Citrus Sinensis ID: 031785

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150---
Protein Sequence
MSMFNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHPLYANATANASSPQLETAA
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHccccEEccccccccccccEEEEEEEHHcccccccccccccccccccEEEEccEEEEcccEEEEccccccccccccccccccEEEEEEccEEEEEEEcccccEEEEEEEcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHccHHHHHcccccEcccccccccccEEEHHHHHHHcccccccccccccccHccEEEcccEEEccccEEEEccccEEccccccccccccEEEEEEccEEEEEEccccccEEEEEEEccccccccEEEcccccccccHHHHcc
Coil and Loop (DISEMBL)
MSMFNFANTLCKRLNVKELVSNVSVYgsvadgsagGLSLMFRRWAtkktagstkngrdskpknlgvkkfggervipgniivrqrgtrfhpgdyvgmgkdhtLYALKEGRVKFEKhklsgrkwvhvepkeghvlhplyanatanasspqletaa
Flexible Loop (DISEMBL)
MSMFNFANTLCKRLNVKELVSNVSVYGsvadgsagglSLMFRRWATKktagstkngrdskpknlgvkkfggervipgniivrqrgtrfhpgdyvgmgkDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHPLYAnatanasspqletaa
Low Complexity Region (SEG)
MSMFNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHPLYANATANASSPQLETAA
Disordered region (IsUnstruct)
***FNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWAT*******************VKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHPLYA***************
Disordered Region (DISOPRED)
*********LCKRLNVKELVSNVS*********AGGLSLMFRRW******************NLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHP******************
Disordered Region (DISEMBL)
MSMFNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWAT************SKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHPLYANATA***********
Disordered Region (DISPRO)
*SM*NFANTLCKRLNVKELVSNVSVYGSVAD*SAGGLSLMFRRWATKK*************KNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHPLYANA*************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSMFNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHPLYANATANASSPQLETAA
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	153	2.2.26 [Sep-21-2011]
Q83ED9	90	50S ribosomal protein L27	yes	no	0.562	0.955	0.639	4e-25
A9NBL4	90	50S ribosomal protein L27	yes	no	0.562	0.955	0.639	4e-25
B6J1S9	90	50S ribosomal protein L27	yes	no	0.562	0.955	0.639	4e-25
B6J9K3	90	50S ribosomal protein L27	yes	no	0.562	0.955	0.639	4e-25
A9KEJ8	90	50S ribosomal protein L27	yes	no	0.562	0.955	0.639	7e-25
A9IM57	89	50S ribosomal protein L27	yes	no	0.535	0.921	0.674	7e-25
Q2VZU3	89	50S ribosomal protein L27	yes	no	0.542	0.932	0.678	8e-25
Q87SU3	85	50S ribosomal protein L27	yes	no	0.555	1.0	0.635	2e-24
A7N0G1	85	50S ribosomal protein L27	yes	no	0.555	1.0	0.635	2e-24
C3LRG7	86	50S ribosomal protein L27	yes	no	0.562	1.0	0.627	2e-24

>sp|Q83ED9|RL27_COXBU 50S ribosomal protein L27 OS=Coxiella burnetii (strain RSA 493 / Nine Mile phase I) GN=rpmA PE=3 SV=1

 Score =  113 bits (283), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 55/86 (63%), Positives = 66/86 (76%)

Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GST+NGRDS PK LGVK+FGGERV+ GNIIVRQRGT + PG+ +GMG+DHTLY
Sbjct: 1   MAHKKAGGSTRNGRDSNPKMLGVKRFGGERVLAGNIIVRQRGTHYRPGENMGMGRDHTLY 60

Query: 104 ALKEGRVKFEKHKLSGRKWVHVEPKE 129
           AL EG+VKF +     R +V +EP E
Sbjct: 61  ALIEGKVKFTRKGPKKRNFVSIEPLE 86

Coxiella burnetii (strain RSA 493 / Nine Mile phase I) (taxid: 227377)

>sp|A9NBL4|RL27_COXBR 50S ribosomal protein L27 OS=Coxiella burnetii (strain RSA 331 / Henzerling II) GN=rpmA PE=3 SV=1

 Score =  113 bits (283), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 55/86 (63%), Positives = 66/86 (76%)

Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GST+NGRDS PK LGVK+FGGERV+ GNIIVRQRGT + PG+ +GMG+DHTLY
Sbjct: 1   MAHKKAGGSTRNGRDSNPKMLGVKRFGGERVLAGNIIVRQRGTHYRPGENMGMGRDHTLY 60

Query: 104 ALKEGRVKFEKHKLSGRKWVHVEPKE 129
           AL EG+VKF +     R +V +EP E
Sbjct: 61  ALIEGKVKFTRKGPKKRNFVSIEPLE 86

Coxiella burnetii (strain RSA 331 / Henzerling II) (taxid: 360115)

>sp|B6J1S9|RL27_COXB2 50S ribosomal protein L27 OS=Coxiella burnetii (strain CbuG_Q212) GN=rpmA PE=3 SV=1

 Score =  113 bits (283), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 55/86 (63%), Positives = 66/86 (76%)

Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GST+NGRDS PK LGVK+FGGERV+ GNIIVRQRGT + PG+ +GMG+DHTLY
Sbjct: 1   MAHKKAGGSTRNGRDSNPKMLGVKRFGGERVLAGNIIVRQRGTHYRPGENMGMGRDHTLY 60

Query: 104 ALKEGRVKFEKHKLSGRKWVHVEPKE 129
           AL EG+VKF +     R +V +EP E
Sbjct: 61  ALIEGKVKFTRKGPKKRNFVSIEPLE 86

Coxiella burnetii (strain CbuG_Q212) (taxid: 434923)

>sp|B6J9K3|RL27_COXB1 50S ribosomal protein L27 OS=Coxiella burnetii (strain CbuK_Q154) GN=rpmA PE=3 SV=1

 Score =  113 bits (283), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 55/86 (63%), Positives = 66/86 (76%)

Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GST+NGRDS PK LGVK+FGGERV+ GNIIVRQRGT + PG+ +GMG+DHTLY
Sbjct: 1   MAHKKAGGSTRNGRDSNPKMLGVKRFGGERVLAGNIIVRQRGTHYRPGENMGMGRDHTLY 60

Query: 104 ALKEGRVKFEKHKLSGRKWVHVEPKE 129
           AL EG+VKF +     R +V +EP E
Sbjct: 61  ALIEGKVKFTRKGPKKRNFVSIEPLE 86

Coxiella burnetii (strain CbuK_Q154) (taxid: 434924)

>sp|A9KEJ8|RL27_COXBN 50S ribosomal protein L27 OS=Coxiella burnetii (strain Dugway 5J108-111) GN=rpmA PE=3 SV=1

 Score =  112 bits (281), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 55/86 (63%), Positives = 66/86 (76%)

Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GST+NGRDS PK LGVK+FGGERV+ GNIIVRQRGT + PG+ +GMG+DHTLY
Sbjct: 1   MAHKKAGGSTRNGRDSNPKMLGVKRFGGERVLAGNIIVRQRGTHYRPGENMGMGRDHTLY 60

Query: 104 ALKEGRVKFEKHKLSGRKWVHVEPKE 129
           AL EG+VKF +     R +V +EP E
Sbjct: 61  ALIEGKVKFIRKGPKKRNFVSIEPLE 86

Coxiella burnetii (strain Dugway 5J108-111) (taxid: 434922)

>sp|A9IM57|RL27_BART1 50S ribosomal protein L27 OS=Bartonella tribocorum (strain CIP 105476 / IBS 506) GN=rpmA PE=3 SV=1

 Score =  112 bits (281), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 56/83 (67%), Positives = 66/83 (79%), Gaps = 1/83 (1%)

Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GS++NGRDS+ K LGVKKFGGE VI GNIIVRQRGTR+HPGD VG+GKDHTL+A
Sbjct: 2   AHKKAGGSSRNGRDSESKRLGVKKFGGESVIAGNIIVRQRGTRWHPGDNVGIGKDHTLFA 61

Query: 105 LKEGRVKFEKHKLSGRKWVHVEP 127
           L EG+V F++ K   R +V V P
Sbjct: 62  LSEGKVSFQR-KAGNRSYVSVIP 83

Bartonella tribocorum (strain CIP 105476 / IBS 506) (taxid: 382640)

>sp|Q2VZU3|RL27_MAGSA 50S ribosomal protein L27 OS=Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) GN=rpmA PE=3 SV=1

 Score =  112 bits (280), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 57/84 (67%), Positives = 65/84 (77%), Gaps = 1/84 (1%)

Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GS++NGRDS  + LGVKKFGGE VIPGNIIVRQRGT+F+PG  VGMGKDHTL+
Sbjct: 1   MAHKKAGGSSRNGRDSAGQRLGVKKFGGELVIPGNIIVRQRGTKFYPGTNVGMGKDHTLF 60

Query: 104 ALKEGRVKFEKHKLSGRKWVHVEP 127
           A   G+V F KHK  GR +V VEP
Sbjct: 61  ATAMGKVSF-KHKAEGRTFVVVEP 83

Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) (taxid: 342108)

>sp|Q87SU3|RL27_VIBPA 50S ribosomal protein L27 OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=rpmA PE=3 SV=1

 Score =  111 bits (278), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 54/85 (63%), Positives = 66/85 (77%)

Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GST+NGRDS+ K LGVK+FGGE V+ GNIIVRQRGT+FH G+ VG+GKDHTL+
Sbjct: 1   MAHKKAGGSTRNGRDSESKRLGVKRFGGESVLAGNIIVRQRGTKFHAGNNVGIGKDHTLF 60

Query: 104 ALKEGRVKFEKHKLSGRKWVHVEPK 128
           AL EG+VKFE      RK+V +E +
Sbjct: 61  ALTEGKVKFEVKGPKNRKFVSIEAE 85

Vibrio parahaemolyticus (taxid: 670)

>sp|A7N0G1|RL27_VIBHB 50S ribosomal protein L27 OS=Vibrio harveyi (strain ATCC BAA-1116 / BB120) GN=rpmA PE=3 SV=1

 Score =  111 bits (278), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 54/85 (63%), Positives = 66/85 (77%)

Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GST+NGRDS+ K LGVK+FGGE V+ GNIIVRQRGT+FH G+ VG+GKDHTL+
Sbjct: 1   MAHKKAGGSTRNGRDSESKRLGVKRFGGESVLAGNIIVRQRGTKFHAGNNVGIGKDHTLF 60

Query: 104 ALKEGRVKFEKHKLSGRKWVHVEPK 128
           AL EG+VKFE      RK+V +E +
Sbjct: 61  ALTEGKVKFEVKGPKNRKFVSIEAE 85

Vibrio harveyi (strain ATCC BAA-1116 / BB120) (taxid: 338187)

>sp|C3LRG7|RL27_VIBCM 50S ribosomal protein L27 OS=Vibrio cholerae serotype O1 (strain M66-2) GN=rpmA PE=3 SV=1

 Score =  111 bits (277), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 54/86 (62%), Positives = 66/86 (76%)

Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GST+NGRDS+ K LGVK+FGGE V+ GNIIVRQRGT+FH G  VG+GKDHTL+
Sbjct: 1   MAHKKAGGSTRNGRDSESKRLGVKRFGGESVLAGNIIVRQRGTKFHAGTNVGIGKDHTLF 60

Query: 104 ALKEGRVKFEKHKLSGRKWVHVEPKE 129
           AL +G+VKFE    + RK+V +E  E
Sbjct: 61  ALSDGKVKFEVKGPNNRKFVSIETAE 86

Vibrio cholerae serotype O1 (strain M66-2) (taxid: 579112)

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	153
255538646	152	ribosomal protein L27, putative [Ricinus	0.973	0.980	0.805	8e-66
313586473	149	Mitochondrial 50S ribosomal protein L27	0.973	1.0	0.794	2e-64
449442805	148	PREDICTED: 50S ribosomal protein L27-lik	0.967	1.0	0.781	3e-63
357456365	148	50S ribosomal protein L27 [Medicago trun	0.960	0.993	0.785	4e-63
358248158	147	uncharacterized protein LOC100782419 [Gl	0.954	0.993	0.771	7e-62
359475326	146	PREDICTED: 50S ribosomal protein L27-lik	0.954	1.0	0.766	2e-61
356541149	285	PREDICTED: uncharacterized protein LOC10	0.954	0.512	0.751	1e-59
388496050	181	unknown [Lotus japonicus]	0.901	0.762	0.775	2e-59
388499188	146	unknown [Lotus japonicus]	0.901	0.945	0.775	4e-59
255648142	147	unknown [Glycine max]	0.960	1.0	0.74	1e-58

>gi|255538646|ref|XP_002510388.1| ribosomal protein L27, putative [Ricinus communis] gi|223551089|gb|EEF52575.1| ribosomal protein L27, putative [Ricinus communis]

 Score =  254 bits (649), Expect = 8e-66,   Method: Compositional matrix adjust.
 Identities = 124/154 (80%), Positives = 136/154 (88%), Gaps = 5/154 (3%)

Query: 3   MFNFANTLCKRLNVKELVSNVSVYGSV---ADGSAGGLSLMFRRWATKKTAGSTKNGRDS 59
           M NF   LCKRLNVKELVSN+ VY ++   ADGSAGGLSLMFRRWATK+TAGSTKNGRDS
Sbjct: 1   MMNFRTVLCKRLNVKELVSNIPVYETITSTADGSAGGLSLMFRRWATKRTAGSTKNGRDS 60

