEEcCCCCceEEEEeCcccccccccccCcccccchhhhhhhhHHHHHH
Confidence            3477999999999999999999999963                                           234555688


Q ss_pred             HHhhhCCCCEEEECCHhHHHhh
Q 033552           48 ILCEESDIPYIYVASKEDLANA   69 (117)
Q Consensus        48 ~lce~~~IP~i~v~tK~eLG~A   69 (117)
                      .+|++.|.-+.++.+..+=|.-
T Consensus       104 e~a~~~g~~v~iiS~~~eeG~q  125 (146)
T d1dt9a2         104 NNYKKFGATLEIVTDKSQEGSQ  125 (146)
T ss_dssp             HTCTTTTSCEEEECSSSHHHHH
T ss_pred             HHHHHcCCeEEEEcCCCHhHHH
Confidence            8899999999999998887754

>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=89.54  E-value=0.054  Score=34.78  Aligned_cols=58  Identities=9%  Similarity=-0.027  Sum_probs=50.1

Q ss_pred             eeeeecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhc
Q 033552           13 CVGVVNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        13 ~vG~kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~   70 (117)
                      +-|.+++.+|++.|.+.-++|..+.--.+-...+...+++.|.-+.++++..+-|.-+
T Consensus        24 ~YG~~eV~~A~e~GAVe~Llisd~l~r~~~~~~l~~~~~~~g~~v~iis~~~e~G~~L   81 (95)
T d2qi2a3          24 VYGRDQTESALQMGALSDLIITDEMFRTEDGRRSLSIAQTVGTRIHIVSVSNDPGQIV   81 (95)
T ss_dssp             EESHHHHHHHHHTTCEEEEEEEHHHHTSHHHHHHHHHHHHHTCEEEEECTTSHHHHHH
T ss_pred             EECHHHHHHHHHcCCCcEEEEechhhcchhHHHHHHHHHHcCCEEEEECCCCHHHHHH
Confidence            7899999999999999999999775322336788999999999999999999999765

>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=88.98  E-value=0.18  Score=32.45  Aligned_cols=58  Identities=5%  Similarity=-0.043  Sum_probs=49.4

Q ss_pred             eeeeecchhhhhcCCccEEEEeCCCCC------cchheeHHHHhhhCCCCEEEECCHhHHHhhc
Q 033552           13 CVGVVNDPLPLLFHECRLCVIAGNISP------IDVITHVPILCEESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        13 ~vG~kqt~kaL~kg~~~LViLA~Dasp------~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~   70 (117)
                      +-|.+++.+|+..|.+.-++|..+.--      ..-+..+...++++|.-+.++.+..+-|..+
T Consensus        22 ~YG~~~v~~A~e~gAv~~LlIsd~l~r~~~~~~r~~~~~l~~~~~~~g~~v~iiS~~~~~G~qL   85 (104)
T d2vgna3          22 WYGEKEVVKAAEYGAISYLLLTDKVLHSDNIAQREEYLKLMDSVESNGGKALVLSTLHSLGEEL   85 (104)
T ss_dssp             EESHHHHHHHHHTTCEEEEEEETTGGGSSCHHHHHHHHHHHHHHHHTTCEEEEECTTSHHHHHH
T ss_pred             EECHHHHHHHHHhCCceEEEEecccccccccchHHHHHHHHHHHHhcCCEEEEEcCCChhHHHH
Confidence            589999999999999999999998742      1124578888999999999999999999776

>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=88.82  E-value=0.066  Score=35.16  Aligned_cols=60  Identities=7%  Similarity=-0.160  Sum_probs=49.7

Q ss_pred             cceeeeecchhhhhcCCccEEEEeCCCCC------cchheeHHHHhhhCCCCEEEECCHhHHHhhc
Q 033552           11 FNCVGVVNDPLPLLFHECRLCVIAGNISP------IDVITHVPILCEESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        11 ~~~vG~kqt~kaL~kg~~~LViLA~Dasp------~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~   70 (117)
                      .-+-|.+++.++++.|.+..++|..|.-.      .+.+..+.+.+++.|.-+.++.+..+-|.-+
T Consensus        31 ~~~YG~~ev~~Ale~GAV~~LLisd~l~r~~~~~~r~~i~~l~~~~~~~g~~v~iiS~~~e~G~qL   96 (111)
T d1x52a1          31 RAFYGLKQVEKANEAMAIDTLLISDELFRHQDVATRSRYVRLVDSVKENAGTVRIFSSLHVSGEQL   96 (111)
T ss_dssp             GEEESHHHHHHHHHTTCEEEEEEEHHHHTCSSHHHHHHHHHHHHHHHHTTCEEEEECSSSHHHHHH
T ss_pred             eEEECHHHHHHHHHcCCCcEEEEecccccccchhhHHHHHHHHHHHHhcCCEEEEEcCCChhHHHH
Confidence            45789999999999999999999887521      2345678888899999999999998888665

