Citrus Sinensis ID: 035100

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70---
Protein Sequence
MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLLI
Secondary Structure (PSIPRED)
ccccccHHHHHHHcHHHHHHccccEEEEccHHHHHHHHccccccEEEEEEEcccHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHEcccHHcccccccEEEEccHHHHHHHccccccEEEEEEEccccHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MAADTEPLEILLhlpllaedknvpyvfvpskqalgracgvtrpvvacsvtsneASQLKTQIQQLKDAIEKLLI
Flexible Loop (DISEMBL)
MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVtsneasqlktQIQQLKDAIEKLLI
Low Complexity Region (SEG)
MAADTepleillhlpllAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLLI
Disordered region (IsUnstruct)
*******LEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVT***********************
Disordered Region (DISOPRED)
*AADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSN*********QQLKDAIEKLLI
Disordered Region (DISEMBL)
MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLLI
Disordered Region (DISPRO)
***DTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLLI
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVAxxxxxxxxxxxxxxxxxxxxxIEKLLI
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	73	2.2.26 [Sep-21-2011]
Q6C0I0	126	13 kDa ribonucleoprotein-	yes	no	1.0	0.579	0.794	2e-28
Q6BLQ3	126	13 kDa ribonucleoprotein-	yes	no	1.0	0.579	0.794	5e-28
Q5ANL6	126	13 kDa ribonucleoprotein-	N/A	no	1.0	0.579	0.794	6e-28
Q5XH16	128	NHP2-like protein 1 OS=Xe	N/A	no	1.0	0.570	0.780	3e-27
O74690	125	13 kDa ribonucleoprotein-	yes	no	1.0	0.584	0.794	3e-27
Q9U3Z7	127	NHP2-like protein 1 homol	yes	no	1.0	0.574	0.739	4e-27
Q6P8E9	128	NHP2-like protein 1 OS=Xe	yes	no	1.0	0.570	0.767	6e-27
Q4P0K3	126	13 kDa ribonucleoprotein-	N/A	no	1.0	0.579	0.767	1e-26
P39990	126	13 kDa ribonucleoprotein-	yes	no	1.0	0.579	0.753	1e-26
Q6CM69	126	13 kDa ribonucleoprotein-	yes	no	1.0	0.579	0.739	2e-26

>sp|Q6C0I0|SNU13_YARLI 13 kDa ribonucleoprotein-associated protein OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=SNU13 PE=3 SV=1

 Score =  124 bits (310), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 58/73 (79%), Positives = 66/73 (90%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EP+EILLHLPLL EDKNVPY+FVPSK ALGRACGV+RPV++ SVTSN+ASQLK Q
Sbjct: 54  MAADAEPIEILLHLPLLCEDKNVPYIFVPSKVALGRACGVSRPVISASVTSNDASQLKDQ 113

Query: 61  IQQLKDAIEKLLI 73
           I Q+KD IE+LLI
Sbjct: 114 IIQMKDKIERLLI 126

Common component of the spliceosome and rRNA processing machinery. In association with the spliceosomal U4/U6.U5 tri-snRNP particle, required for splicing of pre-mRNA. In association with box C/D snoRNPs, required for processing of pre-ribosomal RNA (rRNA) and site-specific 2'-O-methylation of substrate RNAs. Essential for the accumulation and stability of U4 snRNA, U6 snRNA, and box C/D snoRNAs.
Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

>sp|Q6BLQ3|SNU13_DEBHA 13 kDa ribonucleoprotein-associated protein OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=SNU13 PE=3 SV=1

 Score =  122 bits (307), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 58/73 (79%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEP+EILLHLPLL EDKNVPYVFVPSK ALGRACGV+RPV+A SVT+NEAS +K Q
Sbjct: 54  MAADTEPIEILLHLPLLCEDKNVPYVFVPSKTALGRACGVSRPVIAASVTTNEASAMKNQ 113

Query: 61  IQQLKDAIEKLLI 73
           I  +KD IE LLI
Sbjct: 114 IYGIKDKIETLLI 126

Common component of the spliceosome and rRNA processing machinery. In association with the spliceosomal U4/U6.U5 tri-snRNP particle, required for splicing of pre-mRNA. In association with box C/D snoRNPs, required for processing of pre-ribosomal RNA (rRNA) and site-specific 2'-O-methylation of substrate RNAs. Essential for the accumulation and stability of U4 snRNA, U6 snRNA, and box C/D snoRNAs.

Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (taxid: 284592)

>sp|Q5ANL6|SNU13_CANAL 13 kDa ribonucleoprotein-associated protein OS=Candida albicans (strain SC5314 / ATCC MYA-2876) GN=SNU13 PE=3 SV=1

 Score =  122 bits (306), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 58/73 (79%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEP+EILLHLPLL EDKNVPYVFVPSK ALGRACGV+RPV+A SVTSN+AS +K Q
Sbjct: 54  MAADTEPIEILLHLPLLCEDKNVPYVFVPSKAALGRACGVSRPVIAASVTSNDASSIKNQ 113

Query: 61  IQQLKDAIEKLLI 73
           I  +KD IE LLI
Sbjct: 114 IYGIKDKIETLLI 126

Common component of the spliceosome and rRNA processing machinery. In association with the spliceosomal U4/U6.U5 tri-snRNP particle, required for splicing of pre-mRNA. In association with box C/D snoRNPs, required for processing of pre-ribosomal RNA (rRNA) and site-specific 2'-O-methylation of substrate RNAs. Essential for the accumulation and stability of U4 snRNA, U6 snRNA, and box C/D snoRNAs.

Candida albicans (strain SC5314 / ATCC MYA-2876) (taxid: 237561)

>sp|Q5XH16|NH2L1_XENLA NHP2-like protein 1 OS=Xenopus laevis GN=nhp2l1 PE=2 SV=1

 Score =  120 bits (301), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 57/73 (78%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EPLEI+LHLPLL EDKNVPYVFV SKQALGRACGV+RPV+ACSVT  E SQLK Q
Sbjct: 56  MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKPQ 115

Query: 61  IQQLKDAIEKLLI 73
           IQ ++ AIE+LL+
Sbjct: 116 IQSVQQAIERLLV 128

Binds to the 5'-stem-loop of U4 snRNA and may play a role in the late stage of spliceosome assembly. The protein undergoes a conformational change upon RNA-binding.

Xenopus laevis (taxid: 8355)

>sp|O74690|SNU13_SCHPO 13 kDa ribonucleoprotein-associated protein OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=snu13 PE=3 SV=1

 Score =  120 bits (301), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 58/73 (79%), Positives = 65/73 (89%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEP+EILLHLPLL EDKNVPYVFVPSK ALGRACGV+RPV++ S+T+NEAS L  Q
Sbjct: 53  MAADTEPIEILLHLPLLCEDKNVPYVFVPSKAALGRACGVSRPVISASITTNEASDLLPQ 112

Query: 61  IQQLKDAIEKLLI 73
           IQ +K AIEKLLI
Sbjct: 113 IQAIKLAIEKLLI 125

Common component of the spliceosome and rRNA processing machinery. In association with the spliceosomal U4/U6.U5 tri-snRNP particle, required for splicing of pre-mRNA. In association with box C/D snoRNPs, required for processing of pre-ribosomal RNA (rRNA) and site-specific 2'-O-methylation of substrate RNAs. Essential for the accumulation and stability of U4 snRNA, U6 snRNA, and box C/D snoRNAs.

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

>sp|Q9U3Z7|NH2L1_DROME NHP2-like protein 1 homolog OS=Drosophila melanogaster GN=hoip PE=2 SV=1

 Score =  119 bits (299), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 54/73 (73%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +A D EP+EILLHLPLL EDKNVPYVFV SKQALGRACGV+RP+VACSVT+NE SQLK+Q
Sbjct: 55  LAGDAEPIEILLHLPLLCEDKNVPYVFVRSKQALGRACGVSRPIVACSVTTNEGSQLKSQ 114

Query: 61  IQQLKDAIEKLLI 73
           I  ++  IE+LL+
Sbjct: 115 ITSIQQEIERLLV 127

Binds to the 5'-stem-loop of U4 snRNA and may play a role in the late stage of spliceosome assembly. The protein undergoes a conformational change upon RNA-binding.

Drosophila melanogaster (taxid: 7227)

>sp|Q6P8E9|NH2L1_XENTR NHP2-like protein 1 OS=Xenopus tropicalis GN=nhp2l1 PE=2 SV=1

 Score =  119 bits (298), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 56/73 (76%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EPLEI+LHLPLL EDKNVPYVFV SKQALGRACGV+RPV+AC+VT  E SQLK Q
Sbjct: 56  MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACAVTIKEGSQLKPQ 115

Query: 61  IQQLKDAIEKLLI 73
           IQ L+ +IE+LL+
Sbjct: 116 IQSLQQSIERLLV 128

Binds to the 5'-stem-loop of U4 snRNA and may play a role in the late stage of spliceosome assembly. The protein undergoes a conformational change upon RNA-binding.

Xenopus tropicalis (taxid: 8364)

>sp|Q4P0K3|SNU13_USTMA 13 kDa ribonucleoprotein-associated protein OS=Ustilago maydis (strain 521 / FGSC 9021) GN=SNU13 PE=3 SV=1

 Score =  118 bits (296), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 56/73 (76%), Positives = 66/73 (90%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EP+EI+LHLPLL EDKNVPYVFVPSK ALGRACGV+RPVV+ SVT+NEA +L++Q
Sbjct: 54  MAADVEPIEIVLHLPLLCEDKNVPYVFVPSKTALGRACGVSRPVVSASVTTNEARELQSQ 113

Query: 61  IQQLKDAIEKLLI 73
           IQ +K AIE+LLI
Sbjct: 114 IQTVKLAIERLLI 126

Common component of the spliceosome and rRNA processing machinery. In association with the spliceosomal U4/U6.U5 tri-snRNP particle, required for splicing of pre-mRNA. In association with box C/D snoRNPs, required for processing of pre-ribosomal RNA (rRNA) and site-specific 2'-O-methylation of substrate RNAs. Essential for the accumulation and stability of U4 snRNA, U6 snRNA, and box C/D snoRNAs.

Ustilago maydis (strain 521 / FGSC 9021) (taxid: 237631)

>sp|P39990|SNU13_YEAST 13 kDa ribonucleoprotein-associated protein OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SNU13 PE=1 SV=1

 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 55/73 (75%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EP+EILLHLPLL EDKNVPYVFVPS+ ALGRACGV+RPV+A S+T+N+AS +KTQ
Sbjct: 54  MAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKTQ 113

Query: 61  IQQLKDAIEKLLI 73
           I  +KD IE LLI
Sbjct: 114 IYAVKDKIETLLI 126

Common component of the spliceosome and rRNA processing machinery. In association with the spliceosomal U4/U6.U5 tri-snRNP particle, required for splicing of pre-mRNA. In association with box C/D snoRNPs, required for processing of pre-ribosomal RNA (rRNA) and site-specific 2'-O-methylation of substrate RNAs. Essential for the accumulation and stability of U4 snRNA, U6 snRNA, and box C/D snoRNAs.

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

>sp|Q6CM69|SNU13_KLULA 13 kDa ribonucleoprotein-associated protein OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=SNU13 PE=3 SV=1

 Score =  117 bits (293), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 54/73 (73%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EP+EILLHLPLL EDKNVPYVFVPS+ ALGRACGV+RPV+A S+T+N+AS +K+Q
Sbjct: 54  MAADCEPIEILLHLPLLCEDKNVPYVFVPSRTALGRACGVSRPVIAASITTNDASAIKSQ 113

Query: 61  IQQLKDAIEKLLI 73
           I  +KD IE LLI
Sbjct: 114 IYAVKDKIETLLI 126

Common component of the spliceosome and rRNA processing machinery. In association with the spliceosomal U4/U6.U5 tri-snRNP particle, required for splicing of pre-mRNA. In association with box C/D snoRNPs, required for processing of pre-ribosomal RNA (rRNA) and site-specific 2'-O-methylation of substrate RNAs. Essential for the accumulation and stability of U4 snRNA, U6 snRNA, and box C/D snoRNAs.

Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (taxid: 284590)

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	73
307107634	125	ribosomal protein L7 [Chlorella variabil	1.0	0.584	0.890	2e-30
297592050	127	L7Aef [Volvox carteri f. nagariensis] gi	1.0	0.574	0.835	2e-28
294943546	128	ribosomal protein L7A, putative [Perkins	1.0	0.570	0.794	6e-27
296086147	142	unnamed protein product [Vitis vinifera]	1.0	0.514	0.958	8e-27
255566991	128	ribosomal protein l7ae, putative [Ricinu	1.0	0.570	0.958	9e-27
224135439	128	predicted protein [Populus trichocarpa]	1.0	0.570	0.958	1e-26
225445470	130	PREDICTED: NHP2-like protein 1-like [Vit	1.0	0.561	0.958	1e-26
225449319	128	PREDICTED: NHP2-like protein 1-like [Vit	1.0	0.570	0.958	1e-26
50556848	126	small nucleolar ribonucleoprotein SNU13	1.0	0.579	0.794	1e-26
297738940	150	unnamed protein product [Vitis vinifera]	1.0	0.486	0.958	1e-26

>gi|307107634|gb|EFN55876.1| ribosomal protein L7 [Chlorella variabilis]

 Score =  136 bits (343), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 65/73 (89%), Positives = 69/73 (94%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEP+EILLHLPLLAEDKNVPYVFVPSK ALGRACGV+RPV+ACSVT+NE SQLK Q
Sbjct: 53  MAADTEPIEILLHLPLLAEDKNVPYVFVPSKAALGRACGVSRPVIACSVTTNEGSQLKNQ 112

Query: 61  IQQLKDAIEKLLI 73
           IQQLK AIEKLLI
Sbjct: 113 IQQLKLAIEKLLI 125

Source: Chlorella variabilis

Species: Chlorella variabilis

Genus: Chlorella

Family: Chlorellaceae

Order: Chlorellales

Class: Trebouxiophyceae

Phylum: Chlorophyta

Superkingdom: Eukaryota

>gi|297592050|gb|ADI46835.1| L7Aef [Volvox carteri f. nagariensis] gi|297592117|gb|ADI46901.1| L7Aem [Volvox carteri f. nagariensis]

 Score =  129 bits (324), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 61/73 (83%), Positives = 66/73 (90%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEP+EILLHLPLLAEDKNVPYVFVPSK  LGRACGV+RPV+A SVT+NE SQLK Q
Sbjct: 55  MAADTEPIEILLHLPLLAEDKNVPYVFVPSKAGLGRACGVSRPVIAASVTTNEGSQLKPQ 114

Query: 61  IQQLKDAIEKLLI 73
           IQ LK +IEKLLI
Sbjct: 115 IQNLKGSIEKLLI 127

Source: Volvox carteri f. nagariensis

Species: Volvox carteri

Genus: Volvox

Family: Volvocaceae

Order: Chlamydomonadales

Class: Chlorophyceae

Phylum: Chlorophyta

Superkingdom: Eukaryota

>gi|294943546|ref|XP_002783905.1| ribosomal protein L7A, putative [Perkinsus marinus ATCC 50983] gi|294947130|ref|XP_002785259.1| ribosomal protein L7A, putative [Perkinsus marinus ATCC 50983] gi|239896748|gb|EER15701.1| ribosomal protein L7A, putative [Perkinsus marinus ATCC 50983] gi|239898982|gb|EER17055.1| ribosomal protein L7A, putative [Perkinsus marinus ATCC 50983]

 Score =  124 bits (312), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 58/73 (79%), Positives = 66/73 (90%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +AADTEPLEI+LHLPL+ EDKNVPYVFV SK ALGRACGV+RPVVACS+TS E SQL TQ
Sbjct: 56  LAADTEPLEIILHLPLVCEDKNVPYVFVKSKTALGRACGVSRPVVACSITSKEGSQLMTQ 115

Query: 61  IQQLKDAIEKLLI 73
           IQ LKD+IE++LI
Sbjct: 116 IQDLKDSIEQILI 128

Source: Perkinsus marinus ATCC 50983

Species: Perkinsus marinus

Genus: Perkinsus

Family: Perkinsidae

Order: Perkinsida

Superkingdom: Eukaryota

>gi|296086147|emb|CBI31588.3| unnamed protein product [Vitis vinifera]