Query: 60  KPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSG 119
           KPKNLGVKKFGGERVIPGNIIVRQRGTRFHPG+YVGMGKDHTLYALKEG VKFE HKLSG
Sbjct: 61  KPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGNYVGMGKDHTLYALKEGNVKFETHKLSG 120

Query: 120 RKWVHVEPKEGHVLHPLYANATANASSPQLETAA 153
           RKWVHVEPK+G+ LHP+YA   AN++S  L+ A+
Sbjct: 121 RKWVHVEPKDGYELHPVYAQ--ANSASTHLKIAS 152

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|313586473|gb|ADR71247.1| Mitochondrial 50S ribosomal protein L27 [Hevea brasiliensis]

 Score =  249 bits (636), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 120/151 (79%), Positives = 134/151 (88%), Gaps = 2/151 (1%)

Query: 3   MFNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPK 62
           M NF   +C RL VKELVSNV VY S+ DGSAGGLSL+ RRWATKKTAGSTKNGRDSKPK
Sbjct: 1   MSNFTTIICNRLKVKELVSNVPVYASLTDGSAGGLSLILRRWATKKTAGSTKNGRDSKPK 60

Query: 63  NLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKW 122
           NLGVKKFGGE+VIPGNIIVRQRGTRFHPG+YVGMGKDHTLYALKEG VKFE +KLSGRKW
Sbjct: 61  NLGVKKFGGEKVIPGNIIVRQRGTRFHPGNYVGMGKDHTLYALKEGNVKFETNKLSGRKW 120

Query: 123 VHVEPKEGHVLHPLYANATANASSPQLETAA 153
           VHVEPK+G+ LHP+Y  ATA+ +S +L+TA+
Sbjct: 121 VHVEPKDGYELHPVY--ATASVASSRLKTAS 149

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442805|ref|XP_004139171.1| PREDICTED: 50S ribosomal protein L27-like [Cucumis sativus] gi|449482828|ref|XP_004156416.1| PREDICTED: 50S ribosomal protein L27-like [Cucumis sativus]

 Score =  246 bits (627), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 118/151 (78%), Positives = 131/151 (86%), Gaps = 3/151 (1%)

Query: 3   MFNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPK 62
           M N A T CKRLNVK+LV+NV VY S +DG+  GL+L+FRRWATKKTAGSTKNGRDS PK
Sbjct: 1   MLNIATTFCKRLNVKDLVTNVPVYSSFSDGATAGLNLLFRRWATKKTAGSTKNGRDSNPK 60

Query: 63  NLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKW 122
            LGVKKFGGERVIPGNIIVRQRGTRFHPGDYVG+GKDHTL+ALKEG VKFEK+KLSGRKW
Sbjct: 61  YLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGIGKDHTLFALKEGNVKFEKNKLSGRKW 120

Query: 123 VHVEPKEGHVLHPLYANATANASSPQLETAA 153
           VHV PKEGHVLHP+Y      ++S QL+TAA
Sbjct: 121 VHVIPKEGHVLHPVYE---TTSTSLQLKTAA 148

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357456365|ref|XP_003598463.1| 50S ribosomal protein L27 [Medicago truncatula] gi|217071060|gb|ACJ83890.1| unknown [Medicago truncatula] gi|355487511|gb|AES68714.1| 50S ribosomal protein L27 [Medicago truncatula] gi|388495594|gb|AFK35863.1| unknown [Medicago truncatula] gi|388500166|gb|AFK38149.1| unknown [Medicago truncatula]

 Score =  245 bits (625), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 117/149 (78%), Positives = 135/149 (90%), Gaps = 2/149 (1%)

Query: 4   FNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPKN 63
            NFA++LC+RLN+KELV+NV VY S AD S  GLSL+FRRWATKKTAGSTKNGRDSKPKN
Sbjct: 1   MNFASSLCRRLNIKELVTNVPVYRSTADVSGEGLSLVFRRWATKKTAGSTKNGRDSKPKN 60

Query: 64  LGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV 123
           LGVKKFGGERVIPGNIIVRQRGTRFHPG+YVG+GKDHTL+ALKEG VKFE++KL+GRKWV
Sbjct: 61  LGVKKFGGERVIPGNIIVRQRGTRFHPGNYVGLGKDHTLFALKEGWVKFERNKLTGRKWV 120

Query: 124 HVEPKEGHVLHPLYANATANASSPQLETA 152
           HVEPKEGHVLHP++A+ +  AS P++  A
Sbjct: 121 HVEPKEGHVLHPVFADVS--ASEPKVGVA 147

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248158|ref|NP_001240083.1| uncharacterized protein LOC100782419 [Glycine max] gi|255638454|gb|ACU19536.1| unknown [Glycine max] gi|255638528|gb|ACU19572.1| unknown [Glycine max]

 Score =  241 bits (615), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 115/149 (77%), Positives = 132/149 (88%), Gaps = 3/149 (2%)

Query: 4   FNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPKN 63
            NFA +LC+RLN+KEL +NV VY S +D S  GLS  FRRWA+KKTAGSTKNGRDSKPKN
Sbjct: 1   MNFAASLCRRLNIKELATNVPVYKSTSDVSGEGLSFTFRRWASKKTAGSTKNGRDSKPKN 60

Query: 64  LGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV 123
           LGVKKFGGERVIPGNIIVRQRGTRFHPG+YVG+GKDH+L+ALKEG VKFE++KL+GRKWV
Sbjct: 61  LGVKKFGGERVIPGNIIVRQRGTRFHPGNYVGLGKDHSLFALKEGWVKFERNKLTGRKWV 120

Query: 124 HVEPKEGHVLHPLYANATANASSPQLETA 152
           HVEPKEGHVLHPLYA   A+AS+ +L+ A
Sbjct: 121 HVEPKEGHVLHPLYA---ADASASELKVA 146

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359475326|ref|XP_003631656.1| PREDICTED: 50S ribosomal protein L27-like [Vitis vinifera]

 Score =  240 bits (612), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 115/150 (76%), Positives = 129/150 (86%), Gaps = 4/150 (2%)

Query: 4   FNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPKN 63
            N A   CKR+N+KELV+N+ VY S +D S  GL L+F RWA+KKTAGSTKNGRDSKPKN
Sbjct: 1   MNLATLFCKRMNIKELVTNLPVYRSASDVSGEGLGLIFMRWASKKTAGSTKNGRDSKPKN 60

Query: 64  LGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV 123
           LGVKKFGGERVIPGNIIVRQRGTRFHPG+YVG+GKDHTLYALKEG VKFEKHKLSGRKWV
Sbjct: 61  LGVKKFGGERVIPGNIIVRQRGTRFHPGNYVGIGKDHTLYALKEGCVKFEKHKLSGRKWV 120

Query: 124 HVEPKEGHVLHPLYANATANASSPQLETAA 153
           HVEPK+GHVLHP+YA+A A    P+L+T  
Sbjct: 121 HVEPKDGHVLHPVYADAAA----PRLKTTV 146

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356541149|ref|XP_003539043.1| PREDICTED: uncharacterized protein LOC100817864 [Glycine max]

 Score =  234 bits (596), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 112/149 (75%), Positives = 131/149 (87%), Gaps = 3/149 (2%)

Query: 4   FNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPKN 63
            NFA +LC+RLN+KELV+ V VY S +  S  GL+L FRRWA+KKTAGSTKNGRDSKPKN
Sbjct: 139 MNFAASLCRRLNIKELVTYVPVYRSTSGVSGEGLNLAFRRWASKKTAGSTKNGRDSKPKN 198

Query: 64  LGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV 123
           LGVKKFGGERVIPGNIIVRQRGTRFHPG+YVG+GKDH+L+ALKEG VKFE++KL+GRKWV
Sbjct: 199 LGVKKFGGERVIPGNIIVRQRGTRFHPGNYVGLGKDHSLFALKEGWVKFERNKLTGRKWV 258

Query: 124 HVEPKEGHVLHPLYANATANASSPQLETA 152
           H+EPKEGHVLHPLYA   A+ S+ +L+ A
Sbjct: 259 HIEPKEGHVLHPLYA---ADGSASELKVA 284

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388496050|gb|AFK36091.1| unknown [Lotus japonicus]

 Score =  233 bits (594), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 107/138 (77%), Positives = 125/138 (90%)

Query: 4   FNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPKN 63
            NF  +LC+RL++KELV+NV VY S  D S  GLS++F RWA+KKTAGSTKNGRDSKPKN
Sbjct: 36  MNFGASLCRRLSIKELVTNVPVYRSTGDVSGEGLSMVFSRWASKKTAGSTKNGRDSKPKN 95

Query: 64  LGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV 123
           LGVKKFGGERVIPGNIIVRQRGTRFHPG+YVG+GKDHTL+ALK+G VKFE++KL+GRKWV
Sbjct: 96  LGVKKFGGERVIPGNIIVRQRGTRFHPGNYVGIGKDHTLFALKQGLVKFERNKLTGRKWV 155

Query: 124 HVEPKEGHVLHPLYANAT 141
           HVEPKEGHVLHP+Y +A+
Sbjct: 156 HVEPKEGHVLHPVYESAS 173

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388499188|gb|AFK37660.1| unknown [Lotus japonicus]

 Score =  232 bits (591), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 107/138 (77%), Positives = 125/138 (90%)

Query: 4   FNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPKN 63
            NF  +LC+RL++KELV+NV VY S  D S  GLS++F RWA+KKTAGSTKNGRDSKPKN
Sbjct: 1   MNFGASLCRRLSIKELVTNVPVYRSTGDVSGEGLSMVFSRWASKKTAGSTKNGRDSKPKN 60

Query: 64  LGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV 123
           LGVKKFGGERVIPGNIIVRQRGTRFHPG+YVG+GKDHTL+ALK+G VKFE++KL+GRKWV
Sbjct: 61  LGVKKFGGERVIPGNIIVRQRGTRFHPGNYVGIGKDHTLFALKQGLVKFERNKLTGRKWV 120

Query: 124 HVEPKEGHVLHPLYANAT 141
           HVEPKEGHVLHP+Y +A+
Sbjct: 121 HVEPKEGHVLHPVYESAS 138

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255648142|gb|ACU24525.1| unknown [Glycine max]

 Score =  231 bits (588), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 111/150 (74%), Positives = 130/150 (86%), Gaps = 3/150 (2%)

Query: 4   FNFANTLCKRLNVKELVSNVSVYGSVADGSAGGLSLMFRRWATKKTAGSTKNGRDSKPKN 63
            NFA +LC+RLN+KELV+ V VY S +  S  GL+L FRRWA+KKTAGSTKNGRDSKPKN
Sbjct: 1   MNFAASLCRRLNIKELVTYVPVYRSTSGVSGEGLNLAFRRWASKKTAGSTKNGRDSKPKN 60

Query: 64  LGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV 123
           LGVKKFGGERVIPGNIIVRQRGTRFHPG+YVG+GKD +L+ALKEG VKFE++KL+GRKWV
Sbjct: 61  LGVKKFGGERVIPGNIIVRQRGTRFHPGNYVGLGKDRSLFALKEGWVKFERNKLTGRKWV 120

Query: 124 HVEPKEGHVLHPLYANATANASSPQLETAA 153
           H+EPKEGHVLHPLYA   A+ S+ +L+ A 
Sbjct: 121 HIEPKEGHVLHPLYA---ADGSASELKVAV 147

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	153
TAIR|locus:2150881	154	AT5G15220 [Arabidopsis thalian	0.993	0.987	0.683	4.2e-56
TAIR|locus:2039390	154	AT2G16930 [Arabidopsis thalian	0.993	0.987	0.677	3.7e-55
TIGR_CMR|CBU_0386	90	CBU_0386 "ribosomal protein L2	0.555	0.944	0.647	1.8e-25
UNIPROTKB|Q9KUS9	86	rpmA "50S ribosomal protein L2	0.555	0.988	0.635	1.2e-24
TIGR_CMR|VC_0436	86	VC_0436 "ribosomal protein L27	0.555	0.988	0.635	1.2e-24
TIGR_CMR|NSE_0897	82	NSE_0897 "ribosomal protein L2	0.522	0.975	0.679	2e-24
TIGR_CMR|CPS_4511	85	CPS_4511 "ribosomal protein L2	0.529	0.952	0.641	8.7e-24
TIGR_CMR|SO_3651	84	SO_3651 "ribosomal protein L27	0.535	0.976	0.621	1.4e-23
DICTYBASE|DDB_G0278889	142	mrpl27 "ribosomal protein L27,	0.614	0.661	0.555	2.3e-23
UNIPROTKB|P0A7L8	85	rpmA "50S ribosomal subunit pr	0.535	0.964	0.597	3.4e-22

TAIR|locus:2150881 AT5G15220 [Arabidopsis thaliana (taxid:3702)]

 Score = 578 (208.5 bits), Expect = 4.2e-56, P = 4.2e-56
 Identities = 106/155 (68%), Positives = 132/155 (85%)

Query:     1 MSMFNFANTLCKRLNVKELVSNVSVYG--SVADGSAGGLSLMFRRWATKKTAGSTKNGRD 58
             M+  N A ++C+R++++EL++ V  Y   S++DGS+ GLSL+F+RWATKKTAGSTKNGRD
Sbjct:     1 MNFLNSAASICRRVSLRELITEVPAYSGSSISDGSSSGLSLVFKRWATKKTAGSTKNGRD 60

