Citrus Sinensis ID: 041704

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80------
Protein Sequence
MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSVGRMSPEVSTSFSKSNDNESSS
Secondary Structure (PSIPRED)
cccccccccEEEEEEEEcccccccEEEEEEcccccEEEEEEEEccccccccccccccccEEEEcccccccEEEEEEEEcccccccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEEEEccEcccccEEEEEEEEEEccccEEEEEEccccccccccccccccEEEcccccccccEEEcEcccccccccc
Coil and Loop (DISEMBL)
msmsvrkddevqvvggtykgregkFVQIFAIFSGvkrdlvvsyepifdpriplepvghssvmssvgrmspevstsfsksndnesss
Flexible Loop (DISEMBL)
msmsvrkddevqvvggtykgregkfVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSVGrmspevstsfsksndnesss
Low Complexity Region (SEG)
MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSVGRMSPEVstsfsksndnesss
Disordered region (IsUnstruct)
***********QVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPL*********************************
Disordered Region (DISOPRED)
**MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP*I*************VGRMSP****************
Disordered Region (DISEMBL)
*********EVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHS***************************
Disordered Region (DISPRO)
****VRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSS**************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSVGRMSPEVSTSFSKSNDNESSS
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	86	2.2.26 [Sep-21-2011]
P51414	146	60S ribosomal protein L26	yes	no	0.569	0.335	0.483	1e-06
Q9FJX2	146	60S ribosomal protein L26	no	no	0.569	0.335	0.483	3e-06
Q39411	146	60S ribosomal protein L26	N/A	no	0.569	0.335	0.433	2e-05

>sp|P51414|RL261_ARATH 60S ribosomal protein L26-1 OS=Arabidopsis thaliana GN=RPL26A PE=2 SV=2

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/60 (48%), Positives = 37/60 (61%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM +RKDDEVQ+V GTYKGREGK VQ++      +R  V+  E     RI  E V  ++V
Sbjct: 46 SMPIRKDDEVQIVRGTYKGREGKVVQVY------RRKWVIHIE-----RITREKVNGTTV 94

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJX2|RL262_ARATH 60S ribosomal protein L26-2 OS=Arabidopsis thaliana GN=RPL26B PE=2 SV=1

 Score = 50.4 bits (119), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/60 (48%), Positives = 37/60 (61%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM +RKDDEVQVV GT+KGREGK +Q++      +R  V+  E     RI  E V  S+V
Sbjct: 46 SMPIRKDDEVQVVRGTFKGREGKVMQVY------RRKWVIHIE-----RITREKVNGSTV 94

Arabidopsis thaliana (taxid: 3702)

>sp|Q39411|RL26_BRARA 60S ribosomal protein L26 OS=Brassica rapa GN=RPL26 PE=2 SV=1

 Score = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/60 (43%), Positives = 35/60 (58%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM +RKDDE Q+V GTYKGREGK  Q++      +R  V+  E     R+  E V  ++V
Sbjct: 46 SMPIRKDDEXQIVRGTYKGREGKLXQVY------RRKXVIHIE-----RLTREKVNGTTV 94

Brassica rapa (taxid: 51350)

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	86
255568595	146	60S ribosomal protein L26, putative [Ric	0.569	0.335	0.533	1e-05
224081222	146	predicted protein [Populus trichocarpa]	0.569	0.335	0.533	2e-05
414877481	125	TPA: hypothetical protein ZEAMMB73_39442	0.581	0.4	0.491	2e-05
224096251	146	predicted protein [Populus trichocarpa]	0.569	0.335	0.516	3e-05
194466205	146	putative L24 ribosomal protein [Arachis	0.569	0.335	0.516	3e-05
224074251	146	predicted protein [Populus trichocarpa]	0.569	0.335	0.5	4e-05
414589496	125	TPA: hypothetical protein ZEAMMB73_17768	0.581	0.4	0.491	4e-05
449448216	146	PREDICTED: 60S ribosomal protein L26-1-l	0.569	0.335	0.5	4e-05
15229631	146	60S ribosomal protein L26-1 [Arabidopsis	0.569	0.335	0.483	4e-05
449460590	146	PREDICTED: 60S ribosomal protein L26-1-l	0.569	0.335	0.483	5e-05