 Score =  124 bits (311), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 70/73 (95%), Positives = 72/73 (98%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPV+ACSVTSNE SQLK+Q
Sbjct: 70  MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEGSQLKSQ 129

Query: 61  IQQLKDAIEKLLI 73
           IQQLKDAIEKLLI
Sbjct: 130 IQQLKDAIEKLLI 142

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255566991|ref|XP_002524478.1| ribosomal protein l7ae, putative [Ricinus communis] gi|223536266|gb|EEF37918.1| ribosomal protein l7ae, putative [Ricinus communis]

 Score =  124 bits (310), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 70/73 (95%), Positives = 72/73 (98%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPV+ACSVT+NE SQLKTQ
Sbjct: 56  MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTTNEGSQLKTQ 115

Query: 61  IQQLKDAIEKLLI 73
           IQQLKDAIEKLLI
Sbjct: 116 IQQLKDAIEKLLI 128

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135439|ref|XP_002327218.1| predicted protein [Populus trichocarpa] gi|118483685|gb|ABK93736.1| unknown [Populus trichocarpa] gi|222835588|gb|EEE74023.1| predicted protein [Populus trichocarpa]

 Score =  124 bits (310), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 70/73 (95%), Positives = 72/73 (98%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPV+ACSVT+NE SQLKTQ
Sbjct: 56  MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTTNEGSQLKTQ 115

Query: 61  IQQLKDAIEKLLI 73
           IQQLKDAIEKLLI
Sbjct: 116 IQQLKDAIEKLLI 128

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225445470|ref|XP_002285133.1| PREDICTED: NHP2-like protein 1-like [Vitis vinifera]

 Score =  124 bits (310), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 70/73 (95%), Positives = 72/73 (98%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPV+ACSVTSNE SQLK+Q
Sbjct: 58  MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEGSQLKSQ 117

Query: 61  IQQLKDAIEKLLI 73
           IQQLKDAIEKLLI
Sbjct: 118 IQQLKDAIEKLLI 130

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449319|ref|XP_002281586.1| PREDICTED: NHP2-like protein 1-like [Vitis vinifera]

 Score =  124 bits (310), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 70/73 (95%), Positives = 72/73 (98%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPV+ACSVTSNE SQLK+Q
Sbjct: 56  MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEGSQLKSQ 115

Query: 61  IQQLKDAIEKLLI 73
           IQQLKDAIEKLLI
Sbjct: 116 IQQLKDAIEKLLI 128

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|50556848|ref|XP_505832.1| small nucleolar ribonucleoprotein SNU13 [Yarrowia lipolytica CLIB122] gi|74632285|sp|Q6C0I0.1|SNU13_YARLI RecName: Full=13 kDa ribonucleoprotein-associated protein gi|49651702|emb|CAG78643.1| YALI0F24497p [Yarrowia lipolytica CLIB122]

 Score =  124 bits (310), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 58/73 (79%), Positives = 66/73 (90%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EP+EILLHLPLL EDKNVPY+FVPSK ALGRACGV+RPV++ SVTSN+ASQLK Q
Sbjct: 54  MAADAEPIEILLHLPLLCEDKNVPYIFVPSKVALGRACGVSRPVISASVTSNDASQLKDQ 113

Query: 61  IQQLKDAIEKLLI 73
           I Q+KD IE+LLI
Sbjct: 114 IIQMKDKIERLLI 126

Source: Yarrowia lipolytica CLIB122

Species: Yarrowia lipolytica

Genus: Yarrowia

Family: Dipodascaceae

Order: Saccharomycetales

Class: Saccharomycetes

Phylum: Ascomycota

Superkingdom: Eukaryota

>gi|297738940|emb|CBI28185.3| unnamed protein product [Vitis vinifera]

 Score =  124 bits (310), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 70/73 (95%), Positives = 72/73 (98%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPV+ACSVTSNE SQLK+Q
Sbjct: 78  MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEGSQLKSQ 137

Query: 61  IQQLKDAIEKLLI 73
           IQQLKDAIEKLLI
Sbjct: 138 IQQLKDAIEKLLI 150

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	73
TAIR|locus:2127455	128	AT4G22380 [Arabidopsis thalian	1.0	0.570	0.780	8.7e-24
TAIR|locus:2149269	160	AT5G20160 [Arabidopsis thalian	1.0	0.456	0.780	8.7e-24
WB|WBGene00010896	128	M28.5 [Caenorhabditis elegans	1.0	0.570	0.630	1.4e-18
CGD|CAL0002459	126	orf19.5885 [Candida albicans (	1.0	0.579	0.643	1.7e-18
POMBASE|SPAC607.03c	125	snu13 "U3 snoRNP-associated pr	1.0	0.584	0.643	2.8e-18
UNIPROTKB|F1NII6	144	NHP2L1 "Uncharacterized protei	1.0	0.506	0.616	3.6e-18
UNIPROTKB|Q3B8S0	128	NHP2L1 "NHP2-like protein 1" [	1.0	0.570	0.616	4.6e-18
UNIPROTKB|E2RRM7	128	NHP2L1 "Uncharacterized protei	1.0	0.570	0.616	4.6e-18
UNIPROTKB|J9P8E9	128	LOC609886 "Uncharacterized pro	1.0	0.570	0.616	4.6e-18
UNIPROTKB|B1AHD1	132	NHP2L1 "NHP2-like protein 1" [	1.0	0.553	0.616	4.6e-18

TAIR|locus:2127455 AT4G22380 [Arabidopsis thaliana (taxid:3702)]

 Score = 273 (101.2 bits), Expect = 8.7e-24, P = 8.7e-24
 Identities = 57/73 (78%), Positives = 59/73 (80%)

Query:     1 MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
             MAAD             AEDKNVPYVFVPSKQALGRACGVTRPV+ACSVTSNEASQLK+Q
Sbjct:    56 MAADAEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKSQ 115

Query:    61 IQQLKDAIEKLLI 73
             IQ LKDAIEKLLI
Sbjct:   116 IQHLKDAIEKLLI 128

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

GO:0005634 "nucleus" evidence=ISM

GO:0005730 "nucleolus" evidence=IEA;IDA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

TAIR|locus:2149269 AT5G20160 [Arabidopsis thaliana (taxid:3702)]

 Score = 273 (101.2 bits), Expect = 8.7e-24, P = 8.7e-24
 Identities = 57/73 (78%), Positives = 59/73 (80%)

Query:     1 MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
             MAAD             AEDKNVPYVFVPSKQALGRACGVTRPV+ACSVTSNEASQLK+Q
Sbjct:    88 MAADAEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVIACSVTSNEASQLKSQ 147

Query:    61 IQQLKDAIEKLLI 73
             IQ LKDAIEKLLI
Sbjct:   148 IQHLKDAIEKLLI 160

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

GO:0005634 "nucleus" evidence=ISM

GO:0005730 "nucleolus" evidence=IEA;IDA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0005829 "cytosol" evidence=RCA

GO:0000478 "endonucleolytic cleavage involved in rRNA processing" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

WB|WBGene00010896 M28.5 [Caenorhabditis elegans (taxid:6239)]

 Score = 224 (83.9 bits), Expect = 1.4e-18, P = 1.4e-18
 Identities = 46/73 (63%), Positives = 53/73 (72%)

Query:     1 MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
             MAAD              EDKNVPYVFV SK ALGRACGVTRPV+A S+T NE SQLK+Q
Sbjct:    56 MAADAEPLEILLHLPLLCEDKNVPYVFVRSKAALGRACGVTRPVIAASITQNEGSQLKSQ 115

Query:    61 IQQLKDAIEKLLI 73
             IQ++K+ +EKLLI
Sbjct:   116 IQKIKEDVEKLLI 128

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0010171 "body morphogenesis" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

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

CGD|CAL0002459 orf19.5885 [Candida albicans (taxid:5476)]

 Score = 223 (83.6 bits), Expect = 1.7e-18, P = 1.7e-18
 Identities = 47/73 (64%), Positives = 52/73 (71%)

Query:     1 MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
             MAADT             EDKNVPYVFVPSK ALGRACGV+RPV+A SVTSN+AS +K Q
Sbjct:    54 MAADTEPIEILLHLPLLCEDKNVPYVFVPSKAALGRACGVSRPVIAASVTSNDASSIKNQ 113

Query:    61 IQQLKDAIEKLLI 73
             I  +KD IE LLI
Sbjct:   114 IYGIKDKIETLLI 126

GO:0032040 "small-subunit processome" evidence=IEA

GO:0031428 "box C/D snoRNP complex" evidence=IEA

GO:0046540 "U4/U6 x U5 tri-snRNP complex" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000462 "maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IEA

GO:0000398 "mRNA splicing, via spliceosome" evidence=IEA

POMBASE|SPAC607.03c snu13 "U3 snoRNP-associated protein Snu13" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 47/73 (64%), Positives = 53/73 (72%)

Query:     1 MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
             MAADT             EDKNVPYVFVPSK ALGRACGV+RPV++ S+T+NEAS L  Q
Sbjct:    53 MAADTEPIEILLHLPLLCEDKNVPYVFVPSKAALGRACGVSRPVISASITTNEASDLLPQ 112

Query:    61 IQQLKDAIEKLLI 73
             IQ +K AIEKLLI
Sbjct:   113 IQAIKLAIEKLLI 125

GO:0003723 "RNA binding" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0030490 "maturation of SSU-rRNA" evidence=ISO

GO:0032040 "small-subunit processome" evidence=ISO

GO:0045292 "mRNA cis splicing, via spliceosome" evidence=ISO

GO:0046540 "U4/U6 x U5 tri-snRNP complex" evidence=ISO

UNIPROTKB|F1NII6 NHP2L1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 45/73 (61%), Positives = 52/73 (71%)

Query:     1 MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
             MAAD              EDKNVPYVFV SKQALGRACGV+RPV+ACS+T  E SQLK Q
Sbjct:    72 MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSITIKEGSQLKPQ 131

Query:    61 IQQLKDAIEKLLI 73
             IQ ++ AIE+LL+
Sbjct:   132 IQSVQQAIERLLV 144

GO:0005730 "nucleolus" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0030515 "snoRNA binding" evidence=IEA

UNIPROTKB|Q3B8S0 NHP2L1 "NHP2-like protein 1" [Bos taurus (taxid:9913)]

 Score = 219 (82.2 bits), Expect = 4.6e-18, P = 4.6e-18
 Identities = 45/73 (61%), Positives = 52/73 (71%)

Query:     1 MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
             MAAD              EDKNVPYVFV SKQALGRACGV+RPV+ACSVT  E SQLK Q
Sbjct:    56 MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQ 115

Query:    61 IQQLKDAIEKLLI 73
             IQ ++ +IE+LL+
Sbjct:   116 IQSIQQSIERLLV 128

GO:0005730 "nucleolus" evidence=IEA

GO:0030515 "snoRNA binding" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

UNIPROTKB|E2RRM7 NHP2L1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 219 (82.2 bits), Expect = 4.6e-18, P = 4.6e-18
 Identities = 45/73 (61%), Positives = 52/73 (71%)

Query:     1 MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
             MAAD              EDKNVPYVFV SKQALGRACGV+RPV+ACSVT  E SQLK Q
Sbjct:    56 MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQ 115

Query:    61 IQQLKDAIEKLLI 73
             IQ ++ +IE+LL+
Sbjct:   116 IQSIQQSIERLLV 128

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|J9P8E9 LOC609886 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 219 (82.2 bits), Expect = 4.6e-18, P = 4.6e-18
 Identities = 45/73 (61%), Positives = 52/73 (71%)

Query:     1 MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
             MAAD              EDKNVPYVFV SKQALGRACGV+RPV+ACSVT  E SQLK Q
Sbjct:    56 MAADAKPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQ 115

Query:    61 IQQLKDAIEKLLI 73
             IQ ++ +IE+LL+
Sbjct:   116 IQSIQQSIERLLV 128

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|B1AHD1 NHP2L1 "NHP2-like protein 1" [Homo sapiens (taxid:9606)]

 Score = 219 (82.2 bits), Expect = 4.6e-18, P = 4.6e-18
 Identities = 45/73 (61%), Positives = 52/73 (71%)

Query:     1 MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
             MAAD              EDKNVPYVFV SKQALGRACGV+RPV+ACSVT  E SQLK Q
Sbjct:    60 MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQ 119

Query:    61 IQQLKDAIEKLLI 73
             IQ ++ +IE+LL+
Sbjct:   120 IQSIQQSIERLLV 132

GO:0003723 "RNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

---

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)
Q6P8E9	NH2L1_XENTR	No assigned EC number	0.7671	1.0	0.5703	yes	no
P0CQ52	SNU13_CRYNJ	No assigned EC number	0.7397	1.0	0.5748	yes	no
Q6BLQ3	SNU13_DEBHA	No assigned EC number	0.7945	1.0	0.5793	yes	no
P55770	NH2L1_RAT	No assigned EC number	0.7671	1.0	0.5703	yes	no
Q6CM69	SNU13_KLULA	No assigned EC number	0.7397	1.0	0.5793	yes	no
Q6C0I0	SNU13_YARLI	No assigned EC number	0.7945	1.0	0.5793	yes	no
P39990	SNU13_YEAST	No assigned EC number	0.7534	1.0	0.5793	yes	no
P55769	NH2L1_HUMAN	No assigned EC number	0.7671	1.0	0.5703	yes	no
Q3B8S0	NH2L1_BOVIN	No assigned EC number	0.7671	1.0	0.5703	yes	no
Q21568	NH2L1_CAEEL	No assigned EC number	0.7945	1.0	0.5703	yes	no
O74690	SNU13_SCHPO	No assigned EC number	0.7945	1.0	0.584	yes	no
Q6FQV5	SNU13_CANGA	No assigned EC number	0.7397	1.0	0.5793	yes	no
Q757T2	SNU13_ASHGO	No assigned EC number	0.7397	1.0	0.5748	yes	no
Q9U3Z7	NH2L1_DROME	No assigned EC number	0.7397	1.0	0.5748	yes	no
Q9D0T1	NH2L1_MOUSE	No assigned EC number	0.7671	1.0	0.5703	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

Fail to connect to STRING server

---

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	73
pfam01248	95	pfam01248, Ribosomal_L7Ae, Ribosomal protein L7Ae/	5e-18
COG1358	116	COG1358, RPL8A, Ribosomal protein HS6-type (S12/L3	3e-16
PRK04175	122	PRK04175, rpl7ae, 50S ribosomal protein L7Ae; Vali	1e-15
TIGR03677	117	TIGR03677, rpl7ae, 50S ribosomal protein L7Ae	7e-15
PTZ00365	266	PTZ00365, PTZ00365, 60S ribosomal protein L7Ae-lik	1e-04

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

 Score = 70.7 bits (174), Expect = 5e-18
 Identities = 28/56 (50%), Positives = 38/56 (67%)

Query: 1  MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQ 56
          +A D +P E +  LP L ++KNVPYV+VPSK+ LG ACG  RPV A ++  N  S+
Sbjct: 37 IAEDCDPEEKVKLLPALCKEKNVPYVYVPSKKELGEACGKPRPVSALAIKDNGDSK 92

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

 Score = 66.6 bits (163), Expect = 3e-16
 Identities = 29/68 (42%), Positives = 42/68 (61%), Gaps = 3/68 (4%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGV-TRPVVACSVT--SNEASQL 57
           +A D  P E++ HLP L E+KNVPYV+V SK+ LG+A G   R VVA      + +   L
Sbjct: 49  IAEDVSPEELVKHLPALCEEKNVPYVYVGSKKELGKAVGKEVRKVVAIVDKGFAKKLEDL 108

Query: 58  KTQIQQLK 65
             ++++LK
Sbjct: 109 VEKVEELK 116

Length = 116

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

 Score = 65.3 bits (160), Expect = 1e-15
 Identities = 28/70 (40%), Positives = 45/70 (64%), Gaps = 2/70 (2%)

Query: 2   AADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQI 61
           A D +P EI+ HLPLL E+K +PYV+VPSK+ LG+A G+   V A +    +A + K  +
Sbjct: 53  AEDVDPEEIVAHLPLLCEEKKIPYVYVPSKKDLGKAAGLE--VGAAAAAIVDAGKAKELV 110