Query:    59 SKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLS 118
             S PK LGVKKFGGE VIPGNIIVRQRGTRFHPGDYVG+GKDHTL+ALKEGRV+FEK K++
Sbjct:    61 SNPKFLGVKKFGGESVIPGNIIVRQRGTRFHPGDYVGIGKDHTLFALKEGRVRFEKSKIT 120

Query:   119 GRKWVHVEPKEGHVLHPLYANATANASSPQLETAA 153
             GRKW+HV+P  GHVLHP+Y  A A A S +L+TA+
Sbjct:   121 GRKWIHVDPTGGHVLHPIYTKAAA-AQSTKLKTAS 154

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2039390 AT2G16930 [Arabidopsis thaliana (taxid:3702)]

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 105/155 (67%), Positives = 130/155 (83%)

Query:     1 MSMFNFANTLCKRLNVKELVSNVSVY--GSVADGSAGGLSLMFRRWATKKTAGSTKNGRD 58
             M+  N A ++C+R++++EL++ V  Y   S++DGS+ GLSL+ +RWATKKTAGSTKNGRD
Sbjct:     1 MNFLNSAASICRRVSLRELITEVPAYTGSSISDGSSSGLSLVLKRWATKKTAGSTKNGRD 60

Query:    59 SKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLS 118
             S PK LGVKKFGGE VIPGNIIVRQRGTRFHPGDYVG+GKDHTL+ALKEGRV+FEK K++
Sbjct:    61 SNPKFLGVKKFGGESVIPGNIIVRQRGTRFHPGDYVGIGKDHTLFALKEGRVRFEKSKIT 120

Query:   119 GRKWVHVEPKEGHVLHPLYANATANASSPQLETAA 153
             GRKW+HV+P  GHVLHP+Y  A A A S +L TA+
Sbjct:   121 GRKWIHVDPIGGHVLHPIYTKAAA-AKSTKLNTAS 154

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

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

TIGR_CMR|CBU_0386 CBU_0386 "ribosomal protein L27" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 289 (106.8 bits), Expect = 1.8e-25, P = 1.8e-25
 Identities = 55/85 (64%), Positives = 66/85 (77%)

Query:    45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
             A KK  GST+NGRDS PK LGVK+FGGERV+ GNIIVRQRGT + PG+ +GMG+DHTLYA
Sbjct:     2 AHKKAGGSTRNGRDSNPKMLGVKRFGGERVLAGNIIVRQRGTHYRPGENMGMGRDHTLYA 61

Query:   105 LKEGRVKFEKHKLSGRKWVHVEPKE 129
             L EG+VKF +     R +V +EP E
Sbjct:    62 LIEGKVKFTRKGPKKRNFVSIEPLE 86

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

GO:0006412 "translation" evidence=ISS

UNIPROTKB|Q9KUS9 rpmA "50S ribosomal protein L27" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 281 (104.0 bits), Expect = 1.2e-24, P = 1.2e-24
 Identities = 54/85 (63%), Positives = 66/85 (77%)

Query:    45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
             A KK  GST+NGRDS+ K LGVK+FGGE V+ GNIIVRQRGT+FH G  VG+GKDHTL+A
Sbjct:     2 AHKKAGGSTRNGRDSESKRLGVKRFGGESVLAGNIIVRQRGTKFHAGTNVGIGKDHTLFA 61

Query:   105 LKEGRVKFEKHKLSGRKWVHVEPKE 129
             L +G+VKFE    + RK+V +E  E
Sbjct:    62 LSDGKVKFEVKGPNNRKFVSIETAE 86

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_0436 VC_0436 "ribosomal protein L27" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 281 (104.0 bits), Expect = 1.2e-24, P = 1.2e-24
 Identities = 54/85 (63%), Positives = 66/85 (77%)

Query:    45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
             A KK  GST+NGRDS+ K LGVK+FGGE V+ GNIIVRQRGT+FH G  VG+GKDHTL+A
Sbjct:     2 AHKKAGGSTRNGRDSESKRLGVKRFGGESVLAGNIIVRQRGTKFHAGTNVGIGKDHTLFA 61

Query:   105 LKEGRVKFEKHKLSGRKWVHVEPKE 129
             L +G+VKFE    + RK+V +E  E
Sbjct:    62 LSDGKVKFEVKGPNNRKFVSIETAE 86

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|NSE_0897 NSE_0897 "ribosomal protein L27" [Neorickettsia sennetsu str. Miyayama (taxid:222891)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 55/81 (67%), Positives = 63/81 (77%)

Query:    45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
             ATKK  GS+ NGRDS  K LGVKKFG ERVIPG+IIVRQRGT+FHPG  VGMG DHT++A
Sbjct:     2 ATKKAGGSSSNGRDSIGKRLGVKKFGSERVIPGDIIVRQRGTKFHPGRNVGMGSDHTIFA 61

Query:   105 LKEGRVKFEKHKLSGRKWVHV 125
             +K G V F    L GR++VHV
Sbjct:    62 MKSGSVSFSVG-LRGRRFVHV 81

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|CPS_4511 CPS_4511 "ribosomal protein L27" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 273 (101.2 bits), Expect = 8.7e-24, P = 8.7e-24
 Identities = 52/81 (64%), Positives = 64/81 (79%)

Query:    45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
             A KK AGST+NGRDS+ K LGVK+FGGE V+ GNIIVRQRGTRFH G  +G+GKDHTL+A
Sbjct:     2 AHKKAAGSTRNGRDSEAKRLGVKRFGGESVLAGNIIVRQRGTRFHAGSNMGIGKDHTLFA 61

Query:   105 LKEGRVKFEKHKLSGRKWVHV 125
             L +G+V+FE      RK+V +
Sbjct:    62 LSDGKVQFEVKGPKSRKFVSI 82

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|SO_3651 SO_3651 "ribosomal protein L27" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 271 (100.5 bits), Expect = 1.4e-23, P = 1.4e-23
 Identities = 51/82 (62%), Positives = 65/82 (79%)

Query:    45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
             A KK  GST+NGRDS+ K LGVK+FGGE V+ GNIIVRQRGT+FH G  VG+G+DHTL+A
Sbjct:     2 AHKKAGGSTRNGRDSESKRLGVKRFGGESVLAGNIIVRQRGTKFHAGVNVGIGRDHTLFA 61

Query:   105 LKEGRVKFEKHKLSGRKWVHVE 126
             L +G+VKFE    + RK++ +E
Sbjct:    62 LTDGKVKFEVKGPNNRKFISIE 83

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

GO:0006412 "translation" evidence=ISS

DICTYBASE|DDB_G0278889 mrpl27 "ribosomal protein L27, mitochondrial" [Dictyostelium discoideum (taxid:44689)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 55/99 (55%), Positives = 69/99 (69%)

Query:    42 RRWATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHT 101
             +R+ATKK+AGSTKNGR S+PKNLG+KK G + V PG II+RQRGT FHPG +VGMGKDHT
Sbjct:    23 KRFATKKSAGSTKNGRTSQPKNLGLKKSGNQLVYPGEIIIRQRGTEFHPGTFVGMGKDHT 82

Query:   102 LYALKEGRVKFEKH-KLSGRKWVHVEPKEGHVLHPLYAN 139
             +++   G V F K  K  G K    + +    + PLY N
Sbjct:    83 IFSKTIGLVSFSKEPKFPGSK----KTRRFISVAPLYTN 117

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

UNIPROTKB|P0A7L8 rpmA "50S ribosomal subunit protein L27" [Escherichia coli K-12 (taxid:83333)]

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 49/82 (59%), Positives = 62/82 (75%)

Query:    45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
             A KK  GST+NGRDS+ K LGVK+FGGE V+ G+IIVRQRGT+FH G  VG G+DHTL+A
Sbjct:     2 AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFA 61

Query:   105 LKEGRVKFEKHKLSGRKWVHVE 126
               +G+VKFE      RK++ +E
Sbjct:    62 KADGKVKFEVKGPKNRKFISIE 83

GO:0006412 "translation" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0019843 "rRNA binding" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000049 "tRNA binding" 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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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	153
PRK05435	82	PRK05435, rpmA, 50S ribosomal protein L27; Validat	5e-47
pfam01016	80	pfam01016, Ribosomal_L27, Ribosomal L27 protein	5e-46
COG0211	87	COG0211, RpmA, Ribosomal protein L27 [Translation,	1e-42
CHL00121	86	CHL00121, rpl27, ribosomal protein L27; Reviewed	1e-37
TIGR00062	83	TIGR00062, L27, ribosomal protein L27	2e-33

>gnl|CDD|235464 PRK05435, rpmA, 50S ribosomal protein L27; Validated

 Score =  146 bits (372), Expect = 5e-47
 Identities = 54/82 (65%), Positives = 63/82 (76%), Gaps = 1/82 (1%)

Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GST+NGRDS+ K LGVK+FGG+ V  GNIIVRQRGT+FHPG  VG GKDHTL+A
Sbjct: 2   AHKKGGGSTRNGRDSESKRLGVKRFGGQFVKAGNIIVRQRGTKFHPGVNVGRGKDHTLFA 61

Query: 105 LKEGRVKFEKHKLSGRKWVHVE 126
           L +G VKFE+ K   RK+V V 
Sbjct: 62  LVDGVVKFER-KGRNRKYVSVV 82

Length = 82

>gnl|CDD|201553 pfam01016, Ribosomal_L27, Ribosomal L27 protein

 Score =  144 bits (365), Expect = 5e-46
 Identities = 58/81 (71%), Positives = 64/81 (79%), Gaps = 1/81 (1%)

Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GSTKNGRDS  K LGVKKFGG+ V  GNIIVRQRGT+FHPG+ VGMGKDHTL+A
Sbjct: 1   AHKKGGGSTKNGRDSNGKRLGVKKFGGQFVKAGNIIVRQRGTKFHPGENVGMGKDHTLFA 60

Query: 105 LKEGRVKFEKHKLSGRKWVHV 125
           L +G VKFEK K   RK+V V
Sbjct: 61  LVDGYVKFEK-KPKNRKYVSV 80

Length = 80

>gnl|CDD|223289 COG0211, RpmA, Ribosomal protein L27 [Translation, ribosomal structure and biogenesis]

 Score =  135 bits (343), Expect = 1e-42
 Identities = 55/85 (64%), Positives = 64/85 (75%), Gaps = 1/85 (1%)

Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GST+NGRDS+ K LGVKKFGG+ V  G+IIVRQRGT+FHPG  VG GKDHTL+A
Sbjct: 2   AHKKGGGSTRNGRDSESKRLGVKKFGGQFVKAGSIIVRQRGTKFHPGVNVGRGKDHTLFA 61

Query: 105 LKEGRVKFEKHKLSGRKWVHVEPKE 129
           L +G VKFE  K   RK+V V P+ 
Sbjct: 62  LVDGVVKFET-KGKNRKYVSVVPEA 85

Length = 87

>gnl|CDD|214370 CHL00121, rpl27, ribosomal protein L27; Reviewed

 Score =  123 bits (310), Expect = 1e-37
 Identities = 49/77 (63%), Positives = 57/77 (74%)

Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK AGSTKNGRDS  K LGVK+FGGE+V  GNI++RQRGT+F PG  VG GKD TLYA
Sbjct: 2   AHKKGAGSTKNGRDSNAKRLGVKRFGGEKVSAGNILIRQRGTKFKPGLNVGCGKDFTLYA 61

Query: 105 LKEGRVKFEKHKLSGRK 121
           L +G VKF+K     + 
Sbjct: 62  LIDGFVKFKKKNKKQKS 78

Length = 86

>gnl|CDD|232803 TIGR00062, L27, ribosomal protein L27

 Score =  112 bits (282), Expect = 2e-33
 Identities = 55/82 (67%), Positives = 64/82 (78%)

Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           ATKK  GSTKNGRDS+ K LGVK+ GG+ V  G+IIVRQRGT+FHPG+ VGMGKDHTL+A
Sbjct: 2   ATKKGVGSTKNGRDSEAKRLGVKRAGGQFVRAGSIIVRQRGTKFHPGNNVGMGKDHTLFA 61

Query: 105 LKEGRVKFEKHKLSGRKWVHVE 126
           L +G VKFEK     RK+V V 
Sbjct: 62  LSDGVVKFEKKGKRSRKFVSVV 83

Eubacterial, chloroplast, and mitochondrial. Mitochondrial members have an additional C-terminal domain [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 83

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	153
KOG4600	144	consensus Mitochondrial ribosomal protein MRP7 (L2	100.0
COG0211	87	RpmA Ribosomal protein L27 [Translation, ribosomal	100.0
TIGR00062	83	L27 ribosomal protein L27. Eubacterial, chloroplas	100.0
CHL00121	86	rpl27 ribosomal protein L27; Reviewed	100.0
PF01016	81	Ribosomal_L27: Ribosomal L27 protein; InterPro: IP	100.0
PRK05435	82	rpmA 50S ribosomal protein L27; Validated	100.0
PF14382	39	ECR1_N: Exosome complex exonuclease RRP4 N-termina	95.57
PRK09521	189	exosome complex RNA-binding protein Csl4; Provisio	95.32
COG1096	188	Predicted RNA-binding protein (consists of S1 doma	94.11
PRK04163	235	exosome complex RNA-binding protein Rrp4; Provisio	93.26
PF03961	451	DUF342: Protein of unknown function (DUF342); Inte	89.53
PF01551	96	Peptidase_M23: Peptidase family M23; InterPro: IPR	85.75