>gi|255568595|ref|XP_002525271.1| 60S ribosomal protein L26, putative [Ricinus communis] gi|223535429|gb|EEF37099.1| 60S ribosomal protein L26, putative [Ricinus communis]

 Score = 53.9 bits (128), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 37/60 (61%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM VRKDDEVQVV GTYKGREGK VQ++      +R  V+  E     RI  E V  S+V
Sbjct: 46 SMPVRKDDEVQVVRGTYKGREGKVVQVY------RRKWVIHIE-----RITREKVNGSTV 94

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224081222|ref|XP_002306341.1| predicted protein [Populus trichocarpa] gi|118481457|gb|ABK92671.1| unknown [Populus trichocarpa] gi|222855790|gb|EEE93337.1| predicted protein [Populus trichocarpa]

 Score = 53.1 bits (126), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 32/60 (53%), Positives = 37/60 (61%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM VRKDDEVQVV GTYKGREGK VQ++      +R  V+  E     RI  E V  S+V
Sbjct: 46 SMPVRKDDEVQVVRGTYKGREGKVVQVY------RRKWVIHIE-----RITREKVNGSTV 94

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414877481|tpg|DAA54612.1| TPA: hypothetical protein ZEAMMB73_394428 [Zea mays]

 Score = 53.1 bits (126), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 30/61 (49%), Positives = 38/61 (62%), Gaps = 11/61 (18%)

Query: 1  MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSS 60
          +S+ +RKDDEVQVV GTYKGREGK VQ++      +R  V+  E     RI  E V  S+
Sbjct: 45 LSIPIRKDDEVQVVRGTYKGREGKVVQVY------RRRWVIHVE-----RITREKVNSST 93

Query: 61 V 61
          V
Sbjct: 94 V 94

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224096251|ref|XP_002310593.1| predicted protein [Populus trichocarpa] gi|118483302|gb|ABK93553.1| unknown [Populus trichocarpa] gi|222853496|gb|EEE91043.1| predicted protein [Populus trichocarpa]

 Score = 52.8 bits (125), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 31/60 (51%), Positives = 37/60 (61%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM +RKDDEVQVV GTYKGREGK VQ++      +R  V+  E     RI  E V  S+V
Sbjct: 46 SMPIRKDDEVQVVRGTYKGREGKVVQVY------RRKWVIHIE-----RITREKVNGSTV 94

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|194466205|gb|ACF74333.1| putative L24 ribosomal protein [Arachis hypogaea]

 Score = 52.4 bits (124), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 31/60 (51%), Positives = 37/60 (61%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM +RKDDEVQVV GTYKGREGK VQ++      +R  V+  E     RI  E V  S+V
Sbjct: 46 SMPIRKDDEVQVVRGTYKGREGKVVQVY------RRKWVIHIE-----RITREKVNGSTV 94

Source: Arachis hypogaea

Species: Arachis hypogaea

Genus: Arachis

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224074251|ref|XP_002304321.1| predicted protein [Populus trichocarpa] gi|118483998|gb|ABK93886.1| unknown [Populus trichocarpa] gi|222841753|gb|EEE79300.1| predicted protein [Populus trichocarpa]

 Score = 52.4 bits (124), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 37/60 (61%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM +RKDDE+QVV GTYKGREGK VQ++      +R  V+  E     RI  E V  S+V
Sbjct: 46 SMPIRKDDEIQVVRGTYKGREGKVVQVY------RRKWVIHVE-----RITREKVNGSTV 94

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414589496|tpg|DAA40067.1| TPA: hypothetical protein ZEAMMB73_177684 [Zea mays]

 Score = 52.4 bits (124), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 30/61 (49%), Positives = 38/61 (62%), Gaps = 11/61 (18%)

Query: 1  MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSS 60
          +S+ +RKDDEVQVV GTYKGREGK VQ++      +R  V+  E     RI  E V  S+
Sbjct: 45 LSIPIRKDDEVQVVRGTYKGREGKVVQVY------RRRWVIHIE-----RITREKVNGST 93