Query: 62  QQLKDAIEKL 71
           + + + + +L
Sbjct: 111 EDIVEKVNEL 120

Length = 122

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

 Score = 63.2 bits (154), Expect = 7e-15
 Identities = 27/72 (37%), Positives = 44/72 (61%), Gaps = 7/72 (9%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVT-SNEASQLKT 59
           +A D EP EI+ HLP L E+K +PY++V +K+ LG A G+     A ++  + +A +L  
Sbjct: 48  IAEDVEPPEIVAHLPALCEEKGIPYIYVKTKEDLGAAAGLEVGAAAAAIVDAGKAEEL-- 105

Query: 60  QIQQLKDAIEKL 71
               LK+ +EK+
Sbjct: 106 ----LKEIVEKV 113

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

 Score = 37.5 bits (87), Expect = 1e-04
 Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 1/47 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGV-TRPVVA 46
           +A D +P+E++  LP L   K VPY  +  K  LG+     T  VVA
Sbjct: 154 IAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQKTAAVVA 200

Length = 266

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	73
TIGR03677	117	rpl7ae 50S ribosomal protein L7Ae. Multifunctional	99.78
KOG3167	153	consensus Box H/ACA snoRNP component, involved in	99.77
PRK04175	122	rpl7ae 50S ribosomal protein L7Ae; Validated	99.77
PRK13600	84	putative ribosomal protein L7Ae-like; Provisional	99.73
COG1358	116	RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Tr	99.71
PTZ00222	263	60S ribosomal protein L7a; Provisional	99.67
PRK13602	82	putative ribosomal protein L7Ae-like; Provisional	99.64
PRK13601	82	putative L7Ae-like ribosomal protein; Provisional	99.63
PTZ00365	266	60S ribosomal protein L7Ae-like; Provisional	99.63
PRK06683	82	hypothetical protein; Provisional	99.63
KOG3387	131	consensus 60S ribosomal protein 15.5kD/SNU13, NHP2	99.62
PRK01018	99	50S ribosomal protein L30e; Reviewed	99.61
PRK07714	100	hypothetical protein; Provisional	99.57
PRK07283	98	hypothetical protein; Provisional	99.56
PF01248	95	Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/G	99.55
PTZ00106	108	60S ribosomal protein L30; Provisional	99.54
PRK05583	104	ribosomal protein L7Ae family protein; Provisional	99.48
PRK09190	220	hypothetical protein; Provisional	99.16
KOG3406	134	consensus 40S ribosomal protein S12 [Translation,	98.32
COG1911	100	RPL30 Ribosomal protein L30E [Translation, ribosom	98.23
KOG3166	209	consensus 60S ribosomal protein L7A [Translation,	97.17
PF08228	158	RNase_P_pop3: RNase P subunit Pop3; InterPro: IPR0	93.31
PF15608	100	PELOTA_1: PELOTA RNA binding domain	91.27
KOG2988	112	consensus 60S ribosomal protein L30 [Translation,	90.98
PF11823	73	DUF3343: Protein of unknown function (DUF3343); In	84.92
PF13611	121	Peptidase_S76: Serine peptidase of plant viral pol	82.19

>TIGR03677 rpl7ae 50S ribosomal protein L7Ae

Probab=99.78  E-value=8.8e-19  Score=110.84  Aligned_cols=69  Identities=33%  Similarity=0.654  Sum_probs=59.9

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHHhh
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKL   71 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~   71 (73)
                      ||+|++|+++..+++.+|++++|||+++.||++||++||+++++++++|+|.|  ....+++++..+|+.|
T Consensus        48 lA~D~s~~~~~~~i~~lc~~~~Ip~~~~~sk~eLG~a~Gk~~~~svvaI~d~g--~a~~~~~~~~~~i~~~  116 (117)
T TIGR03677        48 IAEDVEPPEIVAHLPALCEEKGIPYVYVKKKEDLGAAAGLEVGAASAAIVDEG--KAEELLKEIIEKVEAL  116 (117)
T ss_pred             EeCCCCcHHHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCCCeEEEEEEchh--hhHHHHHHHHHHHHhc
Confidence            69999998789999999999999999999999999999998889999999998  4444555566666654

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

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

Probab=99.77  E-value=5.6e-19  Score=115.12  Aligned_cols=69  Identities=39%  Similarity=0.739  Sum_probs=66.5

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHHhh
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKL   71 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~   71 (73)
                      +|+|++|.|+.+|+|.+|+++||||+|++|++.||+|.|.+|+++++.+..++  ++++.++++.++++.|
T Consensus        81 lAgd~sPiDvi~HlP~lCEd~~vPYvy~psk~dlg~A~~~krpt~~v~v~p~~--eyke~ydev~eel~~l  149 (153)
T KOG3167|consen   81 LAGDTSPIDVITHLPALCEDRGVPYVYTPSKEDLGAAGGTKRPTCCVFVKPGG--EYKELYDEVLEELEAL  149 (153)
T ss_pred             EecCCccHHHHhccchhhhccCCCccccccHHHHHHhcCCCCCceEEEEeeCh--hHHHHHHHHHHHHHhh
Confidence            68999999999999999999999999999999999999999999999999988  9999999999999876

>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated

Probab=99.77  E-value=2.1e-18  Score=109.87  Aligned_cols=69  Identities=38%  Similarity=0.744  Sum_probs=59.4

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHHhh
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKL   71 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~   71 (73)
                      ||+|++|.++..+++.+|++++|||++++||++||++||+++++++++|+|.|  ..+.+++++.+.|+.|
T Consensus        52 lA~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk~eLG~a~Gk~~~~svvaI~d~g--~a~~~~~~~~~~i~~~  120 (122)
T PRK04175         52 IAEDVDPEEIVAHLPLLCEEKKIPYVYVPSKKDLGKAAGLEVGAAAAAIVDAG--KAKELVEDIVEKVNEL  120 (122)
T ss_pred             EeCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCeEEEEEechh--hhHHHHHHHHHHHHHh
Confidence            68999998789999999999999999999999999999999889999999998  4444555556665544

>PRK13600 putative ribosomal protein L7Ae-like; Provisional

Probab=99.73  E-value=5.8e-18  Score=102.28  Aligned_cols=49  Identities=27%  Similarity=0.447  Sum_probs=47.2

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEE
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVT   50 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~   50 (73)
                      ||.|++|. ++.|++.+|+++||||+|++||.+||++||+++++++++|+
T Consensus        35 iA~Da~~~-vv~~l~~lceek~Ip~v~V~s~~~LGkAcgi~V~aa~aai~   83 (84)
T PRK13600         35 IAEDVEVY-LMTRVLSQINQKNIPVSFFKSKHALGKHVGINVNATIVALI   83 (84)
T ss_pred             EeCCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCcCeEEEEEe
Confidence            68999999 99999999999999999999999999999999999999886

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

Probab=99.71  E-value=3.4e-17  Score=103.95  Aligned_cols=63  Identities=38%  Similarity=0.668  Sum_probs=54.0

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQQL   64 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~~~   64 (73)
                      ||+|++|.+++.|+|.+|++++|||++++||.+||++||++. +.++++.+.+ +..+++++++.
T Consensus        49 iA~Dv~P~~~~~~l~~lc~~~~vpyv~V~sk~~LG~a~g~~~-~~vv~i~~~~~~~~~~~l~~~~  112 (116)
T COG1358          49 IAEDVSPEELVKHLPALCEEKNVPYVYVGSKKELGKAVGKEV-RKVVAIVDKGFAKKLEDLVEKV  112 (116)
T ss_pred             EecCCCHHHHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCc-ceeEEEeehhhhhHHHHHHHHh
Confidence            699999988999999999999999999999999999999994 4678999988 65555554443

>PTZ00222 60S ribosomal protein L7a; Provisional

Probab=99.67  E-value=2.7e-16  Score=110.77  Aligned_cols=65  Identities=26%  Similarity=0.525  Sum_probs=54.6

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC---chHHHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE---ASQLKTQIQQLKD   66 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~---~~~~~~~~~~~~~   66 (73)
                      ||+|++|++++.+|+++|++++|||++++||++||+++|+++ +++++|+|.+   ...+.++++.++.
T Consensus       154 IA~DVsPie~vk~LpaLCrk~~VPY~iVktKaeLG~AIGkKt-ravVAItD~g~ed~~~l~~lv~~~~~  221 (263)
T PTZ00222        154 IANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRKT-ATCVAITDVNAEDEAALKNLIRSVNA  221 (263)
T ss_pred             EeCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHHCCCC-CeEEEEeeCCcccHHHHHHHHHHHHH
Confidence            699999999999999999999999999999999999999874 5689999987   2445555544443

>PRK13602 putative ribosomal protein L7Ae-like; Provisional

Probab=99.64  E-value=5.5e-16  Score=92.86  Aligned_cols=49  Identities=33%  Similarity=0.545  Sum_probs=47.2

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEE
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVT   50 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~   50 (73)
                      ||+|++|+ +.++++.+|++++|||++++|+.+||+|||+++++++++|+
T Consensus        33 iA~D~~~~-~~~~i~~~c~~~~Vp~~~~~s~~eLG~a~G~~~~~a~~ai~   81 (82)
T PRK13602         33 VAEDADPR-LTEKVEALANEKGVPVSKVDSMKKLGKACGIEVGAAAVAII   81 (82)
T ss_pred             EECCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCcCEEEEEEe
Confidence            68999998 99999999999999999999999999999999999999886

>PRK13601 putative L7Ae-like ribosomal protein; Provisional

Probab=99.63  E-value=6e-16  Score=93.00  Aligned_cols=51  Identities=24%  Similarity=0.424  Sum_probs=48.4

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSN   52 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~   52 (73)
                      ||.|++|+ +.++|+++|++++|||.+++||.+||+|||+++++++++++-+
T Consensus        30 iA~Da~~~-~~k~i~~~c~~~~Vpv~~~~t~~eLG~A~G~~v~aa~~~~~~~   80 (82)
T PRK13601         30 IAKDAEEH-VTKKIKELCEEKSIKIVYIDTMKELGVMCGIDVGAAAAADIIG   80 (82)
T ss_pred             EeCCCCHH-HHHHHHHHHHhCCCCEEEeCCHHHHHHHHCCccCeeeEEEeec
Confidence            68999998 9999999999999999999999999999999999999988754

>PTZ00365 60S ribosomal protein L7Ae-like; Provisional

Probab=99.63  E-value=1.2e-15  Score=107.73  Aligned_cols=67  Identities=22%  Similarity=0.468  Sum_probs=53.8

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIE   69 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~   69 (73)
                      ||+|++|++++.++|++|++|+|||++++||++||+++|++ .+++++|++-. ++-+..++.+.+.|.
T Consensus       154 IA~DVsP~t~kk~LP~LC~k~~VPY~iv~sK~eLG~AIGkk-traVVAItdV~-~EDk~~l~~lv~~~~  220 (266)
T PTZ00365        154 IAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQK-TAAVVAIDNVR-KEDQAEFDNLCKNFR  220 (266)
T ss_pred             EeCCCCHHHHHHHHHHHHhccCCCEEEECCHHHHHHHhCCC-CceEEEecccC-HHHHHHHHHHHHHHH
Confidence            69999999999999999999999999999999999999987 56789998875 233333444444443

>PRK06683 hypothetical protein; Provisional

Probab=99.63  E-value=6.7e-16  Score=92.64  Aligned_cols=50  Identities=24%  Similarity=0.296  Sum_probs=47.8

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEe
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTS   51 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~   51 (73)
                      ||+|++|+ +.+.|.++|++++|||.+++|+.+||+|||+++++++++|..
T Consensus        33 iA~Da~~~-~~~~i~~~~~~~~Vpv~~~~t~~eLG~A~G~~~~~a~~ai~~   82 (82)
T PRK06683         33 IAEDADMR-LTHVIIRTALQHNIPITKVESVRKLGKVAGIQVGASAIGIIS   82 (82)
T ss_pred             EECCCCHH-HHHHHHHHHHhcCCCEEEECCHHHHHHHhCCcccEEEEEEeC
Confidence            69999999 999999999999999999999999999999999999999863

>KOG3387 consensus 60S ribosomal protein 15

Probab=99.62  E-value=1.2e-15  Score=98.02  Aligned_cols=73  Identities=78%  Similarity=1.142  Sum_probs=68.1

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhC---CCCceEEEEEEeCCchHHHHHHHHHHHHHHhhcC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACG---VTRPVVACSVTSNEASQLKTQIQQLKDAIEKLLI   73 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G---~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~~~   73 (73)
                      +|.|+.|.++..|+|.+|+.+||||+||+|+..||.+||   ..|++.++.|...++.....++..++..++.|++
T Consensus        56 ~aaD~kP~eIt~HLp~LcedknVp~v~Vpsk~alG~~cg~~~~~r~~~a~~i~~~~~~~~~~~~q~l~~~~~~l~~  131 (131)
T KOG3387|consen   56 MAADVKPLEITLHLPLLCEDKNVPYVFVPSKQALGLACGELVVLRPVIACSITTNEASIPLSQIQSLKRAIERLLI  131 (131)
T ss_pred             EEccCCHHHHHHHhHHHhhccCCceEEeeccHHhhhhhhhHhhcCcceeEEEEeccccchhhHHHHhHHHHHHhcC
Confidence            589999999999999999999999999999999999999   8899999999998888888899999998888764

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

>PRK01018 50S ribosomal protein L30e; Reviewed

Probab=99.61  E-value=1.8e-15  Score=93.29  Aligned_cols=56  Identities=21%  Similarity=0.246  Sum_probs=50.0

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEe-CChhhHhhHhCCCCceEEEEEEeCCchHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFV-PSKQALGRACGVTRPVVACSVTSNEASQL   57 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v-~sk~~LG~a~G~~r~~~~vai~~~~~~~~   57 (73)
                      ||+|++++ +.++++.+|++++||++.+ +|+++||+|||+++++++++|+|.|-.++
T Consensus        38 iA~D~~~~-~~~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~~~vaI~D~G~a~~   94 (99)
T PRK01018         38 VASNCPKD-IKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTVSALAIVDPGESDI   94 (99)
T ss_pred             EeCCCCHH-HHHHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCEEEEEEecCCHHHH
Confidence            68999887 9999999999999998665 89999999999998788999999994443

>PRK07714 hypothetical protein; Provisional

Probab=99.57  E-value=5.4e-15  Score=90.97  Aligned_cols=59  Identities=24%  Similarity=0.273  Sum_probs=53.2

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQI   61 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~   61 (73)
                      +|+|++|+ +.++++.+|+.++|||++++|+++||++||++ ++++++|+|.| +..+.+++
T Consensus        40 iA~D~s~~-~~~ki~~~~~~~~vp~~~~~sk~eLG~a~Gk~-~~~~vai~d~g~a~~l~~~~   99 (100)
T PRK07714         40 LSEDASVN-TTKKITDKCTYYNVPMRKVENRQQLGHAIGKD-ERVVVAVLDEGFAKKLRSML   99 (100)
T ss_pred             EeCCCCHH-HHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCC-cceEEEEeCchhHHHHHHHh
Confidence            58999999 99999999999999999999999999999998 45689999999 77666654

>PRK07283 hypothetical protein; Provisional

Probab=99.56  E-value=8.4e-15  Score=90.04  Aligned_cols=57  Identities=21%  Similarity=0.200  Sum_probs=51.5

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQ   60 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~   60 (73)
                      +|+|++|+ +.+++.+.|++++||++.++|+++||++||+++  ++++|+|.| ++.+.++
T Consensus        40 ~A~Das~~-~~kk~~~~~~~~~Vp~~~~~t~~eLG~a~Gk~~--~vvai~d~g~a~~l~~~   97 (98)
T PRK07283         40 LANDAGPN-LTKKVTDKSNYYQVEVSTVFSTLELSAAVGKPR--KVLAVTDAGFSKKMRSL   97 (98)
T ss_pred             EeCCCCHH-HHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCc--eEEEEeChhHHHHHHHh
Confidence            58999999 999999999999999999999999999999864  679999999 7766654

>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=99.55  E-value=7.3e-15  Score=88.52  Aligned_cols=56  Identities=54%  Similarity=0.883  Sum_probs=50.8