>KOG4600 consensus Mitochondrial ribosomal protein MRP7 (L2) [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=7.2e-47  Score=296.65  Aligned_cols=111  Identities=64%  Similarity=1.079  Sum_probs=102.6

Q ss_pred             CCCcceeeeeeeeecccccCCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEE
Q 031785           34 AGGLSLMFRRWATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFE  113 (153)
Q Consensus        34 ~~~~~~~~~r~A~KK~~GStkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~  113 (153)
                      ..++.++++||||||++|||+|||||+|+|||+|+|+||+|.||+||||||||+||||+|||||||||||||++|+|+|+
T Consensus        18 ss~~~~l~vR~AtKk~aGStKN~~dS~grrlGvKk~egq~V~~G~IIvrQRgtkfHPG~nVGiGKDhtifaL~eG~Vrf~   97 (144)
T KOG4600|consen   18 SSGLSFLAVRWATKKGAGSTKNGRDSAGRRLGVKKYEGQSVIPGNIIVRQRGTKFHPGDNVGIGKDHTIFALEEGRVRFE   97 (144)
T ss_pred             CCcceeeeeeeecccccCccccCCCCCcccccceecCCeeeecccEEEEecccccCCCcccccCCcceEEEeeccEEEEE
Confidence            34567889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecC-CCceEEEeEeCCCCccccccccccccc
Q 031785          114 KHKL-SGRKWVHVEPKEGHVLHPLYANATANA  144 (153)
Q Consensus       114 ~~~~-~~rk~V~V~p~~~~~~~p~~~~~~~~~  144 (153)
                      +++. +.||||+|+|..+..+||.+-++..-.
T Consensus        98 k~~~~~~Rk~i~V~~~~~~~l~~~~~k~~vr~  129 (144)
T KOG4600|consen   98 KSKITPPRKWIGVDPRGGLPLPPPYYKATVRR  129 (144)
T ss_pred             EccCCCCcceEEEeecCCccCCCccchhhhhh
Confidence            9865 459999999999999999887766544

>COG0211 RpmA Ribosomal protein L27 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=5.5e-47  Score=276.97  Aligned_cols=86  Identities=63%  Similarity=0.964  Sum_probs=83.3

Q ss_pred             eeeecccccCCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEE
Q 031785           44 WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV  123 (153)
Q Consensus        44 ~A~KK~~GStkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V  123 (153)
                      |||||++|||+|||||++||||+|+++||.|.+|+||||||||+||||+|||+|+||||||+++|+|+|+... ++|+||
T Consensus         1 mA~KKg~GSt~NgRDS~~krLGvK~~~Gq~v~aG~IivRQRGTk~hpG~NVG~GkDhTlFAl~dG~Vkf~~k~-~~rk~v   79 (87)
T COG0211           1 MAHKKGGGSTRNGRDSESKRLGVKKFGGQFVKAGSIIVRQRGTKFHPGVNVGRGKDHTLFALVDGVVKFETKG-KNRKYV   79 (87)
T ss_pred             CcccccccccccCccccccccceeeeCCeEEecccEEEEeccccccCCcccccCCCceEEEeeccEEEEEEcc-CCccEE
Confidence            6999999999999999999999999999999999999999999999999999999999999999999999985 799999


Q ss_pred             EeEeCCC
Q 031785          124 HVEPKEG  130 (153)
Q Consensus       124 ~V~p~~~  130 (153)
                      +|+|+..
T Consensus        80 sV~~~~~   86 (87)
T COG0211          80 SVVPEAE   86 (87)
T ss_pred             EEEeecc
Confidence            9999764

>TIGR00062 L27 ribosomal protein L27

Probab=100.00  E-value=2.1e-45  Score=267.22  Aligned_cols=83  Identities=66%  Similarity=0.990  Sum_probs=80.5

Q ss_pred             eeeecccccCCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEE
Q 031785           44 WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV  123 (153)
Q Consensus        44 ~A~KK~~GStkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V  123 (153)
                      |||||++|||+|||||+|||||+|+++||+|.||+||||||||+||||+||||||||||||+++|+|+|++++.++|+||
T Consensus         1 ~A~Kk~~GSt~NgrdS~~krLGvK~~~gq~V~~G~IivRQRGtk~hPG~nVg~GrD~TlfAl~~G~V~f~~~~~~~r~~v   80 (83)
T TIGR00062         1 MATKKGVGSTKNGRDSEAKRLGVKRAGGQFVRAGSIIVRQRGTKFHPGNNVGMGKDHTLFALSDGVVKFEKKGKRSRKFV   80 (83)
T ss_pred             CCcccccCcCCCCCCCCCccceeEecCCEEEcCCcEEEEcCCceECCCCcccccCCCeEEEecceEEEEEEcCCCCCEEE
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999876789999


Q ss_pred             EeE
Q 031785          124 HVE  126 (153)
Q Consensus       124 ~V~  126 (153)
                      +|+
T Consensus        81 ~v~   83 (83)
T TIGR00062        81 SVV   83 (83)
T ss_pred             EEC
Confidence            984

Eubacterial, chloroplast, and mitochondrial. Mitochondrial members have an additional C-terminal domain.

>CHL00121 rpl27 ribosomal protein L27; Reviewed

Probab=100.00  E-value=2.8e-45  Score=267.98  Aligned_cols=85  Identities=60%  Similarity=0.874  Sum_probs=81.5

Q ss_pred             eeeecccccCCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEE
Q 031785           44 WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV  123 (153)
Q Consensus        44 ~A~KK~~GStkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V  123 (153)
                      |||||++|||+|||||+|||||+|+++||+|.||+||||||||+||||+||||||||||||+++|+|+|++. .+++++|
T Consensus         1 mA~KK~~GStkNgrdS~~KrLGvK~~~gq~V~~G~IivRQRGtk~hPG~NVg~GrD~TlfAl~~G~V~f~~~-~~~~~~v   79 (86)
T CHL00121          1 MAHKKGAGSTKNGRDSNAKRLGVKRFGGEKVSAGNILIRQRGTKFKPGLNVGCGKDFTLYALIDGFVKFKKK-NKKQKSI   79 (86)
T ss_pred             CCcccccCcCCCCCCCCcccceeEEcCCEEEcCCcEEEEcCCCeECCCCcccccCCceEEEccceEEEEEEe-CCCCEEE
Confidence            699999999999999999999999999999999999999999999999999999999999999999999987 3689999


Q ss_pred             EeEeCC
Q 031785          124 HVEPKE  129 (153)
Q Consensus       124 ~V~p~~  129 (153)
                      +|+|..
T Consensus        80 sv~~~~   85 (86)
T CHL00121         80 NVINIV   85 (86)
T ss_pred             EEeecc
Confidence            999863

>PF01016 Ribosomal_L27: Ribosomal L27 protein; InterPro: IPR001684 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=2.3e-45  Score=265.74  Aligned_cols=81  Identities=70%  Similarity=1.100  Sum_probs=73.8

Q ss_pred             eeecccccCCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEE
Q 031785           45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVH  124 (153)
Q Consensus        45 A~KK~~GStkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~  124 (153)
                      ||||++|||+|||||+|||||||+++||+|.||+||||||||+||||+||||||||||||+++|+|+|+++ .++|+||+
T Consensus         1 A~KK~~GSt~NgrdS~~krlGvK~~~G~~V~~G~IivRQRgtk~hPG~NVg~GrD~TLfAl~~G~V~f~~~-~~~rk~v~   79 (81)
T PF01016_consen    1 AHKKGGGSTKNGRDSNPKRLGVKKFGGQFVKAGNIIVRQRGTKFHPGENVGMGRDHTLFALVDGRVKFTKE-KRNRKYVS   79 (81)
T ss_dssp             --SSSSSSSS--S-STTTTSEESSSTTCEESSTSEEEEBSSSSSEEBTTEEEETTSEEEESSSCEEEEEEE-TTTEEEEE
T ss_pred             CCccccccccCCCCCCCcccEEEEeCCEEEcCCCEEEEeCCCcCcCCCCEEECCCCcEEEecCEEEEEEEe-CCCCEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999 57899999


Q ss_pred             eE
Q 031785          125 VE  126 (153)
Q Consensus       125 V~  126 (153)
                      |+
T Consensus        80 V~   81 (81)
T PF01016_consen   80 VV   81 (81)
T ss_dssp             E-
T ss_pred             eC
Confidence            95

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 [, ]. L27 is a protein from the large (50S) subunit; it is essential for ribosome function, but its exact role is unclear. It belongs to a family of ribosomal proteins, examples of which are found in bacteria, chloroplasts of plants and red algae and the mitochondria of fungi (e.g. MRP7 from yeast mitochondria). The schematic relationship between these groups of proteins is shown below. Bacterial L27 Nxxxxxxxxx Algal L27 Nxxxxxxxxx Plant L27 tttttNxxxxxxxxxxxxx Yeast MRP7 tttNxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx 't': transit peptide. 'N': N-terminal of mature protein. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2ZJQ_T 2ZJP_T 3PIP_T 3DLL_T 3PIO_T 1Y69_U 3CF5_T 2ZJR_T 1VSA_U 3PYT_W ....

>PRK05435 rpmA 50S ribosomal protein L27; Validated

Probab=100.00  E-value=7.5e-45  Score=263.81  Aligned_cols=82  Identities=65%  Similarity=0.997  Sum_probs=79.2

Q ss_pred             eeeecccccCCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEE
Q 031785           44 WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV  123 (153)
Q Consensus        44 ~A~KK~~GStkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V  123 (153)
                      |||||++|||+|||||+|||||+|+++||+|.||+||||||||+||||+||+|||||||||+++|+|+|++.. ++|++|
T Consensus         1 mA~KK~~GStkNgrdS~~krLGvK~~~g~~V~~G~IivRQRGtk~~PG~nVg~GrD~TlfA~~~G~V~f~~~~-~~~~~v   79 (82)
T PRK05435          1 MAHKKGGGSTRNGRDSESKRLGVKRFGGQFVKAGNIIVRQRGTKFHPGVNVGRGKDHTLFALVDGVVKFERKG-RNRKYV   79 (82)
T ss_pred             CCcccccCcCCCCCCCCcccceeEecCCEEEcCCcEEEEeCCCeECCCCCEeecCCceEEEecceEEEEEEcC-CCcEEE
Confidence            6999999999999999999999999999999999999999999999999999999999999999999999874 689999


Q ss_pred             EeE
Q 031785          124 HVE  126 (153)
Q Consensus       124 ~V~  126 (153)
                      +|+
T Consensus        80 ~v~   82 (82)
T PRK05435         80 SVV   82 (82)
T ss_pred             EEC
Confidence            985

>PF14382 ECR1_N: Exosome complex exonuclease RRP4 N-terminal region; PDB: 2NN6_I 3M7N_C 2BA1_A 3M85_C

Probab=95.57  E-value=0.03  Score=35.55  Aligned_cols=38  Identities=29%  Similarity=0.547  Sum_probs=31.9

Q ss_pred             EeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEE
Q 031785           73 RVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFE  113 (153)
Q Consensus        73 ~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~  113 (153)
                      .|.||+.|-..  ..|.||.|+.+ +|..|||.+-|.|+..
T Consensus         1 iV~PG~~l~~~--~e~~~G~GTY~-~~g~I~asv~G~v~~~   38 (39)
T PF14382_consen    1 IVVPGDRLGSS--EEYMPGHGTYV-RDGNIYASVAGTVKID   38 (39)
T ss_dssp             EE-TT-EEEET--TTSEESTTEEE-ETTEEEESSSEEEEEE
T ss_pred             CCCCCCEeecC--CCEecCCCEEE-eCCEEEEEeeEEEEEc
Confidence            48899999985  47899999999 9999999999999864

>PRK09521 exosome complex RNA-binding protein Csl4; Provisional

Probab=95.32  E-value=0.048  Score=43.48  Aligned_cols=54  Identities=22%  Similarity=0.395  Sum_probs=43.6

Q ss_pred             CCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCCC
Q 031785           70 GGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEG  130 (153)
Q Consensus        70 ~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~~  130 (153)
                      +++.|.||+.|.-.  -.|.||.|+.. +|.+|||.+-|.+++..+    ++.|+|.|...
T Consensus         4 ~~~~V~PGe~l~~~--~e~~~G~Gty~-~~~~i~as~~G~~~id~~----~~~Isv~P~~~   57 (189)
T PRK09521          4 QGDLVLPGDYLAVI--EEYLPGEGTYE-DNGEVYASVVGKVFIDDI----NRKISVIPFKK   57 (189)
T ss_pred             cCCEECCCCccccc--cceEcCCCEEe-eCCEEEEEeeEEEEEcCC----CCEEEEecCcC
Confidence            67899999999754  36999999977 688899999999998543    45588877654

>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]

Probab=94.11  E-value=0.18  Score=42.03  Aligned_cols=60  Identities=22%  Similarity=0.355  Sum_probs=48.9