>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=83.57  E-value=0.47  Score=30.51  Aligned_cols=41  Identities=15%  Similarity=0.165  Sum_probs=34.1

Q ss_pred             cchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEEC
Q 033552           18 NDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVA   61 (117)
Q Consensus        18 qt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~   61 (117)
                      +.++.+-+..+..+++..+..|.   ..+.++|+++++|++..+
T Consensus        71 ~~i~~l~~~~~~~lIit~g~~~p---~~li~~a~~~~iPll~t~  111 (129)
T d1ko7a1          71 GRMRKLCRPETPAIIVTRDLEPP---EELIEAAKEHETPLITSK  111 (129)
T ss_dssp             THHHHHCCTTCCCEEECTTCCCC---HHHHHHHHHTTCCEEECC
T ss_pred             HHHHHHhCCCCcEEEEECCCCCC---HHHHHHHHHhCCeEEEeC
Confidence            56777778889999999998864   367889999999998876

>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=82.99  E-value=0.79  Score=30.32  Aligned_cols=42  Identities=7%  Similarity=0.001  Sum_probs=34.9

Q ss_pred             ecchhhhhcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEEC
Q 033552           17 VNDPLPLLFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVA   61 (117)
Q Consensus        17 kqt~kaL~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~   61 (117)
                      ++.++.+=+.+.-++|++.|..|.+   .+...|+++|||+....
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            3677888888999999999999743   47789999999998654

>d1ipaa2 d.79.3.3 (A:1-105) RrmA (RrmH), N-terminal domain {Thermus thermophilus [TaxId: 274]}

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: RrmA (RrmH), N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=82.71  E-value=1  Score=27.56  Aligned_cols=75  Identities=12%  Similarity=0.026  Sum_probs=50.4

Q ss_pred             ccceeeeecchhhhhcCC-ccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhcCCCcceEEEEEeecC
Q 033552           10 SFNCVGVVNDPLPLLFHE-CRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAGATKRPTCCVLVLTKP   85 (117)
Q Consensus        10 ~~~~vG~kqt~kaL~kg~-~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~G~~~~~svv~I~~~~   85 (117)
                      .+=+=|.+-+..+|+.|- ..-++++.+.........+.......++|++.+ +.+.+.+..+...|-.++||..-|
T Consensus        28 ~flvEG~r~v~eal~~g~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v-s~~~~~~ls~~~tpqGiiAv~~~p  103 (105)
T d1ipaa2          28 RFLIEGAREIERALQAGIELEQALVWEGGLNPEEQQVYAALGRVGRLALLEV-SEAVLKKLSVRDNPAGLIALARMP  103 (105)
T ss_dssp             EEEEESHHHHHHHHHTTCCEEEEEEETTCCCHHHHHHHHCC-----CEEEEE-CHHHHHHHCCSSSCCSEEEEEECC
T ss_pred             eEEEEcHHHHHHHHHcCCCceEEEEehhhhccchHHHHHHHhhcCCCeEEEE-CHHHHHHHhCCCCCCcEEEEEecC
Confidence            344569999999999987 566777666553333444555567778887777 888999999888887788887643

>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=80.22  E-value=1.1  Score=31.91  Aligned_cols=47  Identities=15%  Similarity=0.166  Sum_probs=39.8

Q ss_pred             hcCCccEEEEeCCCCCcchheeHHHHhhhCCCCEEEECCHhHHHhhc
Q 033552           24 LFHECRLCVIAGNISPIDVITHVPILCEESDIPYIYVASKEDLANAG   70 (117)
Q Consensus        24 ~kg~~~LViLA~Dasp~~i~~~i~~lce~~~IP~i~v~tK~eLG~A~   70 (117)
                      ++...+..+++.|..-..=++.+..+|+..+||+..+.+.+++..++
T Consensus        34 ~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l   80 (211)
T d2qy9a2          34 EQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVI   80 (211)
T ss_dssp             HTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHH
T ss_pred             HHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHH
Confidence            34446899999999864458999999999999999999999888765