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQ   56 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~   56 (73)
                      +|+|++|.....+++.+|++++|||++++|+++||+++|++++++++++.|.| ++.
T Consensus        37 lA~d~~~~~~~~~l~~~c~~~~Ip~~~~~s~~eLG~~~g~~~~~~~~~i~d~~~a~~   93 (95)
T PF01248_consen   37 LAEDCSPDSIKKHLPALCEEKNIPYVFVPSKEELGRACGKKRPVSALAIKDAGDAKI   93 (95)
T ss_dssp             EETTSSSGHHHHHHHHHHHHTTEEEEEESHHHHHHHHTTSSSTSSEEEEEESTTHHH
T ss_pred             EcCCCChhhhcccchhheeccceeEEEECCHHHHHHHHCCCCcEEEEEEECcccchh
Confidence            58999999666669999999999999999999999999999878899999998 443

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

>PTZ00106 60S ribosomal protein L30; Provisional

Probab=99.54  E-value=1.4e-14  Score=90.73  Aligned_cols=55  Identities=20%  Similarity=0.245  Sum_probs=50.1

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEE-eCChhhHhhHhCCCCceEEEEEEeCCchH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACGVTRPVVACSVTSNEASQ   56 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~-v~sk~~LG~a~G~~r~~~~vai~~~~~~~   56 (73)
                      ||.|++++ +.+++..+|+.++||++. .+|+++||+|||+++++++++|+|.|.++
T Consensus        47 iA~D~~~~-~kkki~~~~~~~~Vpv~~~~~t~~eLG~A~Gk~~r~svvaI~D~G~a~  102 (108)
T PTZ00106         47 ISNNCPPI-RRSEIEYYAMLSKTGVHHYAGNNNDLGTACGRHFRVSVMSITDAGDSD  102 (108)
T ss_pred             EeCCCCHH-HHHHHHHHHhhcCCCEEEeCCCHHHHHHHhCCccCeEEEEEeCcchHH
Confidence            68999999 999999999999999985 69999999999999878899999999333

>PRK05583 ribosomal protein L7Ae family protein; Provisional

Probab=99.48  E-value=9.4e-14  Score=86.44  Aligned_cols=62  Identities=21%  Similarity=0.236  Sum_probs=56.8

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQQL   64 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~~~   64 (73)
                      +|+|++|+ ..+++..+|+.++||++...|+++||++||++. +++++|+|.+ +..+.+++++-
T Consensus        39 ~A~D~s~~-~kkki~~~~~~~~vp~~~~~t~~eLg~a~Gk~~-~~~iai~d~g~a~~l~~~~~~~  101 (104)
T PRK05583         39 ISNDISEN-SKNKFKNYCNKYNIPYIEGYSKEELGNAIGRDE-IKILGVKDKNMAKKLLKLWNES  101 (104)
T ss_pred             EeCCCCHh-HHHHHHHHHHHcCCCEEEecCHHHHHHHhCCCC-eEEEEEeChHHHHHHHHHHHhc
Confidence            58999999 999999999999999999999999999999984 7899999999 88888887653

>PRK09190 hypothetical protein; Provisional

Probab=99.16  E-value=1.1e-10  Score=80.91  Aligned_cols=63  Identities=19%  Similarity=0.207  Sum_probs=56.0

Q ss_pred             CCCCCCchhHHHhHHHHHhh------CCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAED------KNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQQLK   65 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~------~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~~~~   65 (73)
                      +|+|++++ ..++|..+|+.      ++|||+..+|+++||+|+|++ ++++++|++.+ +..+.+.++.+.
T Consensus       133 ~A~DaS~~-t~kKl~~~~~~~~~~~~~~Vp~v~~~tk~eLg~AlGr~-~~~~vav~d~gfA~~l~~~~~rl~  202 (220)
T PRK09190        133 HASDGAAD-GKRKLDQARRALVHETGREIPVIGLFTAAELGLAFGRE-NVIHAALLAGGAAERVVKRAQRLA  202 (220)
T ss_pred             EeccCChh-HHHHHHHHHHhhcccccCCccEEEecCHHHHHHHhCCC-ceeEEEEcChHHHHHHHHHHHHHH
Confidence            58999999 99999999999      999999999999999999988 46789999999 777777766544

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

Probab=98.32  E-value=2.3e-06  Score=55.35  Aligned_cols=53  Identities=15%  Similarity=0.234  Sum_probs=45.8

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCC-----------CceEEEEEEeCC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVT-----------RPVVACSVTSNE   53 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~-----------r~~~~vai~~~~   53 (73)
                      +|+|++....++-+.+||.+++||.+.+.+..+||+++|..           ++.+++++.|.|
T Consensus        56 Laencdep~yvKLVeALcaeh~iplikV~d~k~LGew~Glckid~eGnarKvvGcs~vvVkd~g  119 (134)
T KOG3406|consen   56 LAENCDEPMYVKLVEALCAEHQIPLIKVGDAKELGEWAGLCKIDSEGNARKVVGCSCVVVKDYG  119 (134)
T ss_pred             EeccCCchHHHHHHHHHHhhcCCCeEEeccchhhhhhhceeeecCCCCeeEeecceEEEEeecc
Confidence            57886666699999999999999999999999999999864           256778888887

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

Probab=98.23  E-value=2.5e-06  Score=52.92  Aligned_cols=57  Identities=18%  Similarity=0.278  Sum_probs=48.3

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEe-CChhhHhhHhCCCCceEEEEEEeCCchHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFV-PSKQALGRACGVTRPVVACSVTSNEASQLK   58 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v-~sk~~LG~a~G~~r~~~~vai~~~~~~~~~   58 (73)
                      ||+++.+. +.+.+.-++.=.+||+.+. .|..+||.+||+..+.++++|+|.|.+++.
T Consensus        41 iAsN~P~~-~k~~ieyYAkLs~ipV~~y~Gt~~eLG~~cgkpf~v~~laIiD~G~S~Il   98 (100)
T COG1911          41 IASNCPKE-LKEDIEYYAKLSDIPVYVYEGTSVELGTVCGKPFRVAALAIIDEGDSDIL   98 (100)
T ss_pred             EecCCCHH-HHHHHHHHHHHcCCcEEEecCCceeHHhhhCCCceEEEEEEecCchhhhh
Confidence            47777666 9999999999999998766 467789999999999999999999966654

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

Probab=97.17  E-value=0.00041  Score=48.06  Aligned_cols=49  Identities=24%  Similarity=0.464  Sum_probs=32.8

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceE-EEEEEeCC-chHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVV-ACSVTSNE-ASQLKTQIQQ   63 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~-~vai~~~~-~~~~~~~~~~   63 (73)
                      +|+|+||.|++.++|++|..+     .+..+         .++++ ++++.+.. ...+..+++.
T Consensus       131 ~ahDvDPIELVvFLPaLC~km-----ivk~~---------~~kT~t~~a~v~~edk~~l~kl~e~  181 (209)
T KOG3166|consen  131 TAHDVDPIELVVFLPALCRKM-----IVKGK---------HRKTCTTVAFVNSEDKGALAKLVEA  181 (209)
T ss_pred             EecccCchhheeecHHhhhhh-----ccccc---------ccceeeeeeeechhhHHHHHHHHHH
Confidence            589999999999999999988     45555         33333 35554443 3445555443

>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=93.31  E-value=0.55  Score=31.29  Aligned_cols=59  Identities=31%  Similarity=0.443  Sum_probs=44.8

Q ss_pred             CCCCchhHHHhHHHHHhhCC--CCEEEeC--ChhhHhhHhCCCCceEEEEEEeCC--chHHHHHHHH
Q 035100            3 ADTEPLEILLHLPLLAEDKN--VPYVFVP--SKQALGRACGVTRPVVACSVTSNE--ASQLKTQIQQ   63 (73)
Q Consensus         3 ~D~~p~~~~~~l~~lc~~~~--IP~~~v~--sk~~LG~a~G~~r~~~~vai~~~~--~~~~~~~~~~   63 (73)
                      .| .|.=+..|||.+|.-.+  |..+..+  +.++|+.++|..| +++++|..+.  ++.+.+++++
T Consensus        82 ~D-~ps~L~~h~P~Lva~as~~vrLV~Lpkgs~~rLs~aLgi~r-~g~l~v~~~~~~~~~L~~~i~~  146 (158)
T PF08228_consen   82 SD-QPSILTSHFPQLVATASKSVRLVQLPKGSEARLSEALGIPR-VGILAVRADAPGAKSLVDLIRS  146 (158)
T ss_pred             CC-CcHHHHHHHHHHHHhccCcceEEeCChhHHHHHHHHhCCCC-ccEEEEecCCcccHHHHHHHHh
Confidence            35 34449999999999877  7777765  5677999999985 6678888764  6677777665

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.

>PF15608 PELOTA_1: PELOTA RNA binding domain

Probab=91.27  E-value=0.53  Score=29.28  Aligned_cols=31  Identities=45%  Similarity=0.657  Sum_probs=25.1

Q ss_pred             HHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEe
Q 035100           10 ILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTS   51 (73)
Q Consensus        10 ~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~   51 (73)
                      =+.|+..||+++|||+..++++           +.+|++|+.
T Consensus        68 d~~Hl~~LA~ekgVpVe~~~d~-----------~Y~a~glIk   98 (100)
T PF15608_consen   68 DLAHLLLLAEEKGVPVEVYPDL-----------PYSACGLIK   98 (100)
T ss_pred             cHHHHHHHHHHcCCcEEEeCCC-----------CeEEEEEee
Confidence            4789999999999999999885           345676654

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

Probab=90.98  E-value=0.65  Score=29.47  Aligned_cols=39  Identities=23%  Similarity=0.303  Sum_probs=29.2

Q ss_pred             CCEE-EeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHH
Q 035100           23 VPYV-FVPSKQALGRACGVTRPVVACSVTSNEASQLKTQI   61 (73)
Q Consensus        23 IP~~-~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~   61 (73)
                      .+|- +-....+||++||+--+.++..|+|.+++++...+
T Consensus        69 ~~v~~~sg~n~~lgt~~g~~fRv~v~~ivd~gds~~~~~l  108 (112)
T KOG2988|consen   69 TGVHHYSGNNVELGTACGKTFRVSVLSIVDLGDSDIIAAL  108 (112)
T ss_pred             CceeeecCCcEeHHHHhcCeeEeeEEEEEeccchhhhhhc
Confidence            4444 44556789999999878899999999966665543

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

Probab=84.92  E-value=3.2  Score=23.54  Aligned_cols=48  Identities=13%  Similarity=0.441  Sum_probs=34.1

Q ss_pred             HHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHH
Q 035100           11 LLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQ   63 (73)
Q Consensus        11 ~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~   63 (73)
                      ..+...+++++|+++..+++-.+++.-||..     +.+...+...+.+.+++
T Consensus        14 a~~~ek~lk~~gi~~~liP~P~~i~~~CG~a-----l~~~~~d~~~i~~~l~~   61 (73)
T PF11823_consen   14 AMKAEKLLKKNGIPVRLIPTPREISAGCGLA-----LRFEPEDLEKIKEILEE   61 (73)
T ss_pred             HHHHHHHHHHCCCcEEEeCCChhccCCCCEE-----EEEChhhHHHHHHHHHH
Confidence            3456788999999999999999999998832     44444334455555443

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

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

Probab=82.19  E-value=1.7  Score=27.94  Aligned_cols=27  Identities=7%  Similarity=0.246  Sum_probs=23.5

Q ss_pred             chhHHHhHHHHHhhCCCCEEEeCChhh
Q 035100            7 PLEILLHLPLLAEDKNVPYVFVPSKQA   33 (73)
Q Consensus         7 p~~~~~~l~~lc~~~~IP~~~v~sk~~   33 (73)
                      -.|++..+.++|-+.|+|+.++.++..
T Consensus        35 i~dL~~~~~~ic~ergiPIe~I~~~k~   61 (121)
T PF13611_consen   35 IDDLVREVTEICCERGIPIEIIDKKKR   61 (121)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEecCcce
Confidence            346899999999999999999998655

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	73
1zwz_A	126	Structural Comparison Of Yeast Snornp And Splicesom		4e-19
2ale_A	134	Crystal Structure Of Yeast Rna Splicing Factor Snu1		4e-19
2jnb_A	144	Solution Structure Of Rna-Binding Protein 15.5k Len		2e-16
2ozb_A	130	Structure Of A Human Prp31-15.5k-U4 Snrna Complex L		2e-16
1e7k_A	128	Crystal Structure Of The Spliceosomal 15.5kd Protei		3e-16
2aif_A	135	Crystal Structure Of High Mobility Like Protein, Nh		6e-16
3o85_A	122	Giardia Lamblia 15.5kd Rna Binding Protein Length =		6e-07
3paf_A	117	M. Jannaschii L7ae Mutant Length = 117		2e-05
1rlg_A	119	Molecular Basis Of Box CD RNA-Protein Interaction:		1e-04
2lbw_A	121	Solution Structure Of The S. Cerevisiae HACA RNP PR		1e-04
2lbx_A	121	Solution Structure Of The S. Cerevisiae HACA RNP PR		1e-04
2fc3_A	124	Crystal Structure Of The Extremely Thermostable Aer		3e-04

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

Iteration: 1
 Score = 89.7 bits (221), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 44/73 (60%), Positives = 52/73 (71%)
Query: 1   MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD              EDKNVPYVFVPS+ ALGRACGV+RPV+A S+T+N+AS +KTQ
Sbjct: 54  MAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKTQ 113
Query: 61  IQQLKDAIEKLLI 73
           I  +KD IE LLI
Sbjct: 114 IYAVKDKIETLLI 126

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

Iteration: 1
 Score = 89.7 bits (221), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 44/73 (60%), Positives = 52/73 (71%)
Query: 1   MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD              EDKNVPYVFVPS+ ALGRACGV+RPV+A S+T+N+AS +KTQ
Sbjct: 54  MAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKTQ 113
Query: 61  IQQLKDAIEKLLI 73
           I  +KD IE LLI
Sbjct: 114 IYAVKDKIETLLI 126

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

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 45/73 (61%), Positives = 52/73 (71%)
Query: 1   MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD              EDKNVPYVFV SKQALGRACGV+RPV+ACSVT  E SQLK Q
Sbjct: 72  MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQ 131
Query: 61  IQQLKDAIEKLLI 73
           IQ ++ +IE+LL+
Sbjct: 132 IQSIQQSIERLLV 144

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

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 45/73 (61%), Positives = 52/73 (71%)
Query: 1   MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD              EDKNVPYVFV SKQALGRACGV+RPV+ACSVT  E SQLK Q
Sbjct: 58  MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQ 117
Query: 61  IQQLKDAIEKLLI 73
           IQ ++ +IE+LL+
Sbjct: 118 IQSIQQSIERLLV 130

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

Iteration: 1
 Score = 80.1 bits (196), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 45/73 (61%), Positives = 52/73 (71%)
Query: 1   MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD              EDKNVPYVFV SKQALGRACGV+RPV+ACSVT  E SQLK Q
Sbjct: 56  MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQ 115
Query: 61  IQQLKDAIEKLLI 73
           IQ ++ +IE+LL+
Sbjct: 116 IQSIQQSIERLLV 128

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

Iteration: 1
 Score = 79.0 bits (193), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 38/73 (52%), Positives = 49/73 (67%)
Query: 1   MAADTXXXXXXXXXXXXAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +AAD              EDKN PYVFV SK ALGRACGV+RPV+A ++TS + S L +Q
Sbjct: 63  LAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSKDGSSLSSQ 122
Query: 61  IQQLKDAIEKLLI 73
           I +LKD IE++L+
Sbjct: 123 ITELKDQIEQILV 135

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 34/54 (62%), Gaps = 2/54 (3%)
Query: 19  EDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLL 72
           EDK VPYVF+ SK ALGRAC V+ P +  S+  ++A  L   + ++   +E L+
Sbjct: 71  EDKGVPYVFIGSKNALGRACNVSVPTIVASIGKHDA--LGNVVAEIVGKVEALV 122

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 33/47 (70%), Gaps = 1/47 (2%)
Query: 19  EDKNVPYVFVPSKQALGRACGVTRPVVACSVTS-NEASQLKTQIQQL 64
           E+K +PY +V SKQ LG+A GV+RP  + ++ +  +A +LK  I+++
Sbjct: 66  EEKGIPYAYVASKQDLGKAAGVSRPASSVAIINEGDAEELKVLIEKV 112

>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 = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/53 (35%), Positives = 33/53 (62%), Gaps = 2/53 (3%)
Query: 19  EDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKL 71
           E+KNVPY++V SK  LGRA G+  P  + ++ +    +L+ ++  L + I+ L
Sbjct: 67  EEKNVPYIYVKSKNDLGRAVGIEVPCASAAIINE--GELRKELGSLVEKIKGL 117