Q ss_pred             eCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCCCCcccc
Q 031785           69 FGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHP  135 (153)
Q Consensus        69 ~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~~~~~~p  135 (153)
                      -+|.+|.||+.|..+  -.|.||+|+--= |+.|+|...|.+..+.+    .+.++|.|......+|
T Consensus         3 ~~g~~v~PGd~~a~~--EE~~~G~gt~~~-~g~i~Aa~~G~~~~d~~----n~~~~V~p~~~~~~~~   62 (188)
T COG1096           3 KDGTFVLPGDVLAVI--EEFLPGEGTYEE-GGEIRAAATGVVRRDDK----NRVISVKPGKKTPPLP   62 (188)
T ss_pred             ccCcEEcCcceeeee--eeeecCCCeEeE-CCEEEEeecccEEEccc----ceEEEeccCCCCCCCC
Confidence            468899999999975  479999999876 99999999999988753    5678888877644444

>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional

Probab=93.26  E-value=0.27  Score=40.82  Aligned_cols=54  Identities=24%  Similarity=0.392  Sum_probs=42.6

Q ss_pred             eeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCCCC
Q 031785           68 KFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGH  131 (153)
Q Consensus        68 ~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~~~  131 (153)
                      ..++..|.||+.|.-   -.|.||.|+.. +|..|+|.+-|.+.+..      +.|+|.|....
T Consensus         5 ~~~~~~V~PGd~l~~---~~~~~G~Gty~-~~g~i~As~~G~~~~~~------~~i~V~p~~~~   58 (235)
T PRK04163          5 VEDRKIVVPGDLLAE---GEFKAGRGTYK-ENGKIYSTVVGLVDIKD------DKVRVIPLEGK   58 (235)
T ss_pred             eeCCcEECCCCCcCc---CCeecCCceEE-eCCEEEEEEeEEEEEEC------CEEEEEECCCc
Confidence            346789999999952   36999999987 89999999999999753      26788775543

>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function

Probab=89.53  E-value=1  Score=40.28  Aligned_cols=51  Identities=29%  Similarity=0.562  Sum_probs=39.7

Q ss_pred             eEeecCcEEee----ccc------------------CeEeCCCCeeee-cc-ceEEEeeceEEEEEEecCCCceEEEeEe
Q 031785           72 ERVIPGNIIVR----QRG------------------TRFHPGDYVGMG-KD-HTLYALKEGRVKFEKHKLSGRKWVHVEP  127 (153)
Q Consensus        72 q~V~~G~IIvR----QRG------------------tkfhPG~NVg~G-rD-~TLfAl~~G~V~f~~~~~~~rk~V~V~p  127 (153)
                      ..|.+|+.|++    +.|                  ..|.+|+||.+- .| .+|+|.++|++.|....      ++|.|
T Consensus       107 ~~V~~G~~la~~~p~~~G~~G~~V~G~~I~~~~~~~~~~~~g~~~~~~~~d~~~~~A~~~G~~~~~~~~------i~V~~  180 (451)
T PF03961_consen  107 PSVKKGDVLAEKIPPTPGEPGRDVFGEPIPAKPGKDIPLKAGKNTEVSEEDGNKLYAAIDGRPVFENGK------ISVDP  180 (451)
T ss_pred             eEECCCCEEEEEccCCCCCCCcccCCCCcCCCCCCccceeCCCCEEEEcCCCCEEEEecCCEEEEECCE------EEEEE
Confidence            34888888887    334                  478899999999 77 57999999999999542      66666


Q ss_pred             C
Q 031785          128 K  128 (153)
Q Consensus       128 ~  128 (153)
                      .
T Consensus       181 ~  181 (451)
T PF03961_consen  181 V  181 (451)
T ss_pred             e
Confidence            4

The proteins are in the region of 500-600 amino acid residues in length.

>PF01551 Peptidase_M23: Peptidase family M23; InterPro: IPR016047 Members of this family are zinc metallopeptidases with a range of specificities

Probab=85.75  E-value=1.9  Score=29.88  Aligned_cols=41  Identities=24%  Similarity=0.383  Sum_probs=28.8

Q ss_pred             eEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEe
Q 031785           87 RFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEP  127 (153)
Q Consensus        87 kfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p  127 (153)
                      +||.|--+.......++|+.+|+|.|.......-.+|-|.-
T Consensus         1 r~h~Gid~~~~~g~~V~A~~~G~V~~~~~~~~~g~~V~i~~   41 (96)
T PF01551_consen    1 RFHNGIDFAAPEGTPVYAPADGKVVFVGEDPGYGNYVIIQH   41 (96)
T ss_dssp             -EE-SEEEEETTT-EEEESSSEEEEEEEEETTTEEEEEEEE
T ss_pred             CCeeeEEeCCCCCCEEEeCccEEEEEEEeccCCccEEEEEe
Confidence            47888777777778899999999999886433455565554

The peptidase family M23 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins such as Swiss:P33648 for which no proteolytic activity has been demonstrated. This family also includes leukocyte cell-derived chemotaxin 2 (LECT2) proteins. LECT2 is a liver-specific protein which is thought to be linked to hepatocyte growth although the exact function of this protein is unknown.; PDB: 3IT5_A 3IT7_B 2GU1_A 3NYY_A 2HSI_B 3SLU_B 3UZ0_D 3TUF_B 1QWY_A 2B44_B ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	153
1vs6_W	85	Crystal Structure Of The Bacterial Ribosome From Es		1e-22
1p85_U	84	Real Space Refined Coordinates Of The 50s Subunit F		1e-22
1nkw_U	91	Crystal Structure Of The Large Ribosomal Subunit Fr		1e-21
3fik_W	79	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		2e-21
1pnu_U	86	Crystal Structure Of A Streptomycin Dependent Ribos		3e-21
1vsa_U	85	Crystal Structure Of A 70s Ribosome-Trna Complex Re		1e-20
3mrz_W	84	Recognition Of The Amber Stop Codon By Release Fact		2e-20
3r8s_W	76	Structures Of The Bacterial Ribosome In Classical A		2e-20
1v8q_A	85	Crystal Structure Of Ribosomal Protein L27 From The		2e-20
2v47_0	85	Structure Of The Ribosome Recycling Factor Bound To		4e-20
3bbo_X	198	Homology Model For The Spinach Chloroplast 50s Subu		4e-20
3r8t_W	75	Structures Of The Bacterial Ribosome In Classical A		9e-20
3tvh_3	77	Crystal Structure Analysis Of Ribosomal Decoding. T		6e-19
3pyo_W	76	Crystal Structure Of A Complex Containing Domain 3		1e-18
3tve_3	76	Crystal Structure Analysis Of Ribosomal Decoding. T		2e-18
2ftc_O	69	Structural Model For The Large Subunit Of The Mamma		2e-11

>pdb|1VS6|W Chain W, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 85

Iteration: 1
 Score =  102 bits (253), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 49/85 (57%), Positives = 63/85 (74%)
Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GST+NGRDS+ K LGVK+FGGE V+ G+IIVRQRGT+FH G  VG G+DHTL+
Sbjct: 1   MAHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLF 60
Query: 104 ALKEGRVKFEKHKLSGRKWVHVEPK 128
           A  +G+VKFE      RK++ +E +
Sbjct: 61  AKADGKVKFEVKGPKNRKFISIEAE 85

>pdb|1P85|U Chain U, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 84

Iteration: 1
 Score =  101 bits (252), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 49/84 (58%), Positives = 63/84 (75%)
Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GST+NGRDS+ K LGVK+FGGE V+ G+IIVRQRGT+FH G  VG G+DHTL+A
Sbjct: 1   AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFA 60
Query: 105 LKEGRVKFEKHKLSGRKWVHVEPK 128
             +G+VKFE      RK++ +E +
Sbjct: 61  KADGKVKFEVKGPKNRKFISIEAE 84

>pdb|1NKW|U Chain U, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 91

Iteration: 1
 Score = 98.6 bits (244), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 51/89 (57%), Positives = 64/89 (71%), Gaps = 1/89 (1%)
Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GS+KNGRDS PK LGVKKFGGE V  GNI+VRQRGT+F  G  VGMG+DHTL+
Sbjct: 1   MAHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLF 60
Query: 104 ALKEGRVKFEKHKLSGRKWVHVEPKEGHV 132
           AL +G+V F  +K  G +++ +E  +  V
Sbjct: 61  ALSDGKVVFI-NKGKGARFISIEAAQTEV 88

>pdb|3FIK|W Chain W, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 50s Subunit. Length = 79

Iteration: 1
 Score = 98.2 bits (243), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 46/78 (58%), Positives = 60/78 (76%)
Query: 51  GSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRV 110
           GST+NGRDS+ K LGVK+FGGE V+ G+IIVRQRGT+FH G  VG G+DHTL+A  +G+V
Sbjct: 2   GSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKV 61
Query: 111 KFEKHKLSGRKWVHVEPK 128
           KFE      RK++ +E +
Sbjct: 62  KFEVKGPKNRKFISIEAE 79

>pdb|1PNU|U Chain U, Crystal Structure Of A Streptomycin Dependent Ribosome From Escherichia Coli, 50s Subunit Of 70s Ribosome. This File, 1pnu, Contains Only Molecules Of The 50s Ribosomal Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site Trna Are In The Pdb File 1pns. Length = 86

Iteration: 1
 Score = 97.1 bits (240), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 50/85 (58%), Positives = 63/85 (74%), Gaps = 1/85 (1%)
Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GS+KNGRDS PK LGVKKFGGE V  GNI+VRQRGT+F  G  VGMG+DHTL+A
Sbjct: 1   AHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFA 60
Query: 105 LKEGRVKFEKHKLSGRKWVHVEPKE 129
           L +G+V F  +K  G +++ +E  +
Sbjct: 61  LSDGKVVFI-NKGKGARFISIEAAQ 84

>pdb|1VSA|U Chain U, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals Functional Interactions And Rearrangements. This File, 1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome Subunit Is In The File 2ow8 Length = 85

Iteration: 1
 Score = 95.1 bits (235), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 50/84 (59%), Positives = 61/84 (72%), Gaps = 1/84 (1%)
Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GSTKNGRDS+ K LGVK++ G+ V  GNI+VRQRGTRF PG  VGMG+D TL+
Sbjct: 1   MAHKKGLGSTKNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLF 60
Query: 104 ALKEGRVKFEKHKLSGRKWVHVEP 127
           AL +G V+F+     GR +VHV P
Sbjct: 61  ALVDGVVEFQDRGRLGR-YVHVRP 83

>pdb|3MRZ|W Chain W, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3mrz Contains 50s Ribosomal Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb Entry 3ms0. Molecule A In The Same Asymmetric Unit Is Deposited As 3mr8 (50s) And 3ms1 (30s). Length = 84

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 50/83 (60%), Positives = 61/83 (73%), Gaps = 1/83 (1%)
Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GSTKNGRDS+ K LGVK++ G+ V  GNI+VRQRGTRF PG  VGMG+D TL+A
Sbjct: 1   AHKKGLGSTKNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 60
Query: 105 LKEGRVKFEKHKLSGRKWVHVEP 127
           L +G V+F+     GR +VHV P
Sbjct: 61  LVDGVVEFQDRGRLGR-YVHVRP 82

>pdb|3R8S|W Chain W, Structures Of The Bacterial Ribosome In Classical And Hybrid States Of Trna Binding Length = 76

Iteration: 1
 Score = 94.4 bits (233), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 44/76 (57%), Positives = 58/76 (76%)
Query: 53  TKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKF 112
           T+NGRDS+ K LGVK+FGGE V+ G+IIVRQRGT+FH G  VG G+DHTL+A  +G+VKF
Sbjct: 1   TRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKF 60
Query: 113 EKHKLSGRKWVHVEPK 128
           E      RK++ +E +
Sbjct: 61  EVKGPKNRKFISIEAE 76

>pdb|1V8Q|A Chain A, Crystal Structure Of Ribosomal Protein L27 From Thermus Thermophilus Hb8 Length = 85

Iteration: 1
 Score = 94.4 bits (233), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 49/84 (58%), Positives = 61/84 (72%), Gaps = 1/84 (1%)
Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK  GST+NGRDS+ K LGVK++ G+ V  GNI+VRQRGTRF PG  VGMG+D TL+
Sbjct: 1   MAHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLF 60
Query: 104 ALKEGRVKFEKHKLSGRKWVHVEP 127
           AL +G V+F+     GR +VHV P
Sbjct: 61  ALVDGVVEFQDRGRLGR-YVHVRP 83

>pdb|2V47|0 Chain 0, Structure Of The Ribosome Recycling Factor Bound To The Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And Trna-Fmet (Part 2 Of 4). This File Contains The 50s Subunit For Molecule 1. Length = 85

Iteration: 1
 Score = 93.6 bits (231), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 48/84 (57%), Positives = 60/84 (71%), Gaps = 1/84 (1%)
Query: 44  WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
            A KK   ST+NGRDS+ K LGVK++ G+ V  GNI+VRQRGTRF PG  VGMG+D TL+
Sbjct: 1   MAHKKALASTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLF 60
Query: 104 ALKEGRVKFEKHKLSGRKWVHVEP 127
           AL +G V+F+     GR +VHV P
Sbjct: 61  ALVDGVVEFQDRGRLGR-YVHVRP 83

>pdb|3BBO|X Chain X, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 198

Iteration: 1
 Score = 93.6 bits (231), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 50/85 (58%), Positives = 61/85 (71%), Gaps = 1/85 (1%)
Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK AGSTKNGRDS  + LGVK +G +   PG IIVRQRGT+FH G  VG+GKDHT+++
Sbjct: 59  AHKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIFS 118
Query: 105 LKEGRVKFEKHKLSGRKWVHVEPKE 129
           L +G VKFEK     RK + V P+E
Sbjct: 119 LIDGLVKFEKFG-PDRKKISVYPRE 142