Query: 61 V 61
          V
Sbjct: 94 V 94

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449448216|ref|XP_004141862.1| PREDICTED: 60S ribosomal protein L26-1-like isoform 1 [Cucumis sativus] gi|449448218|ref|XP_004141863.1| PREDICTED: 60S ribosomal protein L26-1-like isoform 2 [Cucumis sativus] gi|449499863|ref|XP_004160937.1| PREDICTED: 60S ribosomal protein L26-1-like [Cucumis sativus]

 Score = 52.4 bits (124), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 30/60 (50%), Positives = 37/60 (61%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM +RKDDEVQVV GTYKGREGK VQ++      +R  ++  E     RI  E V  S+V
Sbjct: 46 SMPIRKDDEVQVVRGTYKGREGKVVQVY------RRKWIIHIE-----RITREKVNGSTV 94

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15229631|ref|NP_190560.1| 60S ribosomal protein L26-1 [Arabidopsis thaliana] gi|297816242|ref|XP_002876004.1| 60S ribosomal protein L26 [Arabidopsis lyrata subsp. lyrata] gi|27735242|sp|P51414.2|RL261_ARATH RecName: Full=60S ribosomal protein L26-1 gi|13877791|gb|AAK43973.1|AF370158_1 putative 60S ribosomal protein [Arabidopsis thaliana] gi|6723436|emb|CAB66929.1| 60S RIBOSOMAL PROTEIN-like [Arabidopsis thaliana] gi|16323426|gb|AAL15207.1| putative 60S ribosomal protein [Arabidopsis thaliana] gi|23397084|gb|AAN31827.1| putative 60S ribosomal protein [Arabidopsis thaliana] gi|297321842|gb|EFH52263.1| 60S ribosomal protein L26 [Arabidopsis lyrata subsp. lyrata] gi|332645084|gb|AEE78605.1| 60S ribosomal protein L26-1 [Arabidopsis thaliana]

 Score = 52.0 bits (123), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/60 (48%), Positives = 37/60 (61%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM +RKDDEVQ+V GTYKGREGK VQ++      +R  V+  E     RI  E V  ++V
Sbjct: 46 SMPIRKDDEVQIVRGTYKGREGKVVQVY------RRKWVIHIE-----RITREKVNGTTV 94

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449460590|ref|XP_004148028.1| PREDICTED: 60S ribosomal protein L26-1-like isoform 1 [Cucumis sativus] gi|449460592|ref|XP_004148029.1| PREDICTED: 60S ribosomal protein L26-1-like isoform 2 [Cucumis sativus] gi|449502744|ref|XP_004161730.1| PREDICTED: 60S ribosomal protein L26-1-like [Cucumis sativus]

 Score = 52.0 bits (123), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/60 (48%), Positives = 37/60 (61%), Gaps = 11/60 (18%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          SM +RKDDEVQV+ GTYKGREGK VQ++      +R  ++  E     RI  E V  S+V
Sbjct: 46 SMPIRKDDEVQVLRGTYKGREGKVVQVY------RRKWIIHIE-----RITREKVNGSTV 94

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	86
TAIR|locus:2097415	146	AT3G49910 [Arabidopsis thalian	0.325	0.191	0.75	3.8e-07
TAIR|locus:2158616	146	AT5G67510 [Arabidopsis thalian	0.325	0.191	0.714	1.6e-06
ASPGD|ASPL0000055788	134	AN0570 [Emericella nidulans (t	0.686	0.440	0.409	6.3e-05
UNIPROTKB|E1BRI9	104	RPL26L1 "Uncharacterized prote	0.325	0.269	0.655	8.1e-05
UNIPROTKB|F1NNZ1	87	RPL26L1 "Uncharacterized prote	0.325	0.321	0.655	8.1e-05
UNIPROTKB|F2Z4K6	145	RPL26L1 "Uncharacterized prote	0.325	0.193	0.655	8.1e-05
UNIPROTKB|P47832	128	RPL26 "60S ribosomal protein L	0.325	0.218	0.655	8.1e-05
UNIPROTKB|E1BCF5	148	RPL26L1 "Uncharacterized prote	0.325	0.189	0.655	8.1e-05
UNIPROTKB|G3MYC1	145	LOC100851858 "Uncharacterized	0.325	0.193	0.655	8.1e-05
UNIPROTKB|P61257	145	RPL26 "60S ribosomal protein L	0.325	0.193	0.655	8.1e-05