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 2/56 (3%)
Query: 19  EDKNVPYVFVPSKQALGRACGVTRP--VVACSVTSNEASQLKTQIQQLKDAIEKLL 72
           ED +VPY+F+PSKQ LG A    RP  VV     SN+    K + ++ K++  +++
Sbjct: 60  EDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSNKKKDGKNKEEEYKESFNEVV 115

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 2/56 (3%)
Query: 19  EDKNVPYVFVPSKQALGRACGVTRP--VVACSVTSNEASQLKTQIQQLKDAIEKLL 72
           ED +VPY+F+PSKQ LG A    RP  VV     SN+    K + ++ K++  +++
Sbjct: 60  EDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSNKKKDGKNKEEEYKESFNEVV 115

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/53 (35%), Positives = 34/53 (64%), Gaps = 2/53 (3%)
Query: 19  EDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKL 71
           ++K +PYV+VPSK+ LG A G+   V A SV   E    +T ++++ + +++L
Sbjct: 68  DEKKIPYVYVPSKKRLGEAAGIE--VAAASVAIIEPGDAETLVREIVEKVKEL 118

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	73
2ale_A	134	SNU13, NHP2/L7AE family protein YEL026W; splicing,	1e-24
2aif_A	135	Ribosomal protein L7A; high-mobility like protein,	4e-24
2jnb_A	144	NHP2-like protein 1; splicing, KINK-turn RNA-bindi	8e-24
3o85_A	122	Ribosomal protein L7AE; alpha beta sandwich fold,	8e-20
1vq8_F	120	50S ribosomal protein L7AE; ribosome 50S, protein-	3e-19
2fc3_A	124	50S ribosomal protein L7AE; alpha-beta-alpha sandw	1e-18
2lbw_A	121	H/ACA ribonucleoprotein complex subunit 2; L7AE, s	8e-18
1rlg_A	119	50S ribosomal protein L7AE; protein-RNA, structura	1e-17
3v7e_A	82	Ribosome-associated protein L7AE-like; RNA-protein	4e-17
1xbi_A	120	50S ribosomal protein L7AE; alpha-beta-alpha sandw	9e-17
3jyw_G	113	60S ribosomal protein L8(A); eukaryotic ribosome,	4e-16
3izc_H	256	60S ribosomal protein RPL8 (L7AE); eukaryotic ribo	3e-14
4a17_F	255	RPL7A, 60S ribosomal protein L9; eukaryotic riboso	2e-13
3iz5_H	258	60S ribosomal protein L7A (L7AE); eukaryotic ribos	2e-13
2zkr_f	266	60S ribosomal protein L7A; protein-RNA complex, 60	2e-12
2xzm_U	126	Ribosomal protein L7AE containing protein; ribosom	1e-11
3v7q_A	101	Probable ribosomal protein YLXQ; L7AE superfamily,	5e-06
3on1_A	101	BH2414 protein; structural genomics, PSI-2, protei	3e-05
3vi6_A	125	60S ribosomal protein L30; three-layer alpha/beta/	4e-04
3u5e_c	105	L32, RP73, YL38, 60S ribosomal protein L30; transl	5e-04
3u5c_M	143	40S ribosomal protein S12, 40S ribosomal protein S	6e-04
3iz5_F	190	60S ribosomal protein L9 (L6P); eukaryotic ribosom	7e-04

>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 = 88.1 bits (218), Expect = 1e-24
 Identities = 55/73 (75%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EP+EILLHLPLL EDKNVPYVFVPS+ ALGRACGV+RPV+A S+T+N+AS +KTQ
Sbjct: 54  MAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKTQ 113

Query: 61  IQQLKDAIEKLLI 73
           I  +KD IE LLI
Sbjct: 114 IYAVKDKIETLLI 126

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

 Score = 86.9 bits (215), Expect = 4e-24
 Identities = 49/73 (67%), Positives = 61/73 (83%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +AAD EPLEILLHLPL+ EDKN PYVFV SK ALGRACGV+RPV+A ++TS + S L +Q
Sbjct: 63  LAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSKDGSSLSSQ 122

Query: 61  IQQLKDAIEKLLI 73
           I +LKD IE++L+
Sbjct: 123 ITELKDQIEQILV 135

>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 = 86.2 bits (213), Expect = 8e-24
 Identities = 56/73 (76%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EPLEI+LHLPLL EDKNVPYVFV SKQALGRACGV+RPV+ACSVT  E SQLK Q
Sbjct: 72  MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQ 131

Query: 61  IQQLKDAIEKLLI 73
           IQ ++ +IE+LL+
Sbjct: 132 IQSIQQSIERLLV 144

>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 = 75.3 bits (185), Expect = 8e-20
 Identities = 33/72 (45%), Positives = 48/72 (66%), Gaps = 2/72 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +AAD +P+EI+LHLPL  EDK VPYVF+ SK ALGRAC V+ P +  S+  ++   L   
Sbjct: 53  IAADADPIEIVLHLPLACEDKGVPYVFIGSKNALGRACNVSVPTIVASIGKHD--ALGNV 110

Query: 61  IQQLKDAIEKLL 72
           + ++   +E L+
Sbjct: 111 VAEIVGKVEALV 122

>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 = 74.1 bits (182), Expect = 3e-19
 Identities = 25/71 (35%), Positives = 44/71 (61%), Gaps = 2/71 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +A D +P EI++H+P LA++K VP++FV  +  LG A G+     A +VT  +A +    
Sbjct: 51  VAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVT--DAGEADAD 108

Query: 61  IQQLKDAIEKL 71
           ++ + D +E+L
Sbjct: 109 VEDIADKVEEL 119

>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 = 72.5 bits (178), Expect = 1e-18
 Identities = 29/71 (40%), Positives = 47/71 (66%), Gaps = 2/71 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +A D +P EI++HLPLL ++K +PYV+VPSK+ LG A G    V A SV   E    +T 
Sbjct: 50  IAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAG--IEVAAASVAIIEPGDAETL 107

Query: 61  IQQLKDAIEKL 71
           ++++ + +++L
Sbjct: 108 VREIVEKVKEL 118

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

 Score = 70.3 bits (172), Expect = 8e-18
 Identities = 25/74 (33%), Positives = 44/74 (59%), Gaps = 2/74 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVT--SNEASQLK 58
           +A D  P +++ H+P+L ED +VPY+F+PSKQ LG A    RP     +   SN+    K
Sbjct: 42  IAGDIWPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSNKKKDGK 101

Query: 59  TQIQQLKDAIEKLL 72
            + ++ K++  +++
Sbjct: 102 NKEEEYKESFNEVV 115

>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 = 69.8 bits (171), Expect = 1e-17
 Identities = 29/71 (40%), Positives = 46/71 (64%), Gaps = 2/71 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +A D +P EI+ HLPLL E+KNVPY++V SK  LGRA G+  P  + ++ +    +L+ +
Sbjct: 49  IAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAIINE--GELRKE 106

Query: 61  IQQLKDAIEKL 71
           +  L + I+ L
Sbjct: 107 LGSLVEKIKGL 117

>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 = 67.3 bits (165), Expect = 4e-17
 Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 1  MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSV 49
          +A D +P  +   +  LAED+ +    V S + LG+ACG+     A ++
Sbjct: 33 VAKDADP-ILTSSVVSLAEDQGISVSMVESMKKLGKACGIEVGAAAVAI 80

>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 = 67.6 bits (165), Expect = 9e-17
 Identities = 24/70 (34%), Positives = 42/70 (60%), Gaps = 1/70 (1%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKT 59
           +A D +P E++ HLP L E+K +PY +V SKQ LG+A G+     + ++ +   A +LK 
Sbjct: 51  IAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGDAEELKV 110

Query: 60  QIQQLKDAIE 69
            I+++    +
Sbjct: 111 LIEKVNVLKQ 120

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

 Score = 65.8 bits (160), Expect = 4e-16
 Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 2/69 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +A D +P+E+++ LP L +   VPY  V  K  LG         VA        ++ +  
Sbjct: 47  IANDVDPIELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKTSAVAALTEVR--AEDEAA 104

Query: 61  IQQLKDAIE 69
           + +L   I+
Sbjct: 105 LAKLVSTID 113

>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 = 61.5 bits (148), Expect = 2e-13
 Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACS--VTSNEASQLK 58
           +A D +P+E+++ LP L    +VP+ FV  K ALG+              V + + ++L+
Sbjct: 146 IAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKTATAVALTEVRNEDKAKLQ 205

Query: 59  TQIQQLKDAIEK 70
              +  K     
Sbjct: 206 QFSELFKTNYNA 217

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

 Score = 58.4 bits (140), Expect = 2e-12
 Identities = 16/68 (23%), Positives = 28/68 (41%), Gaps = 2/68 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACS--VTSNEASQLK 58
           +A D +P+E+++ LP L     VPY  +  K  LG               V S +   L 
Sbjct: 157 IAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGHLVHRKTCTTVAFTQVNSEDKGALA 216

Query: 59  TQIQQLKD 66
             ++ ++ 
Sbjct: 217 KLVEAIRT 224

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

 Score = 54.7 bits (131), Expect = 1e-11
 Identities = 15/80 (18%), Positives = 29/80 (36%), Gaps = 10/80 (12%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVT--------RPVVACS--VT 50
           +A D +    +  +  L     + YV VP + +LG   G          + V  CS    
Sbjct: 46  VAEDCDQGNYVKLVKALCAKNEIKYVSVPKRASLGEYLGHFTANAKGEIKKVKGCSSLAI 105

Query: 51  SNEASQLKTQIQQLKDAIEK 70
              A ++    +++ +   K
Sbjct: 106 RKYAPEITEDEKKIIEGALK 125

>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 = 39.6 bits (93), Expect = 5e-06
 Identities = 15/62 (24%), Positives = 24/62 (38%), Gaps = 3/62 (4%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVT-SNEASQLKT 59
           +  D         +        VPY  V S+  LGR+ G     V  +VT    A++L +
Sbjct: 41  LTEDASS-NTAKKVTDKCNYYKVPYKKVESRAVLGRSIG-KEARVVVAVTDQGFANKLIS 98

Query: 60  QI 61
            +
Sbjct: 99  LL 100

>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 = 37.7 bits (88), Expect = 3e-05
 Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 3/64 (4%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVT-SNEASQLKT 59
           +++D         L        +P   V ++Q LGRA G     V   V  +  + +L  
Sbjct: 40  LSSDAGI-HTKKKLLDKCGSYQIPVKVVGNRQMLGRAIG-KHERVVIGVKDAGFSRKLAA 97

Query: 60  QIQQ 63
            I +
Sbjct: 98  LIDE 101

>3vi6_A 60S ribosomal protein L30; three-layer alpha/beta/ALPA; 1.59A {Homo sapiens} PDB: 2zkr_6 1ysh_C Length = 125

 Score = 34.8 bits (80), Expect = 4e-04
 Identities = 9/51 (17%), Positives = 17/51 (33%), Gaps = 1/51 (1%)

Query: 1  MAADTEPLEILLHLPLLAEDKNVP-YVFVPSKQALGRACGVTRPVVACSVT 50
          + A+  P      +   A       + +  +   LG ACG    V   ++ 
Sbjct: 48 ILANNCPALRKSEIEYYAMLAKTGVHHYSGNNIELGTACGKYYRVCTLAII 98

>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 1ck2_A 1cn7_A 1nmu_B* 3jyw_2 Length = 105

 Score = 34.4 bits (79), Expect = 5e-04
 Identities = 12/51 (23%), Positives = 15/51 (29%), Gaps = 1/51 (1%)

Query: 1  MAADTEPLEILLHLPLLAEDKNVP-YVFVPSKQALGRACGVTRPVVACSVT 50
          + A   P+     L   A       Y F      LG A G    V   S+ 
Sbjct: 43 IIAANTPVLRKSELEYYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSIL 93

>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 = 34.8 bits (79), Expect = 6e-04
 Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 10/59 (16%)

Query: 1   MAADTEPLEILLHLPLLAED--KNVPYVFVPSKQALGRACGVT--------RPVVACSV 49
           + +      I+  +  LA D    VP + V   + LG   G+         R VV  SV
Sbjct: 62  LVSSVTEANIIKLVEGLANDPENKVPLIKVADAKQLGEWAGLGKIDREGNARKVVGASV 120

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	73
2jnb_A	144	NHP2-like protein 1; splicing, KINK-turn RNA-bindi	99.86
2aif_A	135	Ribosomal protein L7A; high-mobility like protein,	99.84
3o85_A	122	Ribosomal protein L7AE; alpha beta sandwich fold,	99.84
2ale_A	134	SNU13, NHP2/L7AE family protein YEL026W; splicing,	99.84
2lbw_A	121	H/ACA ribonucleoprotein complex subunit 2; L7AE, s	99.82
1xbi_A	120	50S ribosomal protein L7AE; alpha-beta-alpha sandw	99.77
1vq8_F	120	50S ribosomal protein L7AE; ribosome 50S, protein-	99.76
2fc3_A	124	50S ribosomal protein L7AE; alpha-beta-alpha sandw	99.76
1rlg_A	119	50S ribosomal protein L7AE; protein-RNA, structura	99.76
3jyw_G	113	60S ribosomal protein L8(A); eukaryotic ribosome,	99.7
3v7e_A	82	Ribosome-associated protein L7AE-like; RNA-protein	99.69
3on1_A	101	BH2414 protein; structural genomics, PSI-2, protei	99.69
4a17_F	255	RPL7A, 60S ribosomal protein L9; eukaryotic riboso	99.68
3v7q_A	101	Probable ribosomal protein YLXQ; L7AE superfamily,	99.67
3iz5_H	258	60S ribosomal protein L7A (L7AE); eukaryotic ribos	99.65
3iz5_f	112	60S ribosomal protein L30 (L30E); eukaryotic ribos	99.64
3cpq_A	110	50S ribosomal protein L30E; RNA-protein, elongatio	99.64
3u5e_c	105	L32, RP73, YL38, 60S ribosomal protein L30; transl	99.62
3j21_Z	99	50S ribosomal protein L30E; archaea, archaeal, KIN	99.62
4a18_G	104	RPL30; ribosome, eukaryotic initiation factor 6, E	99.62
1w41_A	101	50S ribosomal protein L30E; electrostatic interact	99.62
2xzm_U	126	Ribosomal protein L7AE containing protein; ribosom	99.59
3izc_H	256	60S ribosomal protein RPL8 (L7AE); eukaryotic ribo	99.59
3u5c_M	143	40S ribosomal protein S12, 40S ribosomal protein S	99.59
2zkr_f	266	60S ribosomal protein L7A; protein-RNA complex, 60	99.55
3vi6_A	125	60S ribosomal protein L30; three-layer alpha/beta/	99.45
2kg4_A	165	Growth arrest and DNA-damage-inducible protein GA	99.42
3cg6_A	146	Growth arrest and DNA-damage-inducible 45 gamma; a	98.51
3ffm_A	167	Growth arrest and DNA-damage-inducible protein GAD	98.17

>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=99.86  E-value=1.3e-22  Score=131.49  Aligned_cols=73  Identities=77%  Similarity=1.193  Sum_probs=70.2

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHHhhcC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLLI   73 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~~~   73 (73)
                      ||+|++|++++++++.+|+++||||++++||.+||+|||+++++++++|++.+++++.+++++++++|+.|+|
T Consensus        72 IA~D~~p~e~~~~l~~lC~~~~VP~~~v~sk~eLG~a~Gk~~~vs~vaI~~~~~s~i~~~~~~~~~~i~~l~~  144 (144)
T 2jnb_A           72 MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQIQSIQQSIERLLV  144 (144)
T ss_dssp             EETTCSCHHHHTTSCSSCGGGCCCCEEESCSHHHHHHHTCSSCCSEEEEECCTTCTTHHHHHHHHHHHHHHHC
T ss_pred             EeCCCCHHHHHHHHHHHHHHhCCCEEEECCHHHHHHHhCCCCceEEEEEEeCCcHHHHHHHHHHHHHHHHHhC
Confidence            6899999889999999999999999999999999999999999889999999888999999999999999986

>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=99.84  E-value=1.2e-21  Score=125.39  Aligned_cols=73  Identities=67%  Similarity=1.094  Sum_probs=67.2