>pdb|3R8T|W Chain W, Structures Of The Bacterial Ribosome In Classical And Hybrid States Of Trna Binding Length = 75

Iteration: 1
 Score = 92.4 bits (228), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 43/75 (57%), Positives = 57/75 (76%)
Query: 54  KNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFE 113
           +NGRDS+ K LGVK+FGGE V+ G+IIVRQRGT+FH G  VG G+DHTL+A  +G+VKFE
Sbjct: 1   RNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKFE 60
Query: 114 KHKLSGRKWVHVEPK 128
                 RK++ +E +
Sbjct: 61  VKGPKNRKFISIEAE 75

>pdb|3TVH|3 Chain 3, Crystal Structure Analysis Of Ribosomal Decoding. This Entry Contains The 50s Ribosomal Subunit Of The Second 70s Molecule In The Asymmetric Unit For The Cognate Trna-Leu Complex Length = 77

Iteration: 1
 Score = 89.7 bits (221), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 45/76 (59%), Positives = 57/76 (75%), Gaps = 1/76 (1%)
Query: 52  STKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVK 111
           ST+NGRDS+ K LGVK++ G+ V  GNI+VRQRGTRF PG  VGMG+D TL+AL +G V+
Sbjct: 1   STRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVE 60
Query: 112 FEKHKLSGRKWVHVEP 127
           F+     GR +VHV P
Sbjct: 61  FQDRGRLGR-YVHVRP 75

>pdb|3PYO|W Chain W, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 50s Subunit Of The First 70s Ribosome. Length = 76

Iteration: 1
 Score = 88.6 bits (218), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 45/75 (60%), Positives = 56/75 (74%), Gaps = 1/75 (1%)
Query: 53  TKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKF 112
           TKNGRDS+ K LGVK++ G+ V  GNI+VRQRGTRF PG  VGMG+D TL+AL +G V+F
Sbjct: 1   TKNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEF 60
Query: 113 EKHKLSGRKWVHVEP 127
           +     GR +VHV P
Sbjct: 61  QDRGRLGR-YVHVRP 74

>pdb|3TVE|3 Chain 3, Crystal Structure Analysis Of Ribosomal Decoding. This Entry Contains The 50s Ribosomal Subunit Of The First 70s Molecule In The Asymmetric Unit For The Cognate Trna-Leu Complex Length = 76

Iteration: 1
 Score = 87.8 bits (216), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 44/75 (58%), Positives = 56/75 (74%), Gaps = 1/75 (1%)
Query: 53  TKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKF 112
           T+NGRDS+ K LGVK++ G+ V  GNI+VRQRGTRF PG  VGMG+D TL+AL +G V+F
Sbjct: 1   TRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEF 60
Query: 113 EKHKLSGRKWVHVEP 127
           +     GR +VHV P
Sbjct: 61  QDRGRLGR-YVHVRP 74

>pdb|2FTC|O Chain O, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 69

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 35/69 (50%), Positives = 47/69 (68%), Gaps = 1/69 (1%)
Query: 45  ATKKTAGSTKN-GRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
           A+KK+ GS+KN G  S  +  G+KK  G  V  GNII  QR  R+HPG +VG+GK+  LY
Sbjct: 1   ASKKSGGSSKNLGGKSSGRRQGIKKMEGHYVHAGNIIATQRHFRWHPGAHVGVGKNKCLY 60
Query: 104 ALKEGRVKF 112
           AL+EG V++
Sbjct: 61  ALEEGIVRY 69

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	153
3bbo_X	198	Ribosomal protein L27; large ribosomal subunit, sp	2e-45
2zjr_T	91	50S ribosomal protein L27; ribosome, large ribosom	3e-45
3v2d_0	85	50S ribosomal protein L27; ribosome associated inh	3e-43
3r8s_W	76	50S ribosomal protein L27; protein biosynthesis, R	9e-43
2ftc_O	69	L27MT, MRP-L27, mitochondrial 39S ribosomal protei	2e-38

>3bbo_X Ribosomal protein L27; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 198

 Score =  145 bits (368), Expect = 2e-45
 Identities = 52/101 (51%), Positives = 65/101 (64%), Gaps = 1/101 (0%)

Query: 40  MFRRWATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKD 99
           +    A KK AGSTKNGRDS  + LGVK +G +   PG IIVRQRGT+FH G  VG+GKD
Sbjct: 54  LTIESAHKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTKFHAGKNVGIGKD 113

Query: 100 HTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHPLYANA 140
           HT+++L +G VKFEK     RK + V P+E    +P    A
Sbjct: 114 HTIFSLIDGLVKFEK-FGPDRKKISVYPREIVPENPNSYRA 153

>2zjr_T 50S ribosomal protein L27; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.84.4.1 PDB: 1nwx_U* 1nwy_U* 1sm1_U* 1xbp_U* 1y69_U 1yl3_3 2b66_0 2b9n_0 2b9p_0 2zjp_T* 2zjq_T 1nkw_U 3cf5_T* 3dll_T* 3pio_T* 3pip_T* 1pnu_U 1pny_U 1vor_X 1vou_X ... Length = 91

 Score =  142 bits (360), Expect = 3e-45
 Identities = 51/88 (57%), Positives = 63/88 (71%), Gaps = 1/88 (1%)

Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GS+KNGRDS PK LGVKKFGGE V  GNI+VRQRGT+F  G  VGMG+DHTL+A
Sbjct: 2   AHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFA 61

Query: 105 LKEGRVKFEKHKLSGRKWVHVEPKEGHV 132
           L +G+V F   K  G +++ +E  +  V
Sbjct: 62  LSDGKVVFIN-KGKGARFISIEAAQTEV 88

>3v2d_0 50S ribosomal protein L27; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgj_Z 2hgq_Z 2hgu_Z 2j01_0 2j03_0 2jl6_0 2jl8_0 2wdi_0 2wdj_0 2wdl_0 2wdn_0 2wh2_0 2wh4_0 2wrj_0 2wrl_0 2wro_0 2wrr_0 2x9s_0 2x9u_0 2xg0_0 ... Length = 85

 Score =  137 bits (346), Expect = 3e-43
 Identities = 47/83 (56%), Positives = 61/83 (73%), Gaps = 1/83 (1%)

Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GST+NGRDS+ K LGVK++ G+ V  GNI+VRQRGTRF PG  VGMG+D TL+A
Sbjct: 2   AHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFA 61

Query: 105 LKEGRVKFEKHKLSGRKWVHVEP 127
           L +G V+F+  +    ++VHV P
Sbjct: 62  LVDGVVEFQD-RGRLGRYVHVRP 83

>3r8s_W 50S ribosomal protein L27; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2qam_W* 1p85_U 1p86_U 2awb_W 2gya_U 2gyc_U 2aw4_W 2i2v_W 2j28_W 2i2t_W* 2qao_W* 2qba_W* 2qbc_W* 2qbe_W 2qbg_W 2qbi_W* 2qbk_W* 2qov_W 2qox_W 2qoz_W* ... Length = 76

 Score =  135 bits (342), Expect = 9e-43
 Identities = 44/76 (57%), Positives = 58/76 (76%)

Query: 53  TKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKF 112
           T+NGRDS+ K LGVK+FGGE V+ G+IIVRQRGT+FH G  VG G+DHTL+A  +G+VKF
Sbjct: 1   TRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKF 60

Query: 113 EKHKLSGRKWVHVEPK 128
           E      RK++ +E +
Sbjct: 61  EVKGPKNRKFISIEAE 76

>2ftc_O L27MT, MRP-L27, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_O Length = 69

 Score =  124 bits (313), Expect = 2e-38
 Identities = 35/69 (50%), Positives = 47/69 (68%), Gaps = 1/69 (1%)

Query: 45  ATKKTAGSTKN-GRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLY 103
           A+KK+ GS+KN G  S  +  G+KK  G  V  GNII  QR  R+HPG +VG+GK+  LY
Sbjct: 1   ASKKSGGSSKNLGGKSSGRRQGIKKMEGHYVHAGNIIATQRHFRWHPGAHVGVGKNKCLY 60

Query: 104 ALKEGRVKF 112
           AL+EG V++
Sbjct: 61  ALEEGIVRY 69

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	153
3bbo_X	198	Ribosomal protein L27; large ribosomal subunit, sp	100.0
2zjr_T	91	50S ribosomal protein L27; ribosome, large ribosom	100.0
3v2d_0	85	50S ribosomal protein L27; ribosome associated inh	100.0
3r8s_W	76	50S ribosomal protein L27; protein biosynthesis, R	100.0
2ftc_O	69	L27MT, MRP-L27, mitochondrial 39S ribosomal protei	100.0
2xha_A	193	NUSG, transcription antitermination protein NUSG;	95.42
2xhc_A	352	Transcription antitermination protein NUSG; 2.45A	95.29
3m7n_A	179	Putative uncharacterized protein AF_0206; exosome,	93.41
2je6_I	251	RRP4, exosome complex RNA-binding protein 1; nucle	92.29
2nn6_I	209	3'-5' exoribonuclease CSL4 homolog; RNA, exosome,	89.05
2ba0_A	229	Archeal exosome RNA binding protein RRP4; RNAse PH	86.68

>3bbo_X Ribosomal protein L27; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1

Probab=100.00  E-value=2.9e-52  Score=339.36  Aligned_cols=138  Identities=42%  Similarity=0.472  Sum_probs=83.9

Q ss_pred             CchhhhHHHHhhhhhhhhhhhceeccccc----CCCCCCCc------ceeeeeeeeecccccCCCCCCCCCcccceeeeC
Q 031785            1 MSMFNFANTLCKRLNVKELVSNVSVYGSV----ADGSAGGL------SLMFRRWATKKTAGSTKNGRDSKPKNLGVKKFG   70 (153)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~------~~~~~r~A~KK~~GStkNGRdS~~KrLGvK~~~   70 (153)
                      |+|+..|...|++|++.++.+.+..-.+.    ++..+.|+      ..+++||||||++|||+|||||++||||+|++|
T Consensus         5 ~~~~~~l~~~f~g~s~sssssf~~~~~~~~~~~~~~~~~p~~~~~~~~~l~VRmAhKKggGSTkNGRDS~~KRLGVK~~g   84 (198)
T 3bbo_X            5 TSMSLNLIGAFKGLSLSSTSSFLRGDLSFSPKTSFTVTLPLENLQAPIPLTIESAHKKGAGSTKNGRDSPGQRLGVKIYG   84 (198)
T ss_dssp             ------------------------------------------------------CCCCSSCCCCCCCCCCCCCCSCSSSB
T ss_pred             HHHHHHHHHHhcccccccccceecccccccccccccccccccccccchhhheeeeeccCCCCCCCCCCCCCceeeEEecC
Confidence            67888999999999999887766333222    23333332      245799999999999999999999999999999


Q ss_pred             CeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCCCCcccccccc
Q 031785           71 GERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHPLYAN  139 (153)
Q Consensus        71 Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~~~~~~p~~~~  139 (153)
                      ||+|.||+||||||||+||||+||||||||||||+++|+|+|+++ .++|+||+|+|++.+++||...+
T Consensus        85 Gq~V~aGnIIVRQRGTkfhPG~NVG~GkDhTLFAl~~G~VkF~~~-~~~Rk~VsV~p~~~~~~~p~~~r  152 (198)
T 3bbo_X           85 DQVAKPGAIIVRQRGTKFHAGKNVGIGKDHTIFSLIDGLVKFEKF-GPDRKKISVYPREIVPENPNSYR  152 (198)
T ss_dssp             CCSSCSCCSSSSCCCCSSCCCCSSSSCCCCCSBCCSCCCCCSSSS-CCCCSCCCSSCCCCC--------
T ss_pred             CeEeccCcEEEeccCceEcCCCCeeecCCCceEeccceEEEEEEc-CCCcEEEEEEeCCccccCchhhh
Confidence            999999999999999999999999999999999999999999975 37999999999999999998443

>2zjr_T 50S ribosomal protein L27; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.84.4.1 PDB: 1nwx_U* 1nwy_U* 1sm1_U* 1xbp_U* 1y69_U 1yl3_3 2b66_0 2b9n_0 2b9p_0 2zjp_T* 2zjq_T 1nkw_U 3cf5_T* 3dll_T* 3pio_T* 3pip_T* 1pnu_U 1pny_U 1vor_X 1vou_X ...