TAIR|locus:2097415 AT3G49910 [Arabidopsis thaliana (taxid:3702)]

 Score = 116 (45.9 bits), Expect = 3.8e-07, P = 3.8e-07
 Identities = 21/28 (75%), Positives = 25/28 (89%)

Query:     2 SMSVRKDDEVQVVGGTYKGREGKFVQIF 29
             SM +RKDDEVQ+V GTYKGREGK VQ++
Sbjct:    46 SMPIRKDDEVQIVRGTYKGREGKVVQVY 73

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

GO:0015934 "large ribosomal subunit" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=IDA

GO:0009409 "response to cold" evidence=IEP

GO:0009507 "chloroplast" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

TAIR|locus:2158616 AT5G67510 [Arabidopsis thaliana (taxid:3702)]

 Score = 110 (43.8 bits), Expect = 1.6e-06, P = 1.6e-06
 Identities = 20/28 (71%), Positives = 25/28 (89%)

Query:     2 SMSVRKDDEVQVVGGTYKGREGKFVQIF 29
             SM +RKDDEVQVV GT+KGREGK +Q++
Sbjct:    46 SMPIRKDDEVQVVRGTFKGREGKVMQVY 73

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM

GO:0015934 "large ribosomal subunit" evidence=IEA;ISS

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

ASPGD|ASPL0000055788 AN0570 [Emericella nidulans (taxid:162425)]

 Score = 95 (38.5 bits), Expect = 6.3e-05, P = 6.3e-05
 Identities = 25/61 (40%), Positives = 35/61 (57%)

Query:     2 SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
             S+ +RKDDEV +V GT KGREGK   ++ +   V  + VV  E      +PL P+  S V
Sbjct:    47 SIPIRKDDEVTIVRGTNKGREGKITSVYRLKWCVHVERVVR-EKSNGQSVPL-PIHPSKV 104

Query:    62 M 62
             +
Sbjct:   105 V 105

GO:0002181 "cytoplasmic translation" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005730 "nucleolus" evidence=IEA

GO:0022625 "cytosolic large ribosomal subunit" evidence=IEA

UNIPROTKB|E1BRI9 RPL26L1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 94 (38.1 bits), Expect = 8.1e-05, P = 8.1e-05
 Identities = 19/29 (65%), Positives = 24/29 (82%)

Query:     2 SMSVRKDDEVQVVGGTYKGRE-GKFVQIF 29
             SM +RKDDEVQVV G YKG++ GK VQ++
Sbjct:    46 SMPIRKDDEVQVVRGHYKGQQIGKVVQVY 74

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

GO:0006412 "translation" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

UNIPROTKB|F1NNZ1 RPL26L1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 94 (38.1 bits), Expect = 8.1e-05, P = 8.1e-05
 Identities = 19/29 (65%), Positives = 24/29 (82%)

Query:     2 SMSVRKDDEVQVVGGTYKGRE-GKFVQIF 29
             SM +RKDDEVQVV G YKG++ GK VQ++
Sbjct:    29 SMPIRKDDEVQVVRGHYKGQQIGKVVQVY 57

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

GO:0006412 "translation" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

UNIPROTKB|F2Z4K6 RPL26L1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 94 (38.1 bits), Expect = 8.1e-05, P = 8.1e-05
 Identities = 19/29 (65%), Positives = 24/29 (82%)

Query:     2 SMSVRKDDEVQVVGGTYKGRE-GKFVQIF 29
             SM +RKDDEVQVV G YKG++ GK VQ++
Sbjct:    46 SMPIRKDDEVQVVRGHYKGQQIGKVVQVY 74

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

GO:0006412 "translation" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0022625 "cytosolic large ribosomal subunit" evidence=IEA

GO:0042273 "ribosomal large subunit biogenesis" evidence=IEA

UNIPROTKB|P47832 RPL26 "60S ribosomal protein L26" [Gallus gallus (taxid:9031)]