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHHhhcC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLLI   73 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~~~   73 (73)
                      +|+|++|++++++++.+|++++|||++++|+.+||+|||++|++++++|+|.+++++.+++++++++|+.|+|
T Consensus        63 iA~D~~~~~~~~~l~~lc~~~~IP~~~v~sk~eLG~a~G~~~~v~~vaI~d~~~s~i~~~~~~~~~~~~~~~~  135 (135)
T 2aif_A           63 LAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSKDGSSLSSQITELKDQIEQILV  135 (135)
T ss_dssp             EETTCSCHHHHHHHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEECCTTCTTHHHHHHHHHTTCC---
T ss_pred             EecCCChHHHHhHHHHHHHhcCCcEEEECCHHHHHHHhCCCCcEEEEEEEcCCcHHHHHHHHHHHHHHHHHhC
Confidence            5899999977799999999999999999999999999999998889999999989999999999999999986

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

Probab=99.84  E-value=3.7e-21  Score=121.39  Aligned_cols=70  Identities=47%  Similarity=0.868  Sum_probs=66.4

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHHhhc
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLL   72 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~~   72 (73)
                      +|+|++|++++.+++.+|+++||||++++|+.+||+|||+++++++++|+|.+  ++++++++++++|+.|+
T Consensus        53 iA~D~~p~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~Gk~~~vs~vaI~d~~--~~~~~~~~~~~~i~~~~  122 (122)
T 3o85_A           53 IAADADPIEIVLHLPLACEDKGVPYVFIGSKNALGRACNVSVPTIVASIGKHD--ALGNVVAEIVGKVEALV  122 (122)
T ss_dssp             EETTCSSGGGGTTHHHHHHTTTCCEEEESCHHHHHHHTTCSSCCSEEEECCCT--TTHHHHHHHHHHHHTTC
T ss_pred             EeCCCChHHHHHHHHHHHHHhCCCEEEECCHHHHHHHhCCCCCEEEEEEEccc--chHHHHHHHHHHHHhhC
Confidence            58999999789999999999999999999999999999999999999999998  49999999999999875

>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=99.84  E-value=2.4e-21  Score=124.15  Aligned_cols=73  Identities=75%  Similarity=1.164  Sum_probs=68.6

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHHhhcC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLLI   73 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~~~   73 (73)
                      ||+|++|++++++++.+|+++||||++++||.+||++||+++++++++|+|.+.+++.++++.+++.++.|++
T Consensus        54 iA~D~~p~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~G~~~~~s~vaI~d~~~s~~~~l~~~i~~~~~~~~~  126 (134)
T 2ale_A           54 MAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKTQIYAVKDKIETLLI  126 (134)
T ss_dssp             EETTCSSGGGGTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEECCTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCCCCeEEEEEEcCChHHHHHHHHHHHHHHHHhHH
Confidence            6899999889999999999999999999999999999999988788999998888899999999999998863

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

Probab=99.82  E-value=2.7e-20  Score=117.01  Aligned_cols=71  Identities=32%  Similarity=0.652  Sum_probs=65.4

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-c--------hHHHHHHHHHHHHHHhh
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-A--------SQLKTQIQQLKDAIEKL   71 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~--------~~~~~~~~~~~~~~~~~   71 (73)
                      ||+|++|++++.+++.+|+++||||++++|+.+||+|||+++++++++|+|.| +        .++.+.++++.++|++|
T Consensus        42 iA~D~~~~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~g~k~~~s~v~I~d~g~a~~~~~~~~~~y~~~y~~~~~~~~~~  121 (121)
T 2lbw_A           42 IAGDIWPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSNKKKDGKNKEEEYKESFNEVVKEVQAL  121 (121)
T ss_dssp             ECTTCSCTTHHHHHHHHHHHTCCCEEECCCHHHHHHHHTCSSCCSEEEECCSCTTGGGCSSTHHHHHHHHHHHHHHHHHC
T ss_pred             EeCCCCHHHHHHHHHHHHHhcCCcEEEECCHHHHHHHhCCCCCEEEEEEEcCcchHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            69999998799999999999999999999999999999998888999999987 4        45899999999999875

>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=99.77  E-value=5.8e-19  Score=110.78  Aligned_cols=66  Identities=36%  Similarity=0.680  Sum_probs=57.9

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQQLKD   66 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~~~~~   66 (73)
                      ||+|++|++++.+++.+|++++|||++++|+.+||++||+++++++++|+|.| ++.+.++++.+++
T Consensus        51 iA~D~~p~~~~~~l~~lc~~~~VP~~~v~sk~eLG~a~G~~~~~s~vaI~d~g~a~~l~~l~~~i~~  117 (120)
T 1xbi_A           51 IAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGDAEELKVLIEKVNV  117 (120)
T ss_dssp             EESCCSSGGGTTTHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECSCHHHHHHHHHHHHH
T ss_pred             EcCCCChHHHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCCCEEEEEEeccchHHHHHHHHHHHHH
Confidence            58999999789999999999999999999999999999999888999999999 5555555555443

>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=99.76  E-value=6.3e-19  Score=110.31  Aligned_cols=68  Identities=37%  Similarity=0.705  Sum_probs=59.1

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHHHHHHHHHhh
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQQLKDAIEKL   71 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~~~~~~~~~~   71 (73)
                      +|+|++|++++.+++.+|++++|||++++|+.+||+|||+++++++++|+|.| ++   +.++.+.+.|+.|
T Consensus        51 iA~D~~~~~~~~~l~~lc~~~~Vp~~~~~sk~eLG~a~G~~~~~~~vaI~d~g~a~---~~~~~l~~~~~~l  119 (120)
T 1vq8_F           51 VAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVTDAGEAD---ADVEDIADKVEEL  119 (120)
T ss_dssp             EESCCSSGGGTTTHHHHHHTTCCCEEEESCHHHHHHHTTCSSCCSEEEESSCSSCH---HHHHHHHHHHHHT
T ss_pred             EeCCCChHHHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCCCCeEEEEEecCchHH---HHHHHHHHHHHhc
Confidence            58999998789999999999999999999999999999999889999999998 44   4455566666654

>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=99.76  E-value=1.4e-18  Score=109.41  Aligned_cols=67  Identities=36%  Similarity=0.779  Sum_probs=56.9

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHHHHHHHHHh
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQQLKDAIEK   70 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~~~~~~~~~   70 (73)
                      +|+|++|++++.+++.+|++++|||++++|+.+||+|||+++++++++|+|.| ++.+   ++.+.+.++.
T Consensus        50 iA~D~~~~~~~~~l~~lc~~~~Vp~~~v~sk~eLG~a~G~~~~~~~vaI~d~g~a~~~---~~~l~~~~~~  117 (124)
T 2fc3_A           50 IAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAIIEPGDAETL---VREIVEKVKE  117 (124)
T ss_dssp             EETTCSSGGGTTTHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEEECGGGHHH---HHHHHHHHHH
T ss_pred             EcCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCEEEEEEECcchHHHH---HHHHHHHHHH
Confidence            58999998789999999999999999999999999999999888999999998 5443   3444444443

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

Probab=99.76  E-value=1.1e-18  Score=109.08  Aligned_cols=68  Identities=41%  Similarity=0.760  Sum_probs=58.8

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHHHHHHHHHhh
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQQLKDAIEKL   71 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~~~~~~~~~~   71 (73)
                      +|+|++|++++.+++.+|++++|||++++|+.+||+|||+++++++++|+|.| ++   ..++.+.+.++.|
T Consensus        49 iA~D~~~~~~~~~l~~lc~~~~Vp~~~~~sk~eLG~a~G~~~~~~~vaI~d~g~a~---~~~~~l~~~~~~l  117 (119)
T 1rlg_A           49 IAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAIINEGELR---KELGSLVEKIKGL  117 (119)
T ss_dssp             EESCCSCSTTTTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECGGGH---HHHHHHHHHHHTT
T ss_pred             EeCCCChHHHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCCCeEEEEEecCchHH---HHHHHHHHHHHHh
Confidence            58999998789999999999999999999999999999999888999999998 44   4455566666554

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

Probab=99.70  E-value=7.2e-18  Score=105.57  Aligned_cols=52  Identities=29%  Similarity=0.545  Sum_probs=48.7

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE   53 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~   53 (73)
                      ||+|++|++++.+++.+|+++||||++++||.+||++||+++ +++++|+|.+
T Consensus        47 IA~D~~p~~i~~~l~~lC~~~~VP~~~v~sk~~LG~a~G~k~-~a~vai~d~~   98 (113)
T 3jyw_G           47 IANDVDPIELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKT-SAVAALTEVR   98 (113)
T ss_dssp             ECSCCSSHHHHTTHHHHHHHTTCCCEECSCSTTTHHHHCSSS-CCSEEEECSC
T ss_pred             EeCCCCHHHHHHHHHHHHHHcCCCEEEECCHHHHHHHHCCCC-cEEEEEEeCC
Confidence            699999988999999999999999999999999999999996 6679999976

>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=99.69  E-value=2e-17  Score=97.87  Aligned_cols=49  Identities=31%  Similarity=0.565  Sum_probs=46.8

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEE
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVT   50 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~   50 (73)
                      ||+|++|+ ++++++.+|++++|||++++||.+||+|||+++++++++|+
T Consensus        33 iA~D~~~~-~~~~i~~lc~~~~Ip~~~v~sk~eLG~a~Gk~~~~~~~ai~   81 (82)
T 3v7e_A           33 VAKDADPI-LTSSVVSLAEDQGISVSMVESMKKLGKACGIEVGAAAVAII   81 (82)
T ss_dssp             EETTSCHH-HHHHHHHHHHHHTCCEEEESCHHHHHHHHTCSSCCSEEEEE
T ss_pred             EeCCCCHH-HHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCCCEEEEEEe
Confidence            68999996 99999999999999999999999999999999999998885

>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=99.69  E-value=1.3e-17  Score=101.53  Aligned_cols=60  Identities=23%  Similarity=0.251  Sum_probs=55.1

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQ   62 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~   62 (73)
                      +|+|++|+ +.++++.+|++++|||++++|+.+||+|||++ .+++++|+|.| +..+.++++
T Consensus        40 iA~D~~~~-~~~~i~~~c~~~~ip~~~~~s~~eLG~a~Gk~-~~~~vai~d~g~a~~i~~~~~  100 (101)
T 3on1_A           40 LSSDAGIH-TKKKLLDKCGSYQIPVKVVGNRQMLGRAIGKH-ERVVIGVKDAGFSRKLAALID  100 (101)
T ss_dssp             EETTSCHH-HHHHHHHHHHHHTCCEEEESCHHHHHHHTTSS-CCSEEEECCHHHHHHHHHHHH
T ss_pred             EeCCCCHH-HHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCc-CeEEEEEECccHHHHHHHHhc
Confidence            58999999 99999999999999999999999999999998 55689999999 888888765

>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=99.68  E-value=1.1e-16  Score=111.51  Aligned_cols=66  Identities=30%  Similarity=0.590  Sum_probs=53.9

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAI   68 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~   68 (73)
                      ||+|++|++++.|+|++|+++||||++++|+++||++||+++ ++++++++.+ ++.+..++.+.+.|
T Consensus       146 IA~DvdPielv~~LPaLCee~~VPY~~V~sK~~LG~avGrKt-~s~Vaitdv~-~EDk~al~kLve~i  211 (255)
T 4a17_F          146 IAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKT-ATAVALTEVR-NEDKAKLQQFSELF  211 (255)
T ss_dssp             EESCCSSTHHHHHHHHHHHHTTCCEEEESCHHHHHHHHTSSC-CSEEEECCCC-HHHHHHHHHHHHHH
T ss_pred             EeCCCChHHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCCCc-ceEEEeeccC-HHHHHHHHHHHHHH
Confidence            699999999999999999999999999999999999999986 4578898887 23333344444443

>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=99.67  E-value=3.7e-17  Score=99.71  Aligned_cols=59  Identities=25%  Similarity=0.314  Sum_probs=53.3

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQI   61 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~   61 (73)
                      +|+|++|+ +.++++.+|++++|||++++|+++||+|||++. +++++|+|.| +..+.+++
T Consensus        41 iA~D~~~~-~~~~i~~~c~~~~vp~~~~~s~~eLG~A~Gk~~-~~~~ai~D~g~a~~i~~~~  100 (101)
T 3v7q_A           41 LTEDASSN-TAKKVTDKCNYYKVPYKKVESRAVLGRSIGKEA-RVVVAVTDQGFANKLISLL  100 (101)
T ss_dssp             EETTSCHH-HHHHHHHHHHHTTCCEEEESCHHHHHHHTTSSC-CSEEEECCHHHHHHHHHHC
T ss_pred             Eecccccc-chhhhcccccccCCCeeeechHHHHHhhhCccc-eEEEEEeccHHHHHHHHhc
Confidence            58999999 999999999999999999999999999999983 4579999999 77777664

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

Probab=99.64  E-value=3.9e-16  Score=96.38  Aligned_cols=60  Identities=20%  Similarity=0.307  Sum_probs=53.3

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEe-CChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFV-PSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQ   62 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v-~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~   62 (73)
                      +|+|+++ +++.+++.+|++++|||+.+ +|+.+||+|||+++++++++|+|.| +. +.++++
T Consensus        43 iA~D~~~-~~~~~l~~~c~~~~Vp~~~~~~sk~eLG~a~G~~~~~s~vaI~d~g~a~-i~~~~~  104 (110)
T 3cpq_A           43 LAGNIPK-DLEEDVKYYAKLSNIPVYQHKITSLELGAVCGKPFPVAALLVLDEGLSN-IMELVE  104 (110)
T ss_dssp             ECTTCBH-HHHHHHHHHHHHTTCCEEECCSCHHHHHHHTTCSSCCSEEEEEECTTCC-HHHHHH
T ss_pred             EeCCCCH-HHHHHHHHHHHHcCCCEEEEcCCHHHHHHHhCCccceEEEEEecCCHHH-HHHHhh
Confidence            6999955 59999999999999998887 9999999999999777789999999 55 888765

>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=99.62  E-value=9.8e-17  Score=98.50  Aligned_cols=56  Identities=25%  Similarity=0.184  Sum_probs=51.7

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEE-EeCChhhHhhHhCCCCceEEEEEEeCC-chHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYV-FVPSKQALGRACGVTRPVVACSVTSNE-ASQL   57 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~-~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~   57 (73)
                      +|+|++|+ ++++++.+|++++|||+ +++|+.+||+|||+++++++++|+|.| +..+
T Consensus        44 lA~D~~~~-~~~~i~~~c~~~~ip~~~~~~s~~eLG~A~Gk~~~~~~vaI~D~G~a~~l  101 (105)
T 3u5e_c           44 IAANTPVL-RKSELEYYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSILEAGDSDIL  101 (105)
T ss_dssp             ECTTSCHH-HHHHHHHHHHHHTCEEEECSSCHHHHHHHTTCSSCCSEEEEEECCSCCTT
T ss_pred             EeCCCCHH-HHHHHHHHHHHcCCCEEEeCCCHHHHHHHhCCcccEEEEEEeccchHHHH
Confidence            58999998 99999999999999999 799999999999999888889999999 5544

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

Probab=99.62  E-value=4.1e-16  Score=94.60  Aligned_cols=56  Identities=16%  Similarity=0.137  Sum_probs=49.5

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEe-CChhhHhhHhCCCCceEEEEEEeCC-chHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFV-PSKQALGRACGVTRPVVACSVTSNE-ASQL   57 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v-~sk~~LG~a~G~~r~~~~vai~~~~-~~~~   57 (73)
                      +|+|++++ ++++++.+|++++|||+.+ +|+.+||+|||+++++++++|+|.| ++.+
T Consensus        37 iA~D~~~~-~~~~i~~~c~~~~ip~~~~~~s~~eLG~a~Gk~~~~~~vaI~d~g~a~~l   94 (99)
T 3j21_Z           37 VAKNAPKE-IKDDIYYYAKLSDIPVYEFEGTSVELGTLLGKPFVVASLAIVDPGESKIL   94 (99)
T ss_dssp             EECCCCHH-HHHHHHHHHHHTTCCEEEECCCSCGGGGTTCSTTCSEEEEESSCSSCSHH
T ss_pred             EeCCCCHH-HHHHHHHHHHHcCCCEEEeCCCHHHHHHHHCCCCCEEEEEEEccchHHHH
Confidence            58997776 9999999999999997555 9999999999999888899999999 5443