Probab=100.00  E-value=1.1e-48  Score=287.38  Aligned_cols=87  Identities=56%  Similarity=0.940  Sum_probs=82.1

Q ss_pred             eeeecccccCCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEE
Q 031785           44 WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV  123 (153)
Q Consensus        44 ~A~KK~~GStkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V  123 (153)
                      |||||++|||+|||||++||||+|+++||+|.||+||||||||+||||+||||||||||||+++|+|+|+++. ++|+||
T Consensus         1 mAhKK~~GSt~NGRdS~~krLGvK~~gGq~V~aG~IivRQRGtk~hPG~NVg~GkD~TLfAl~~G~V~f~~~~-~~r~~V   79 (91)
T 2zjr_T            1 MAHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFALSDGKVVFINKG-KGARFI   79 (91)
T ss_dssp             -CCSSCSSCSSCCCCCCCCCCCCSSCTTCEECSSCEEECCSSSSSEECTTEECCTTSCEEESSCEEEEEEEET-TTEEEE
T ss_pred             CCcccCCCCCCCCCCCCCceeeEEecCCeEEcCCeEEEecCCCEEcCCCCEEEcCCCcEEeccceEEEEEEcC-CCcEEE
Confidence            7999999999999999999999999999999999999999999999999999999999999999999999875 899999


Q ss_pred             EeEeCCCC
Q 031785          124 HVEPKEGH  131 (153)
Q Consensus       124 ~V~p~~~~  131 (153)
                      +|+|++.|
T Consensus        80 ~V~p~~~~   87 (91)
T 2zjr_T           80 SIEAAQTE   87 (91)
T ss_dssp             EECCCC--
T ss_pred             EEEeChhh
Confidence            99997654

>3v2d_0 50S ribosomal protein L27; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgj_Z 2hgq_Z 2hgu_Z 2j01_0 2j03_0 2jl6_0 2jl8_0 2wdi_0 2wdj_0 2wdl_0 2wdn_0 2wh2_0 2wh4_0 2wrj_0 2wrl_0 2wro_0 2wrr_0 2x9s_0 2x9u_0 2xg0_0 ...

Probab=100.00  E-value=1.4e-47  Score=278.50  Aligned_cols=84  Identities=56%  Similarity=0.902  Sum_probs=73.9

Q ss_pred             eeeecccccCCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEE
Q 031785           44 WATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV  123 (153)
Q Consensus        44 ~A~KK~~GStkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V  123 (153)
                      |||||++|||+|||||++||||+|+++||+|.||+||||||||+||||+||||||||||||+++|+|+|++. .++|+||
T Consensus         1 MAhKK~gGStkNGrdS~~krLGvK~~~Gq~V~aG~IivRQRGtk~hPG~NVg~GkD~TLfAl~~G~V~f~~~-~~~r~~V   79 (85)
T 3v2d_0            1 MAHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDR-GRLGRYV   79 (85)
T ss_dssp             --------CCSCCCCCCCCCCEESSCTTCEECTTCEEEECSSCSEEECTTEEECTTCCEEESSSEEEEEEEC-GGGCEEE
T ss_pred             CCcccCCCCCCCCCCCCCccceeEecCCeEEcCCeEEEecCCccCcCCCCEeEcCCCeEEEecCEEEEEEEc-CCCCEEE
Confidence            799999999999999999999999999999999999999999999999999999999999999999999987 3789999


Q ss_pred             EeEeC
Q 031785          124 HVEPK  128 (153)
Q Consensus       124 ~V~p~  128 (153)
                      +|+|+
T Consensus        80 sV~p~   84 (85)
T 3v2d_0           80 HVRPL   84 (85)
T ss_dssp             EEEEC
T ss_pred             EEEEC
Confidence            99995

>3r8s_W 50S ribosomal protein L27; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3j19_W 2qam_W* 1p85_U 1p86_U 2awb_W 2gya_U 2gyc_U 2aw4_W 2i2v_W 2j28_W 2i2t_W* 2qao_W* 2qba_W* 2qbc_W* 2qbe_W 2qbg_W 2qbi_W* 2qbk_W* 2qov_W 2qox_W ...

Probab=100.00  E-value=7.8e-44  Score=254.40  Aligned_cols=76  Identities=58%  Similarity=1.015  Sum_probs=73.5

Q ss_pred             CCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeC
Q 031785           53 TKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPK  128 (153)
Q Consensus        53 tkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~  128 (153)
                      |+|||||++||||+|+++||+|.||+||||||||+||||+||||||||||||+++|+|+|+++..++|+||+|+|+
T Consensus         1 t~NGRDS~~krLGvK~~~Gq~V~aG~IivRQRGtk~hPG~NVG~GkD~TLfAl~~G~V~f~~~~~~~r~~VsV~p~   76 (76)
T 3r8s_W            1 TRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKFEVKGPKNRKFISIEAE   76 (76)
T ss_dssp             CCCCCCCCCCCCEESSCTTCEECTTCEEEECSSCSSEECTTEEECTTSCEEESSSEEEEEEEETTTTEEEEEEECC
T ss_pred             CCCCCCCCcccceEEecCCeEEecCcEEEeccCccCcCCCCeeecCCCeEEEccCEEEEEEEeCCCCCEEEEEEeC
Confidence            6999999999999999999999999999999999999999999999999999999999999876679999999985

>2ftc_O L27MT, MRP-L27, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_O

Probab=100.00  E-value=1.2e-42  Score=244.55  Aligned_cols=68  Identities=51%  Similarity=0.841  Sum_probs=67.3

Q ss_pred             eeecccccCCC-CCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEE
Q 031785           45 ATKKTAGSTKN-GRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKF  112 (153)
Q Consensus        45 A~KK~~GStkN-GRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f  112 (153)
                      ||||++|||+| ||||++||||+|+++||+|.||+||||||||+||||+||||||||||||+++|+|+|
T Consensus         1 A~KK~~GSt~N~grdS~~krlGvK~~~Gq~V~aG~IivrQRgtk~hPG~nVg~GkD~TLfAl~~G~V~f   69 (69)
T 2ftc_O            1 ASKKSGGSSKNLGGKSSGRRQGIKKMEGHYVHAGNIIATQRHFRWHPGAHVGVGKNKCLYALEEGIVRY   69 (69)
T ss_pred             CcccccCcccCCCCCCCCceeeEEecCCeEecCCeEEEecCCCeEcCCCCeeecCCCcEEEccceEEeC
Confidence            79999999999 999999999999999999999999999999999999999999999999999999997

>2xha_A NUSG, transcription antitermination protein NUSG; 1.91A {Thermotoga maritima}

Probab=95.42  E-value=0.008  Score=48.67  Aligned_cols=43  Identities=21%  Similarity=0.218  Sum_probs=34.1

Q ss_pred             eCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCCCC
Q 031785           69 FGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGH  131 (153)
Q Consensus        69 ~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~~~  131 (153)
                      -+|+.|.+|+||+                +|+.+.|-++|+|.|.+    +++.|-|.|+.++
T Consensus        86 ~dG~~V~~GdvLA----------------Kd~AIiaEIdG~V~fgk----gkrrivI~~~~Ge  128 (193)
T 2xha_A           86 RVGTKVKQGLPLS----------------KNEEYICELDGKIVEIE----RMKKVVVQTPDGE  128 (193)
T ss_dssp             CTTCEECTTSBSS----------------TTSCSBCCSSEEEEEEE----EEEEEEEECTTSC
T ss_pred             CCCCEEcCCCEEe----------------cCCeEEEccceEEEECC----CeEEEEEECCCCC
Confidence            3566677777666                99999999999999987    4666778887664

>2xhc_A Transcription antitermination protein NUSG; 2.45A {Thermotoga maritima}

Probab=95.29  E-value=0.012  Score=50.68  Aligned_cols=49  Identities=22%  Similarity=0.237  Sum_probs=36.3

Q ss_pred             eCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCCCCc---ccccc
Q 031785           69 FGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHV---LHPLY  137 (153)
Q Consensus        69 ~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~~~~---~~p~~  137 (153)
                      -+|+.|.+|+||+                ||+.+.|-+||+|.|.++    ++.|-|.|+.++.   +.|.+
T Consensus       126 ~~g~~v~~G~vla----------------k~~aiiaeidG~V~fg~~----kr~i~i~~~~g~~~eylip~~  177 (352)
T 2xhc_A          126 RVGTKVKQGLPLS----------------KNEEYICELDGKIVEIER----MKKVVVQTPDGEQDVYYIPLD  177 (352)
T ss_dssp             CTTCEECTTCBSB----------------SSSSCBCCSCEEEEEEEE----EEEEEEECTTSCEEEEEEEGG
T ss_pred             CCCCEEccCcEEe----------------cCceEEeccceEEEECCc----EEEEEEECCCCCEEEEEEcCC
Confidence            3566666666665                999999999999999985    5667788877653   45544

>3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A

Probab=93.41  E-value=0.16  Score=39.18  Aligned_cols=55  Identities=20%  Similarity=0.221  Sum_probs=41.5

Q ss_pred             eEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCCCCcccc
Q 031785           72 ERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEGHVLHP  135 (153)
Q Consensus        72 q~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~~~~~~p  135 (153)
                      +.|.||+.|.-.  ..|.||.++.. .|..|+|..-|.|++.      .+.|+|.|.......|
T Consensus         2 ~iV~PGd~l~~~--~~~~~G~Gty~-~~~~i~as~~G~v~~~------~~~v~V~~~~~~~y~p   56 (179)
T 3m7n_A            2 RFVMPGDRIGSA--EEYVKGEGVYE-EGGELFAAVAGKLIIK------DRVAKVESISPIPEIV   56 (179)
T ss_dssp             CEECTTCEEEET--TTSEECTTEEE-ETTEEEESSSEEEEEE------TTEEEEEESSCCCCCC
T ss_pred             eEEcCCCCCCCC--CCEeccCCEEE-eCCEEEEEEEEEEEEe------CCEEEEEECCCCcccC
Confidence            478999999754  35899999988 4889999999999982      2467888864433333

>2je6_I RRP4, exosome complex RNA-binding protein 1; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1 PDB: 2jea_I* 2jeb_I* 3l7z_C

Probab=92.29  E-value=0.29  Score=40.01  Aligned_cols=51  Identities=22%  Similarity=0.337  Sum_probs=41.2

Q ss_pred             CCeEeecCcEEeecccCeEeCCC--CeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCCC
Q 031785           70 GGERVIPGNIIVRQRGTRFHPGD--YVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEG  130 (153)
Q Consensus        70 ~Gq~V~~G~IIvRQRGtkfhPG~--NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~~  130 (153)
                      +++.|.||+.|...   .|.||.  ++.. .|..|||.+-|.|.+..      +.|+|.|...
T Consensus        15 ~~~iV~PGd~l~~~---~~~~G~~~Gty~-~~g~i~as~~G~v~~~~------~~v~V~p~~~   67 (251)
T 2je6_I           15 PRSIVVPGELLAEG---EFQIPWSPYILK-INSKYYSTVVGLFDVKD------TQFEVIPLEG   67 (251)
T ss_dssp             SSCEECTTCEEEEE---CCCCCCCTTEEE-ETTEEEECSSEEEEEET------TEEEEEESCC
T ss_pred             CCcEEcCCCCCccC---CeeeCCCCCEEE-ECCEEEEEEEEEEEEeC------CEEEEEECCC
Confidence            58899999999853   489999  9876 57889999999998642      2588888665

>2nn6_I 3'-5' exoribonuclease CSL4 homolog; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2

Probab=89.05  E-value=0.099  Score=41.62  Aligned_cols=58  Identities=14%  Similarity=0.076  Sum_probs=39.7

Q ss_pred             eeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCC
Q 031785           68 KFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKE  129 (153)
Q Consensus        68 ~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~  129 (153)
                      ..+++.|.||+.|...  ..|.||.|+.. .|..|||.+-|.|.+... ....+.|+|.|..
T Consensus        16 ~~~~~iV~PGd~l~~~--~~~~~G~Gty~-~~g~I~Asv~G~v~~~~~-~~~~~vi~V~p~~   73 (209)
T 2nn6_I           16 APPVRYCIPGERLCNL--EEGSPGSGTYT-RHGYIFSSLAGCLMKSSE-NGALPVVSVVRET   73 (209)
T ss_dssp             ----CCCCTTCEEEET--TTCCCSSSCEE-ETTEEECCSCSCBCCCBC-TTSSBC-CBCCSC
T ss_pred             cCCCcEEcCCCCCCCC--CCeeecCCEEE-ECCEEEEEEEEEEEEecc-CCcccEEEEecCC
Confidence            3457889999999854  35899999876 577899999999886532 1234557777654

>2ba0_A Archeal exosome RNA binding protein RRP4; RNAse PH, RNA degradation, exoribonuclease, S1domain, KH domain, archaeal; 2.70A {Archaeoglobus fulgidus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1

Probab=86.68  E-value=0.61  Score=37.46  Aligned_cols=48  Identities=21%  Similarity=0.268  Sum_probs=36.9

Q ss_pred             eEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCC
Q 031785           72 ERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKE  129 (153)
Q Consensus        72 q~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~  129 (153)
                      +.|.||+.|..   ..|.||.|+.. .|..|+|.+-|.|.+..      +.|+|.|..
T Consensus         3 ~iV~PGd~l~~---~~~~~G~Gty~-~~g~i~as~~G~v~~~~------~~v~V~p~~   50 (229)
T 2ba0_A            3 KIVLPGDLLST---NPRAAGYGTYV-EGGKVYAKIIGLFDQTE------THVRVIPLK   50 (229)
T ss_dssp             CEECTTCEEES---CTTSBCTTEEE-ETTEEEECSSEEEEECS------SCEEEEECS
T ss_pred             CEEcCCCCccc---CCeEecCCEEE-eCCEEEEEEEEEEEEeC------CEEEEEeCC
Confidence            57999999973   34899999987 68899999999988542      137777644

---

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	153
d2gycu1	84	b.84.4.1 (U:1-84) Ribosomal protein L27 {Escherich	1e-39
d2zjrt1	84	b.84.4.1 (T:2-85) Ribosomal protein L27 {Deinococc	6e-39
d1v8qa_	66	b.84.4.1 (A:) Ribosomal protein L27 {Thermus therm	7e-31

>d2gycu1 b.84.4.1 (U:1-84) Ribosomal protein L27 {Escherichia coli [TaxId: 562]} Length = 84