 Score = 94 (38.1 bits), Expect = 8.1e-05, P = 8.1e-05
 Identities = 19/29 (65%), Positives = 24/29 (82%)

Query:     2 SMSVRKDDEVQVVGGTYKGRE-GKFVQIF 29
             SM +RKDDEVQVV G YKG++ GK VQ++
Sbjct:    29 SMPIRKDDEVQVVRGHYKGQQIGKVVQVY 57

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

GO:0006412 "translation" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0022625 "cytosolic large ribosomal subunit" evidence=IEA

GO:0042273 "ribosomal large subunit biogenesis" evidence=IEA

UNIPROTKB|E1BCF5 RPL26L1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 94 (38.1 bits), Expect = 8.1e-05, P = 8.1e-05
 Identities = 19/29 (65%), Positives = 24/29 (82%)

Query:     2 SMSVRKDDEVQVVGGTYKGRE-GKFVQIF 29
             SM +RKDDEVQVV G YKG++ GK VQ++
Sbjct:    46 SMPIRKDDEVQVVRGHYKGQQIGKVVQVY 74

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|G3MYC1 LOC100851858 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 94 (38.1 bits), Expect = 8.1e-05, P = 8.1e-05
 Identities = 19/29 (65%), Positives = 24/29 (82%)

Query:     2 SMSVRKDDEVQVVGGTYKGRE-GKFVQIF 29
             SM +RKDDEVQVV G YKG++ GK VQ++
Sbjct:    46 SMPIRKDDEVQVVRGHYKGQQIGKVVQVY 74

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|P61257 RPL26 "60S ribosomal protein L26" [Bos taurus (taxid:9913)]

 Score = 94 (38.1 bits), Expect = 8.1e-05, P = 8.1e-05
 Identities = 19/29 (65%), Positives = 24/29 (82%)

Query:     2 SMSVRKDDEVQVVGGTYKGRE-GKFVQIF 29
             SM +RKDDEVQVV G YKG++ GK VQ++
Sbjct:    46 SMPIRKDDEVQVVRGHYKGQQIGKVVQVY 74

GO:0042273 "ribosomal large subunit biogenesis" evidence=IEA

GO:0022625 "cytosolic large ribosomal subunit" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" 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	86
PTZ00194	143	PTZ00194, PTZ00194, 60S ribosomal protein L26; Pro	3e-07
TIGR01080	114	TIGR01080, rplX_A_E, ribosomal protein L24p/L26e,	2e-05
COG0198	104	COG0198, RplX, Ribosomal protein L24 [Translation,	2e-04
PRK00004	105	PRK00004, rplX, 50S ribosomal protein L24; Reviewe	7e-04

>gnl|CDD|185508 PTZ00194, PTZ00194, 60S ribosomal protein L26; Provisional

 Score = 44.4 bits (105), Expect = 3e-07
 Identities = 18/28 (64%), Positives = 21/28 (75%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIF 29
          SM VRKDDEV VV G +KGREGK   ++
Sbjct: 44 SMPVRKDDEVMVVRGHHKGREGKVTAVY 71

Length = 143

>gnl|CDD|130152 TIGR01080, rplX_A_E, ribosomal protein L24p/L26e, archaeal/eukaryotic

 Score = 39.4 bits (92), Expect = 2e-05
 Identities = 11/27 (40%), Positives = 20/27 (74%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQI 28
          ++ VRK D+V+++ G +KG EGK  ++
Sbjct: 39 ALPVRKGDKVRIMRGDFKGHEGKVSKV 65

This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by related model TIGR01079 [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 114

>gnl|CDD|223276 COG0198, RplX, Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]

 Score = 36.5 bits (85), Expect = 2e-04
 Identities = 13/29 (44%), Positives = 20/29 (68%)

Query: 1  MSMSVRKDDEVQVVGGTYKGREGKFVQIF 29
          M M V+K D V+V+ G  KG+EGK +++ 
Sbjct: 1  MKMKVKKGDTVKVIAGKDKGKEGKVLKVL 29

Length = 104

>gnl|CDD|234566 PRK00004, rplX, 50S ribosomal protein L24; Reviewed

 Score = 35.1 bits (82), Expect = 7e-04
 Identities = 11/29 (37%), Positives = 18/29 (62%)