>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=99.62  E-value=2.5e-16  Score=96.42  Aligned_cols=55  Identities=16%  Similarity=0.245  Sum_probs=51.1

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEE-EeCChhhHhhHhCCCCceEEEEEEeCC-chH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYV-FVPSKQALGRACGVTRPVVACSVTSNE-ASQ   56 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~-~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~   56 (73)
                      +|+|++|+ +..+++.+|++++|||+ |++|+.+||+|||+++++++++|+|.| +..
T Consensus        44 iA~D~~~~-~~~~i~~~c~~~~ip~~~~~~s~~eLG~a~Gk~~~~~~vaI~D~G~a~~  100 (104)
T 4a18_G           44 ISNNCPTV-RKSEIEYYASLAQISIHHFVGSNVELGTACGKYHRCSTMAILDAGDSDI  100 (104)
T ss_dssp             ECTTSCHH-HHHHHHHHHHHHTCEEEECSSCHHHHHHHTTCSSCCSEEEEEECSSCGG
T ss_pred             EeCCCCHH-HHHHHHHHHHHcCCcEEEecCCHHHHHHHhCCccCEEEEEEeccchHHH
Confidence            69999999 99999999999999999 699999999999999888899999999 543

>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=99.62  E-value=1.6e-16  Score=96.59  Aligned_cols=59  Identities=19%  Similarity=0.173  Sum_probs=51.2

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEe-CChhhHhhHhCCCCceEEEEEEeCC-chHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFV-PSKQALGRACGVTRPVVACSVTSNE-ASQLKTQI   61 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v-~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~   61 (73)
                      +|+|++++ ++.+++.+|++++|||+.+ +|+.+||+|||+++++++++|+|.| ++ +.+++
T Consensus        38 iA~D~~~~-~~~~l~~~c~~~~vp~~~~~~s~~eLG~a~G~~~~~~~vai~d~g~a~-i~~~~   98 (101)
T 1w41_A           38 VARNARPD-IKEDIEYYARLSGIPVYEFEGTSVELGTLLGRPHTVSALAVVDPGASR-ILALG   98 (101)
T ss_dssp             EETTSCHH-HHHHHHHHHHHHTCCEEEESSCHHHHHHHTTCSSCCCEEEEEECTTCC-GGGGG
T ss_pred             EeCCCCHH-HHHHHHHHHHhcCCCEEEecCCHHHHHHHhCCCCcEEEEEEecCCHHH-HHHHh
Confidence            58996665 9999999999999998875 9999999999999777789999999 55 66554

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

Probab=99.59  E-value=1.2e-15  Score=96.68  Aligned_cols=53  Identities=19%  Similarity=0.322  Sum_probs=48.2

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCC-----------CCceEEEEEEeCC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGV-----------TRPVVACSVTSNE   53 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~-----------~r~~~~vai~~~~   53 (73)
                      ||+|++|.+++.+++.+|++++|||++++|+.+||++||+           ..++++++|+|.|
T Consensus        46 iA~D~~p~~~~~~i~~lc~~~~Ip~~~v~sk~~LG~a~G~~k~d~~g~~rk~v~~s~vaI~d~g  109 (126)
T 2xzm_U           46 VAEDCDQGNYVKLVKALCAKNEIKYVSVPKRASLGEYLGHFTANAKGEIKKVKGCSSLAIRKYA  109 (126)
T ss_dssp             EESSCCSTTHHHHHHHHHHHTTCCEEEESCSHHHHHHHTCCCBCTTCCBSCCCCCCEEEESSCC
T ss_pred             EeCCCChHHHHHHHHHHHHHhCCCEEEECCHHHHHHHHCCCccccccCcCceeeEEEEEEEecC
Confidence            6899998669999999999999999999999999999997           3347889999988

>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=99.59  E-value=1.5e-15  Score=98.42  Aligned_cols=65  Identities=18%  Similarity=0.232  Sum_probs=57.3

Q ss_pred             CCCCCCchhHHHhHHHHHh--hCCCCEEEeCChhhHhhHhCCC--------C---ceEEEEEEeCC-chHHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAE--DKNVPYVFVPSKQALGRACGVT--------R---PVVACSVTSNE-ASQLKTQIQQLK   65 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~--~~~IP~~~v~sk~~LG~a~G~~--------r---~~~~vai~~~~-~~~~~~~~~~~~   65 (73)
                      ||.|++|.+++++++.+|+  +++|||++++|+.+||+|||+.        |   ++++++|+|.| +++..+.+.++.
T Consensus        62 LA~D~~~~~i~k~i~~lC~~~e~~IP~i~V~s~keLG~a~Gl~k~d~~Gk~rkVv~~s~v~I~d~G~~~~~~~~l~~~~  140 (143)
T 3u5c_M           62 LVSSVTEANIIKLVEGLANDPENKVPLIKVADAKQLGEWAGLGKIDREGNARKVVGASVVVVKNWGAETDELSMIMEHF  140 (143)
T ss_dssp             CCSCCSTTHHHHHHHHHHHCSSSCCCCCCCSCHHHHHHHSSCCCCSSSSCCSCCCCCSCEEESCCCCCSHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHhhhhhCCCEEEECCHHHHhHHhCcCccccCCCccccceeEEEEEcccchhhHHHHHHHHHH
Confidence            6999997779999999999  9999999999999999999963        2   46789999999 888888877654

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

Probab=99.55  E-value=2.1e-15  Score=105.72  Aligned_cols=63  Identities=24%  Similarity=0.489  Sum_probs=53.1

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCc---hHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEA---SQLKTQIQQL   64 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~---~~~~~~~~~~   64 (73)
                      ||+|++|++++.+++.+|+++||||++++|+.+||++||+++ +++++|+|.|.   ..+..+++.+
T Consensus       157 IA~DasP~ei~~~Lp~LC~~~~VPyi~v~sk~eLG~A~Gkk~-~s~VAItD~G~eD~~al~klve~i  222 (266)
T 2zkr_f          157 IAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGHLVHRKT-CTTVAFTQVNSEDKGALAKLVEAI  222 (266)
T ss_dssp             EESCCSSSTTTTHHHHHHHHHTCCEEEESCHHHHHHHHTSSC-CSEEEETTCSSTTTTHHHHHHHHH
T ss_pred             EecCCCHHHHHHHHHHHHHhcCCCEEEECCHHHHHHHhCCCC-ceEEEEeecCcchHHHHHHHHHHH
Confidence            699999998999999999999999999999999999999994 66799988862   3444444443

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

Probab=99.45  E-value=4.8e-14  Score=89.14  Aligned_cols=65  Identities=15%  Similarity=0.198  Sum_probs=50.2

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEE-EeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYV-FVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQQLKD   66 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~-~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~~~~~   66 (73)
                      ||+|++|+ +..+++.+|..+++|+. +++|+.+||+|||+++++++++|+|.| +..+.+++++..+
T Consensus        49 iA~Das~~-~~~ki~~~~~~~~~~V~~~~~sk~eLG~A~Gk~~~v~~vaI~D~G~a~~l~~~~~~~~~  115 (125)
T 3vi6_A           49 LANNCPAL-RKSEIEYYAMLAKTGVHHYSGNNIELGTACGKYYRVCTLAIIDPGDSDIIRSMPEQTGE  115 (125)
T ss_dssp             ECTTSCHH-HHHHHHHHHHHTTCEEEECSSCHHHHHHHTTCSSCCCEEEEEECTTCCCC---------
T ss_pred             EeCCCCHH-HHHHHHHHHHHhCCCcEEEcCCHHHHHHHhCCcccEEEEEEeCchhHHHHHHHHHhhcc
Confidence            69999998 99999999887777653 699999999999999888889999999 8888888776543

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

Probab=99.42  E-value=2.8e-13  Score=89.48  Aligned_cols=55  Identities=15%  Similarity=0.208  Sum_probs=46.5

Q ss_pred             CCCCCC-chhHHHhHH-----HHHhhCCCCEEEeCChhhHhhHhCC--------------CCceEEEEEEeCC-ch
Q 035100            1 MAADTE-PLEILLHLP-----LLAEDKNVPYVFVPSKQALGRACGV--------------TRPVVACSVTSNE-AS   55 (73)
Q Consensus         1 iA~D~~-p~~~~~~l~-----~lc~~~~IP~~~v~sk~~LG~a~G~--------------~r~~~~vai~~~~-~~   55 (73)
                      ||.|++ |.++..|++     .+|++++|||++|+|+.+||++||+              .|++++++|++.| ++
T Consensus        59 LA~D~d~~~~i~~hi~~~li~alC~E~~Ip~i~V~s~k~LG~a~Gi~~~~~~~~~d~~g~~r~~scv~V~~~g~~s  134 (165)
T 2kg4_A           59 LAADEDDDRDVALQIHFTLIQAFCCENDINILRVSNPGRLAELLLLETDAGPAASEGAEQPPDLHCVLVTNPHSSQ  134 (165)
T ss_dssp             EECCTGGGGCHHHHHHHHHHHHHHHHTTCCEEEESCHHHHHHHHHHTTTCSSCCCCSSCCCSCSCEEEEECCSSCC
T ss_pred             EeCCCCccchhhhhccHHHHHHHHHHcCCCEEEECCHHHHHHHHCCcccccccccccCCCcccceEEEEecccccc
Confidence            589997 665555555     9999999999999999999999997              3778899999998 53

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

Probab=98.51  E-value=2.4e-07  Score=60.06  Aligned_cols=52  Identities=17%  Similarity=0.232  Sum_probs=42.3

Q ss_pred             CCCCCC-------chhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCC------CCceEEEEEEeCC
Q 035100            1 MAADTE-------PLEILLHLPLLAEDKNVPYVFVPSKQALGRACGV------TRPVVACSVTSNE   53 (73)
Q Consensus         1 iA~D~~-------p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~------~r~~~~vai~~~~   53 (73)
                      +|.|.+       |. .++-+.++|.+++||++.|.+..+||+++|+      .|..++++|++.|
T Consensus        49 LA~dcd~e~D~a~~~-y~kLveAlC~E~~I~lIkVdd~kkLgew~Gk~d~~g~pr~~sCvvV~d~g  113 (146)
T 3cg6_A           49 LAADEEDEGDIALQI-HFTLIQAFCCENDIDIVRVGDVQRLAAIVGSDEEGGAPGDLHCILISNPN  113 (146)
T ss_dssp             EECCTGGGGCHHHHH-HHHHHHHHHHHTTCEEEEECCHHHHHHHC----------CCSEEEEECCC
T ss_pred             ecCCCccccchhHHH-HHHHHHHHHhhcCCCeEEeCchhHHHHHhCCcCCCCCCCCCEEEEEecCC
Confidence            467876       35 8888999999999999999999999999994      3557789999887

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

Probab=98.17  E-value=4.2e-06  Score=55.19  Aligned_cols=44  Identities=11%  Similarity=0.134  Sum_probs=38.9

Q ss_pred             HHHhHHHHHhhCCCCEEEeCChhhHhhHhCCC------CceEEEEEEeCC
Q 035100           10 ILLHLPLLAEDKNVPYVFVPSKQALGRACGVT------RPVVACSVTSNE   53 (73)
Q Consensus        10 ~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~------r~~~~vai~~~~   53 (73)
                      .++-+.++|.+++||++.|.+..+||+++|..      +..++++|++.+
T Consensus        85 y~kLVeAlC~E~~I~LIkV~d~kkLgew~G~~~~~~k~~~csCVlVtd~g  134 (167)
T 3ffm_A           85 HFTLIQAFCCENDIDIVRVGDVQRLAAIVGAGEEAGAPGDLHCILISNPN  134 (167)
T ss_dssp             HHHHHHHHHHHTTCEEEEESCHHHHHHHHTTSCCSSSCSCCSEEEEECSS
T ss_pred             HHHHHHHHHhhcCCCeEEeCCcchHHHHhCcCCCCCCCCccEEEEECCCC
Confidence            47788999999999999999999999999952      357889999987

---

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	73
d2alea1	126	d.79.3.1 (A:1-126) Small nuclear ribonucleoprotein	5e-22
d2ozba1	125	d.79.3.1 (A:4-128) Spliceosomal 15.5kd protein {Hu	3e-20
d2aifa1	115	d.79.3.1 (A:16-130) Ribosomal protein L7ae {Crypto	2e-18
d1rlga_	113	d.79.3.1 (A:) Ribosomal protein L7ae {Archaeon Arc	1e-16
d2fc3a1	124	d.79.3.1 (A:4-127) Ribosomal protein L7ae {Aeropyr	2e-15
d1vqof1	119	d.79.3.1 (F:1-119) Ribosomal protein L7ae {Archaeo	6e-15
d1xbia1	115	d.79.3.1 (A:2-116) Ribosomal protein L7ae {Archaeo	3e-13
d1t0kb_	97	d.79.3.1 (B:) Eukaryotic ribosomal protein L30 (L3	1e-10
d1w3ex1	98	d.79.3.1 (X:1-98) Eukaryotic ribosomal protein L30	3e-10
d2bo1a1	100	d.79.3.1 (A:1-100) Eukaryotic ribosomal protein L3	3e-08

>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 = 79.9 bits (197), Expect = 5e-22
 Identities = 55/73 (75%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EP+EILLHLPLL EDKNVPYVFVPS+ ALGRACGV+RPV+A S+T+N+AS +KTQ
Sbjct: 54  MAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKTQ 113

Query: 61  IQQLKDAIEKLLI 73
           I  +KD IE LLI
Sbjct: 114 IYAVKDKIETLLI 126

>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 = 75.3 bits (185), Expect = 3e-20
 Identities = 56/73 (76%), Positives = 64/73 (87%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           MAAD EPLEI+LHLPLL EDKNVPYVFV SKQALGRACGV+RPV+ACSVT  E SQLK Q
Sbjct: 53  MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQ 112

Query: 61  IQQLKDAIEKLLI 73
           IQ ++ +IE+LL+
Sbjct: 113 IQSIQQSIERLLV 125

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

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

 Score = 70.3 bits (172), Expect = 2e-18
 Identities = 48/70 (68%), Positives = 58/70 (82%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +AAD EPLEILLHLPL+ EDKN PYVFV SK ALGRACGV+RPV+A ++TS + S L +Q
Sbjct: 46  LAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSKDGSSLSSQ 105

Query: 61  IQQLKDAIEK 70
           I +LKD IE+
Sbjct: 106 ITELKDQIEQ 115

>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 = 66.0 bits (161), Expect = 1e-16
 Identities = 29/71 (40%), Positives = 45/71 (63%), Gaps = 2/71 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +A D +P EI+ HLPLL E+KNVPY++V SK  LGRA G+  P  + ++      +L+ +
Sbjct: 43  IAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAII--NEGELRKE 100

Query: 61  IQQLKDAIEKL 71
           +  L + I+ L
Sbjct: 101 LGSLVEKIKGL 111

>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 = 63.3 bits (154), Expect = 2e-15
 Identities = 25/71 (35%), Positives = 47/71 (66%), Gaps = 2/71 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +A D +P EI++HLPLL ++K +PYV+VPSK+ LG A G+     + ++   E    +T 
Sbjct: 50  IAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAII--EPGDAETL 107

Query: 61  IQQLKDAIEKL 71
           ++++ + +++L
Sbjct: 108 VREIVEKVKEL 118

>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 = 61.8 bits (150), Expect = 6e-15
 Identities = 25/71 (35%), Positives = 44/71 (61%), Gaps = 2/71 (2%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +A D +P EI++H+P LA++K VP++FV  +  LG A G+     A +VT  +A +    
Sbjct: 50  VAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVT--DAGEADAD 107

Query: 61  IQQLKDAIEKL 71
           ++ + D +E+L
Sbjct: 108 VEDIADKVEEL 118

>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 = 57.6 bits (139), Expect = 3e-13
 Identities = 22/71 (30%), Positives = 42/71 (59%), Gaps = 3/71 (4%)

Query: 1   MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
           +A D +P E++ HLP L E+K +PY +V SKQ LG+A G+     + ++ +   ++   +
Sbjct: 47  IAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGDAE---E 103

Query: 61  IQQLKDAIEKL 71
           ++ L + +  L
Sbjct: 104 LKVLIEKVNVL 114

>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 = 50.2 bits (120), Expect = 1e-10
 Identities = 15/61 (24%), Positives = 20/61 (32%)