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Escherichia coli [TaxId: 562]

 Score =  126 bits (318), Expect = 1e-39
 Identities = 49/83 (59%), Positives = 62/83 (74%)

Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GST+NGRDS+ K LGVK+FGGE V+ G+IIVRQRGT+FH G  VG G+DHTL+A
Sbjct: 1   AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFA 60

Query: 105 LKEGRVKFEKHKLSGRKWVHVEP 127
             +G+VKFE      RK++ +E 
Sbjct: 61  KADGKVKFEVKGPKNRKFISIEA 83

>d2zjrt1 b.84.4.1 (T:2-85) Ribosomal protein L27 {Deinococcus radiodurans [TaxId: 1299]} Length = 84

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Deinococcus radiodurans [TaxId: 1299]

 Score =  124 bits (314), Expect = 6e-39
 Identities = 50/85 (58%), Positives = 62/85 (72%), Gaps = 1/85 (1%)

Query: 45  ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYA 104
           A KK  GS+KNGRDS PK LGVKKFGGE V  GNI+VRQRGT+F  G  VGMG+DHTL+A
Sbjct: 1   AHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFA 60

Query: 105 LKEGRVKFEKHKLSGRKWVHVEPKE 129
           L +G+V F   K  G +++ +E  +
Sbjct: 61  LSDGKVVFIN-KGKGARFISIEAAQ 84

>d1v8qa_ b.84.4.1 (A:) Ribosomal protein L27 {Thermus thermophilus [TaxId: 274]} Length = 66

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Thermus thermophilus [TaxId: 274]

 Score =  103 bits (260), Expect = 7e-31
 Identities = 35/64 (54%), Positives = 47/64 (73%), Gaps = 1/64 (1%)

Query: 64  LGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWV 123
           LGVK++ G+ V  GNI+VRQRGTRF PG  VGMG+D TL+AL +G V+F+  +    ++V
Sbjct: 2   LGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQD-RGRLGRYV 60

Query: 124 HVEP 127
           HV P
Sbjct: 61  HVRP 64

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	153
d2zjrt1	84	Ribosomal protein L27 {Deinococcus radiodurans [Ta	100.0
d2gycu1	84	Ribosomal protein L27 {Escherichia coli [TaxId: 56	100.0
d1v8qa_	66	Ribosomal protein L27 {Thermus thermophilus [TaxId	100.0
d2ba0a2	51	Exosome complex RNA-binding protein 1, ECR1 {Archa	96.08
d2je6i2	59	Exosome complex RNA-binding protein 1, ECR1 {Sulfo	92.41
d2nn6h2	48	Ribosomal RNA-processing protein 4, RRP4 {Human (H	89.19
d2nn6i2	55	Exosome component 1, EXOSC1 {Human (Homo sapiens)	88.83

>d2zjrt1 b.84.4.1 (T:2-85) Ribosomal protein L27 {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Deinococcus radiodurans [TaxId: 1299]

Probab=100.00  E-value=2.1e-46  Score=270.11  Aligned_cols=84  Identities=58%  Similarity=0.967  Sum_probs=81.5

Q ss_pred             eeecccccCCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEE
Q 031785           45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVH  124 (153)
Q Consensus        45 A~KK~~GStkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~  124 (153)
                      ||||++|||+|||||+|||||||+++||+|.||+||||||||+||||+||||||||||||+++|+|+|++. .++|+||+
T Consensus         1 A~KK~~GSt~NgrdS~~krlGvK~~~Gq~V~~G~IivRQRGtk~hpG~nVg~GkD~TLfA~~~G~V~F~k~-~~~rk~V~   79 (84)
T d2zjrt1           1 AHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFALSDGKVVFINK-GKGARFIS   79 (84)
T ss_dssp             CCSSCSSCSSCCCCCCCCCCCCSSCTTCEECSSCEEECCSSSSSEECTTEECCTTSCEEESSCEEEEEEEE-TTTEEEEE
T ss_pred             CCccccCCCCCCCCCCCccceEEECCCEEEeCCcEEEEecCceEcCCCCccccCCCcEEEeeceEEEEEEc-CCCCEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999997 46899999


Q ss_pred             eEeCC
Q 031785          125 VEPKE  129 (153)
Q Consensus       125 V~p~~  129 (153)
                      |+|.|
T Consensus        80 V~p~e   84 (84)
T d2zjrt1          80 IEAAQ   84 (84)
T ss_dssp             ECCCC
T ss_pred             EEeCC
Confidence            99975

>d2gycu1 b.84.4.1 (U:1-84) Ribosomal protein L27 {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.5e-47  Score=276.02  Aligned_cols=84  Identities=58%  Similarity=0.991  Sum_probs=81.1

Q ss_pred             eeecccccCCCCCCCCCcccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEE
Q 031785           45 ATKKTAGSTKNGRDSKPKNLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVH  124 (153)
Q Consensus        45 A~KK~~GStkNGRdS~~KrLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~  124 (153)
                      ||||++|||+|||||+|||||||+|+||+|.||+||||||||+||||+||||||||||||+++|+|+|+++..++|+||+
T Consensus         1 A~KK~~GSs~NgrdS~~krLGvK~~~Gq~V~~G~IivRQRGtk~hPG~nVg~GkD~TLfAl~~G~V~F~~~~~~~r~~V~   80 (84)
T d2gycu1           1 AHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKFEVKGPKNRKFIS   80 (84)
T ss_dssp             CCCCSCCSCCCCCCCCCBCCCCSSSCCCSSCCSBSSCCCCCCSSCCCCCSSSCCCCCCCCCSCCCCSSSSSSCSCCCCCC
T ss_pred             CCccccccCCCCCCCCCccceeEEcCCEEEcCCcEEEEeccceEcCCCCeeecCCCeEEEeccEEEEEEEcCCCCCEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999987667899999


Q ss_pred             eEeC
Q 031785          125 VEPK  128 (153)
Q Consensus       125 V~p~  128 (153)
                      |+||
T Consensus        81 V~~e   84 (84)
T d2gycu1          81 IEAE   84 (84)
T ss_dssp             SSCC
T ss_pred             EEeC
Confidence            9875

>d1v8qa_ b.84.4.1 (A:) Ribosomal protein L27 {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: Ribosomal L27 protein
domain: Ribosomal protein L27
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=2.3e-36  Score=209.17  Aligned_cols=65  Identities=54%  Similarity=0.945  Sum_probs=62.5

Q ss_pred             ccceeeeCCeEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeC
Q 031785           63 NLGVKKFGGERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPK  128 (153)
Q Consensus        63 rLGvK~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~  128 (153)
                      |||+|+++||+|.||+||||||||+||||+||||||||||||+++|+|+|++.. ++|+||+|+|.
T Consensus         1 RLGvK~~~Gq~V~~G~IivRQRGtk~~pG~nVg~GkD~TLfAl~~G~V~F~~~~-~~~~~VsV~P~   65 (66)
T d1v8qa_           1 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRG-RLGRYVHVRPL   65 (66)
T ss_dssp             CCEECSCTTCEECTTCEEEECSSCSSEECTTEEECTTCCEEESSSEEEEEEECG-GGCEEEEEEEC
T ss_pred             CCccEEeCCEEEeCCeEEEEeccCeEeCCCCeeecCCCcEEEeeeeEEEEEEeC-CCCeEEEEEEC
Confidence            799999999999999999999999999999999999999999999999999874 68999999996

>d2ba0a2 b.84.4.2 (A:2-52) Exosome complex RNA-binding protein 1, ECR1 {Archaeoglobus fulgidus [TaxId: 2234]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: ECR1 N-terminal domain-like
domain: Exosome complex RNA-binding protein 1, ECR1
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.08  E-value=0.004  Score=39.12  Aligned_cols=49  Identities=22%  Similarity=0.302  Sum_probs=40.1

Q ss_pred             eEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEeCCC
Q 031785           72 ERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEG  130 (153)
Q Consensus        72 q~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~~  130 (153)
                      +.|.||++|.-  + .|.||.|+.+ .|..|+|.+-|.|...      -+.|+|.|..+
T Consensus         2 ~iV~PGe~i~~--~-~~~~G~Gty~-~~~~i~ss~~G~v~~~------n~~i~V~PL~g   50 (51)
T d2ba0a2           2 KIVLPGDLLST--N-PRAAGYGTYV-EGGKVYAKIIGLFDQT------ETHVRVIPLKG   50 (51)
T ss_dssp             CEECTTCEEES--C-TTSBCTTEEE-ETTEEEECSSEEEEEC------SSCEEEEECSS
T ss_pred             CEEcCCcEeec--C-CeeCCCCcEE-ECCEEEEEEEEEEEEE------CCEEEEEeCcc
Confidence            57999999975  4 4999999998 6789999999999753      34699998753

>d2je6i2 b.84.4.2 (I:7-65) Exosome complex RNA-binding protein 1, ECR1 {Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: ECR1 N-terminal domain-like
domain: Exosome complex RNA-binding protein 1, ECR1
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=92.41  E-value=0.11  Score=33.17  Aligned_cols=54  Identities=19%  Similarity=0.156  Sum_probs=38.7

Q ss_pred             eeCCeEeecCcEEeecccCeEeCCCCeeee-ccceEEEeeceEEEEEEecCCCceEEEeEeCCC
Q 031785           68 KFGGERVIPGNIIVRQRGTRFHPGDYVGMG-KDHTLYALKEGRVKFEKHKLSGRKWVHVEPKEG  130 (153)
Q Consensus        68 ~~~Gq~V~~G~IIvRQRGtkfhPG~NVg~G-rD~TLfAl~~G~V~f~~~~~~~rk~V~V~p~~~  130 (153)
                      .-+-+.|.||++|..  |..|. +.|.+.= .|..|||.+-|.|....+      .|+|.|.++
T Consensus         5 v~~r~iV~PGdvi~~--~~~~~-~~g~~ty~~~~ki~asv~G~v~~~nk------li~ViPL~G   59 (59)
T d2je6i2           5 LQPRSIVVPGELLAE--GEFQI-PWSPYILKINSKYYSTVVGLFDVKDT------QFEVIPLEG   59 (59)
T ss_dssp             CCSSCEECTTCEEEE--ECCCC-CCCTTEEEETTEEEECSSEEEEEETT------EEEEEESCC
T ss_pred             EcCCeEECCCcEeee--CCccc-cCCCEEEecCCEEEEEEEEEEEEECC------EEEEEECCC
Confidence            346689999999985  44444 3344432 458899999999998733      589998753

>d2nn6h2 b.84.4.2 (H:25-72) Ribosomal RNA-processing protein 4, RRP4 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: ECR1 N-terminal domain-like
domain: Ribosomal RNA-processing protein 4, RRP4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.19  E-value=0.15  Score=31.70  Aligned_cols=47  Identities=32%  Similarity=0.475  Sum_probs=37.7

Q ss_pred             eEeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeEe
Q 031785           72 ERVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVEP  127 (153)
Q Consensus        72 q~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~p  127 (153)
                      +.|.||+.|-.+-|  |.+|-+..+- |..|+|.+.|.|+-.      -|.|+|.|
T Consensus         1 ~iv~PGe~It~~~~--~mrGHGTy~~-~~~i~aSv~G~verv------NKLvsV~p   47 (48)
T d2nn6h2           1 HLVVPGDTITTDTG--FMRGHGTYMG-EEKLIASVAGSVERV------NKLICVKA   47 (48)
T ss_dssp             CBCCTTCBCCCCTT--CCBCTTEEEC-SSSEEECSSEEEEEE------TTEEEEEE
T ss_pred             CEecCCcEeecCCC--eEcccccEec-CCEEEEEEeeeEEEe------ccEEEEEc
Confidence            35889999987765  8999999984 889999999999433      35688877

>d2nn6i2 b.84.4.2 (I:6-60) Exosome component 1, EXOSC1 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Barrel-sandwich hybrid
superfamily: Ribosomal L27 protein-like
family: ECR1 N-terminal domain-like
domain: Exosome component 1, EXOSC1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.83  E-value=0.04  Score=35.11  Aligned_cols=50  Identities=16%  Similarity=0.145  Sum_probs=38.1

Q ss_pred             EeecCcEEeecccCeEeCCCCeeeeccceEEEeeceEEEEEEecCCCceEEEeE
Q 031785           73 RVIPGNIIVRQRGTRFHPGDYVGMGKDHTLYALKEGRVKFEKHKLSGRKWVHVE  126 (153)
Q Consensus        73 ~V~~G~IIvRQRGtkfhPG~NVg~GrD~TLfAl~~G~V~f~~~~~~~rk~V~V~  126 (153)
                      ++.||+.|-.-  -.|-||.|+.. ++..|||...|.|....+ .+....|+|.
T Consensus         2 ~~lPGe~L~~~--eey~~G~gTy~-~~g~I~as~~G~v~id~~-~~~isVisV~   51 (55)
T d2nn6i2           2 YCIPGERLCNL--EEGSPGSGTYT-RHGYIFSSLAGCLMKSSE-NGALPVVSVV   51 (55)
T ss_dssp             CCCTTCEEEET--TTCCCSSSCEE-ETTEEECCSCSCBCCCBC-TTSSBC-CBC
T ss_pred             cccCCcEEeeh--heecCCCCeEE-cCCEEEEEeeEEEEEecC-CCEeeEEEEE
Confidence            67899999886  45889999976 568899999999998654 3445555554