Query: 1  MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ 60
          +AA+T  L            K   Y F      LG A G    V   S+     S + T 
Sbjct: 36 IAANTPVLRKSELEYYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSILEAGDSDILTT 95

Query: 61 I 61
          +
Sbjct: 96 L 96

>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 = 49.4 bits (118), Expect = 3e-10
 Identities = 13/60 (21%), Positives = 22/60 (36%), Gaps = 2/60 (3%)

Query: 1  MAADTEPLEILLHLPLLAEDKNVP-YVFVPSKQALGRACGVTRPVVACSVTSNEASQLKT 59
          +A +  P +I   +   A    +  Y F  +   LG   G    V A +V     S++  
Sbjct: 37 VARNARP-DIKEDIEYYARLSGIAVYEFEGTSVELGTLLGRPHTVSALAVVDPGESRILA 95

>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 = 44.4 bits (105), Expect = 3e-08
 Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 2/60 (3%)

Query: 1  MAADTEPLEILLHLPLLAEDKNVP-YVFVPSKQALGRACGVTRPVVACSVTSNEASQLKT 59
          +A +T P +    L   A     P Y F  +   LG A G    V   S+     S++  
Sbjct: 37 IARNTRP-DRKEDLEYYARLSGTPVYEFEGTNVELGTAVGKPHTVSVVSILDAGESRILA 95

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	73
d2alea1	126	Small nuclear ribonucleoprotein-associated protein	99.83
d2ozba1	125	Spliceosomal 15.5kd protein {Human (Homo sapiens)	99.8
d1xbia1	115	Ribosomal protein L7ae {Archaeon Methanococcus jan	99.79
d2aifa1	115	Ribosomal protein L7ae {Cryptosporidium parvum [Ta	99.78
d2fc3a1	124	Ribosomal protein L7ae {Aeropyrum pernix [TaxId: 5	99.76
d1vqof1	119	Ribosomal protein L7ae {Archaeon Haloarcula marism	99.75
d1rlga_	113	Ribosomal protein L7ae {Archaeon Archaeoglobus ful	99.75
d1w3ex1	98	Eukaryotic ribosomal protein L30 (L30e) {Archaeon	99.6
d1t0kb_	97	Eukaryotic ribosomal protein L30 (L30e) {Baker's y	99.55
d2bo1a1	100	Eukaryotic ribosomal protein L30 (L30e) {Archaeon	99.55
d1gz0a2	76	RlmB, N-terminal domain {Escherichia coli [TaxId:	91.2
d1i5za1	69	Catabolite gene activator protein (CAP), C-termina	82.73

>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=99.83  E-value=2.9e-21  Score=121.16  Aligned_cols=73  Identities=75%  Similarity=1.164  Sum_probs=67.7

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHHhhcC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLLI   73 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~~~   73 (73)
                      ||+|++|.+++.|++.+|++++|||++++||++||+|||+++++++++|.+.+++++.+++++++++++.|.|
T Consensus        54 iA~D~~p~~~~~~l~~lc~~~~Ip~~~v~sk~~LG~a~G~~~~~~~~~i~~~~~~~~~~~~~~i~~~i~~L~~  126 (126)
T d2alea1          54 MAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACGVSRPVIAASITTNDASAIKTQIYAVKDKIETLLI  126 (126)
T ss_dssp             EETTCSSGGGGTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEECCTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EeCCCChHHHHHHHHHHHhccCCCEEEECchhHHHHHhCCCCCeEEEEEeccchHHHHHHHHHHHHHHHhhcC
Confidence            6899999999999999999999999999999999999999998887777777688999999999999999864

>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=99.80  E-value=3.9e-20  Score=115.67  Aligned_cols=73  Identities=77%  Similarity=1.193  Sum_probs=66.9

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHHhhcC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKLLI   73 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~~~   73 (73)
                      ||.|++|.++..|++.+|++++|||++++||++||++||++++++++++...++++++++++++.+.|+.|.+
T Consensus        53 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~~~~~~~~i~~~~~~~~~~~~~el~~~i~~L~~  125 (125)
T d2ozba1          53 MAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVSRPVIACSVTIKEGSQLKQQIQSIQQSIERLLV  125 (125)
T ss_dssp             EETTCSSGGGSTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEECCTTCTTHHHHHHHHHHHHTTCC
T ss_pred             EeCCCChHHHHHHHHHHHhcCCceEEEECCchHHHHHhCCCCCeEEEEEEecCcHHHHHHHHHHHHHHHhhcC
Confidence            6899999999999999999999999999999999999999998877777766667899999999999999863

>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=99.79  E-value=1e-19  Score=112.01  Aligned_cols=66  Identities=36%  Similarity=0.680  Sum_probs=58.4

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQQLKD   66 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~~~~~   66 (73)
                      ||+|++|.++..+++.+|+++||||++++||++||++||+++++++++|++.| +..+.++++++++
T Consensus        47 lA~D~~p~~~~~~l~~lc~~~~Vp~~~v~sk~~LG~a~g~~~~~s~vai~~~g~~~~~~~l~e~i~~  113 (115)
T d1xbia1          47 IAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAGLEVAASSVAIINEGDAEELKVLIEKVNV  113 (115)
T ss_dssp             EESCCSSGGGTTTHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECSCHHHHHHHHHHHHH
T ss_pred             EeCCCCcHHHHHHHHHHHHhcCCCEEEECcHhHHHHHhCCCcceEEEEEEchhhHHHHHHHHHHHHh
Confidence            68999998899999999999999999999999999999999999999999998 6666666555543

>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=99.78  E-value=6.9e-20  Score=112.71  Aligned_cols=69  Identities=70%  Similarity=1.103  Sum_probs=64.1

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIE   69 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~   69 (73)
                      ||+|++|.+++.|++.+|++++|||++++|+.+||+|||+++++++++|.+.+++++.++++++++.++
T Consensus        46 iA~D~~p~~~~~~i~~~c~~~~ip~~~~~sk~~LG~a~G~~~~~~~~~i~~~~~~~~~~~~~el~~~~k  114 (115)
T d2aifa1          46 LAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALGRACGVSRPVIAAAITSKDGSSLSSQITELKDQIE  114 (115)
T ss_dssp             EETTCSCHHHHHHHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEECCTTCTTHHHHHHHHHTTC
T ss_pred             EeCCCCchhHHHHHHHHHhcCCCCEEEeCchHHHHHHhCCCCCeEEEEEecCchHHHHHHHHHHHHHhc
Confidence            689999998999999999999999999999999999999999998888888888889999999988765

>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=99.76  E-value=7.8e-19  Score=109.28  Aligned_cols=53  Identities=42%  Similarity=0.847  Sum_probs=50.9

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE   53 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~   53 (73)
                      ||+|++|.++..+++.+|++++|||+++.|+.+||++||+++++++++|++.+
T Consensus        50 lA~D~~p~~~~~~l~~~c~~~~Vp~~~~~sk~~LG~a~G~~~~~s~v~i~~~g  102 (124)
T d2fc3a1          50 IAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAIIEPG  102 (124)
T ss_dssp             EETTCSSGGGTTTHHHHHHHTTCCEEEESCHHHHHHHTTCSSCCSEEEEEECG
T ss_pred             EeCCCChHHHHHHHHHHHHcCCCcEEEeCCHHHHHHHHCCCCCEEEEEEEecc
Confidence            68999997799999999999999999999999999999999888899999998

>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=99.75  E-value=6.1e-19  Score=109.12  Aligned_cols=67  Identities=36%  Similarity=0.667  Sum_probs=57.2

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCC-chHHHHHHHHHHHHHHh
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNE-ASQLKTQIQQLKDAIEK   70 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~-~~~~~~~~~~~~~~~~~   70 (73)
                      ||+|++|.++..+++.+|++++|||++++||++||++||+++++++++|.|.| ++.+   ++++.++++.
T Consensus        50 lA~D~~p~~~~~~l~~lc~~~~Vp~~~~~tk~~LG~a~G~~~~~s~v~I~d~g~a~~~---~~~i~~~~~e  117 (119)
T d1vqof1          50 VAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAGLEVGSAAAAVTDAGEADAD---VEDIADKVEE  117 (119)
T ss_dssp             EESCCSSGGGTTTHHHHHHTTTCCEEEESCHHHHHHHTTCSSCCSEEEESSCSSCHHH---HHHHHHHHHH
T ss_pred             EECCCChHHHHHHHHHHHhcCCCCEEEECCHHHHHHHhCCCCCeEEEEEEeccchHHH---HHHHHHHHHh
Confidence            68999997799999999999999999999999999999999889999999998 5433   3444444443

>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=99.75  E-value=7.2e-19  Score=107.61  Aligned_cols=69  Identities=42%  Similarity=0.796  Sum_probs=58.4

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHHHHHHHHHHHhh
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQIQQLKDAIEKL   71 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~~~~~~~~~~~~   71 (73)
                      ||.|++|.++..+++.+|++++|||++++|+++||++||+++++++++|++.|  +.++.++.+.++++.|
T Consensus        43 iA~D~~p~~~~~~i~~lc~~~~vp~~~~~sk~~LG~a~G~~~~~s~~~i~~~g--~~~~~~~~l~e~i~~l  111 (113)
T d1rlga_          43 IAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVGIEVPCASAAIINEG--ELRKELGSLVEKIKGL  111 (113)
T ss_dssp             EESCCSCSTTTTHHHHHHHHHTCCEEEESCHHHHHHHTTCSSCCSEEEEEECG--GGHHHHHHHHHHHHTT
T ss_pred             EeCCCCcHHHHHHHHHHHHhcCCCEEEeCCHHHHHHHhCCCCCEEEEEEEecc--chHHHHHHHHHHHHhc
Confidence            68999998899999999999999999999999999999999889999999998  3334455555555443

>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=99.60  E-value=1.7e-16  Score=95.21  Aligned_cols=58  Identities=19%  Similarity=0.174  Sum_probs=51.5

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEEE-eCChhhHhhHhCCCCceEEEEEEeCCchHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYVF-VPSKQALGRACGVTRPVVACSVTSNEASQLKT   59 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~~-v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~   59 (73)
                      ||.|++|+ ++++++.+|++++||++. ..|+.+||++||+++++++++|+|.|.+++.+
T Consensus        37 lA~D~~~~-~~~~i~~~c~~~~Ip~~~~~~t~~eLG~a~Gk~~~vs~vaI~d~G~s~i~~   95 (98)
T d1w3ex1          37 VARNARPD-IKEDIEYYARLSGIAVYEFEGTSVELGTLLGRPHTVSALAVVDPGESRILA   95 (98)
T ss_dssp             EETTSCHH-HHHHHHHHHHHHTCEEEEESSCHHHHHHHTTCSSCCCEEEEEECTTCCGGG
T ss_pred             EECCCCHH-HHHHHHHHHHhcCCCeEEECCCHHHHHHHhCCCCCEEEEEEeccCHHHHHH
Confidence            58999887 999999999999999975 58999999999999889999999999555543

>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=99.55  E-value=7.6e-16  Score=91.90  Aligned_cols=55  Identities=25%  Similarity=0.182  Sum_probs=49.4

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCEE-EeCChhhHhhHhCCCCceEEEEEEeCCchH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPYV-FVPSKQALGRACGVTRPVVACSVTSNEASQ   56 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~~-~v~sk~~LG~a~G~~r~~~~vai~~~~~~~   56 (73)
                      +|.|++|+ +.++++.+|++++||++ +..|+.+||++||+++++++++|+|.|.++
T Consensus        36 lA~D~~~~-~~~~i~~~~~~~~vp~~~~~~t~~eLG~a~Gk~~~vs~v~I~d~G~s~   91 (97)
T d1t0kb_          36 IAANTPVL-RKSELEYYAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSILEAGDSD   91 (97)
T ss_dssp             ECTTCCHH-HHHHHHHHHHHHTCEEEECSSCHHHHHHHTTCSSCCSEEEECCCSSCC
T ss_pred             EeCCCCHH-HHHHHHHHHHhcCCceEEEcCCHHHHHHHhCCCCCEEEEEEeccchHH
Confidence            58999888 99999999999999965 568999999999999888999999999433

>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=99.55  E-value=4.5e-16  Score=93.44  Aligned_cols=59  Identities=24%  Similarity=0.259  Sum_probs=51.5

Q ss_pred             CCCCCCchhHHHhHHHHHhhCCCCE-EEeCChhhHhhHhCCCCceEEEEEEeCCchHHHHH
Q 035100            1 MAADTEPLEILLHLPLLAEDKNVPY-VFVPSKQALGRACGVTRPVVACSVTSNEASQLKTQ   60 (73)
Q Consensus         1 iA~D~~p~~~~~~l~~lc~~~~IP~-~~v~sk~~LG~a~G~~r~~~~vai~~~~~~~~~~~   60 (73)
                      +|+|++|+ ++++++.+|++++||+ .+..|+.+||++||+++++++++|+|.|.+++.++
T Consensus        37 lA~D~~~~-~~~~i~~~c~~~~vp~~~~~~s~~eLG~a~Gk~~~vs~vaI~d~G~s~il~~   96 (100)
T d2bo1a1          37 IARNTRPD-RKEDLEYYARLSGTPVYEFEGTNVELGTAVGKPHTVSVVSILDAGESRILAL   96 (100)
T ss_dssp             EETTSCHH-HHHHHHHHHHHHTCCEEEESSCHHHHHHHTTCSSCCSEEEEEECTTCCGGGG
T ss_pred             EeCCCCHH-HHHHHHHHHHhcCCCeEEEcCcHHHHHHHhCCcCcEEEEEEecccHHHHHHh
Confidence            58999887 9999999999999985 55679999999999998899999999995555544

>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=91.20  E-value=0.11  Score=27.39  Aligned_cols=42  Identities=17%  Similarity=0.029  Sum_probs=30.5

Q ss_pred             HHHhHHHHHhhCCCCEEEeCChhhHhhHhCCCCceEEEEEEeC
Q 035100           10 ILLHLPLLAEDKNVPYVFVPSKQALGRACGVTRPVVACSVTSN   52 (73)
Q Consensus        10 ~~~~l~~lc~~~~IP~~~v~sk~~LG~a~G~~r~~~~vai~~~   52 (73)
                      ....+..++++++||+.++ ++.+|-+.++-...=.+++-...
T Consensus        34 ~~~~i~~~a~~~~i~i~~v-~~~~Ld~l~~~~~HQGVva~v~P   75 (76)
T d1gz0a2          34 RLLPLIHALESQGVVIQLA-NRQYLDEKSDGAVHQGIIARVKP   75 (76)
T ss_dssp             TTHHHHHHHHHHTCEEEEE-CSHHHHHTTTSCCCTTEEEEECC
T ss_pred             HHHHHHHHHHHcCCCEEEE-CHHHHHHhcCCCCCCeEEEEEeC
Confidence            4677899999999999998 57889999885432233544433

>d1i5za1 a.4.5.4 (A:138-206) Catabolite gene activator protein (CAP), C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: Catabolite gene activator protein (CAP), C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=82.73  E-value=0.34  Score=25.02  Aligned_cols=40  Identities=23%  Similarity=0.272  Sum_probs=30.8

Q ss_pred             CCCchhHHHhHHHHHhhCCCC-----EEEeCChhhHhhHhCCCCce
Q 035100            4 DTEPLEILLHLPLLAEDKNVP-----YVFVPSKQALGRACGVTRPV   44 (73)
Q Consensus         4 D~~p~~~~~~l~~lc~~~~IP-----~~~v~sk~~LG~a~G~~r~~   44 (73)
                      |+..+ +...+..+++.+|.|     +..-.|.++|+..+|..|.+
T Consensus         1 Dv~~R-la~~Ll~l~~~~g~~~~~~~i~l~lt~~~lA~~~G~sRet   45 (69)
T d1i5za1           1 DVTGR-IAQTLLNLAKQPDAMTHPDGMQIKITRQEIGQIVGCSRET   45 (69)
T ss_dssp             CHHHH-HHHHHHHGGGSTTCCCCSSSCEEECCHHHHHHHHTCCHHH
T ss_pred             CHHHH-HHHHHHHHHHHcCCCCCCCeeecCCCHHHHHHHHCCCHHH
Confidence            55666 788888898876544     45668999999999988744