Query: 1  MSMSVRKDDEVQVVGGTYKGREGKFVQIF 29
          M M ++K D V V+ G  KG+ GK +++ 
Sbjct: 1  MMMKIKKGDTVIVIAGKDKGKRGKVLKVL 29

Length = 105

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	86
PTZ00194	143	60S ribosomal protein L26; Provisional	99.84
PRK01191	120	rpl24p 50S ribosomal protein L24P; Validated	99.81
TIGR01080	114	rplX_A_E ribosomal protein L24p/L26e, archaeal/euk	99.8
COG0198	104	RplX Ribosomal protein L24 [Translation, ribosomal	99.78
PRK00004	105	rplX 50S ribosomal protein L24; Reviewed	99.72
PRK12281	76	rplX 50S ribosomal protein L24; Reviewed	99.7
CHL00141	83	rpl24 ribosomal protein L24; Validated	99.7
TIGR01079	104	rplX_bact ribosomal protein L24, bacterial/organel	99.67
KOG3401	145	consensus 60S ribosomal protein L26 [Translation,	99.43
KOG1708	236	consensus Mitochondrial/chloroplast ribosomal prot	98.77
PF00467	32	KOW: KOW motif; InterPro: IPR005824 Ribosomes are	98.7
smart00739	28	KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif i	97.67
TIGR00405	145	L26e_arch ribosomal protein L24p/L26e, archaeal. T	96.98
TIGR00922	172	nusG transcription termination/antitermination fac	96.86
PRK05609	181	nusG transcription antitermination protein NusG; V	96.78
PRK08559	153	nusG transcription antitermination protein NusG; V	96.58
COG0250	178	NusG Transcription antiterminator [Transcription]	95.94
TIGR01955	159	RfaH transcriptional activator RfaH. This model re	95.61
PRK09014	162	rfaH transcriptional activator RfaH; Provisional	94.65
TIGR01956	258	NusG_myco NusG family protein. This model represen	94.45
PRK04333	84	50S ribosomal protein L14e; Validated	89.67
KOG1999	1024	consensus RNA polymerase II transcription elongati	89.0

>PTZ00194 60S ribosomal protein L26; Provisional

Probab=99.84  E-value=2.3e-21  Score=139.78  Aligned_cols=65  Identities=37%  Similarity=0.528  Sum_probs=62.6

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----ccCCCccEEEeeccCCc
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----PVGHSSVMSSVGRMSPE   71 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----pV~~snvmi~~~~~~~~   71 (86)
                      |+++|++||+|+|++|+|||++|+|++|+      +++++|+|||||+.|+||+    |+++|||||+.+.++|+
T Consensus        43 Rs~~IkkGD~V~Vi~Gk~KGk~GkV~~V~------~k~~~ViVEgvn~~Kk~gk~~e~PIh~SNV~iv~l~l~~~  111 (143)
T PTZ00194         43 RSMPVRKDDEVMVVRGHHKGREGKVTAVY------RKKWVIHIEKITREKANGEPVQIGIHPSNVIITKLKLNKD  111 (143)
T ss_pred             ccceeecCCEEEEecCCCCCCceEEEEEE------cCCCEEEEeCeEEEecCCCEeecCcCchheEEEccccCch
Confidence            58999999999999999999999999999      9999999999999999999    78899999999999887

>PRK01191 rpl24p 50S ribosomal protein L24P; Validated

Probab=99.81  E-value=3.1e-20  Score=130.64  Aligned_cols=66  Identities=32%  Similarity=0.385  Sum_probs=62.8

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----ccCCCccEEEeeccCCce
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----PVGHSSVMSSVGRMSPEV   72 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----pV~~snvmi~~~~~~~~~   72 (86)
                      ++++|++||+|+|++|+|||++|+|++|+      +++++|+|||||+.+++|.    |++.||||++++.|+|+.
T Consensus        42 r~~~IkkGD~V~VisG~~KGk~GkV~~V~------~~~~~V~VeGvn~~k~~G~~~e~pIh~SNV~l~~l~l~~~~  111 (120)
T PRK01191         42 RSLPVRKGDTVKVMRGDFKGEEGKVVEVD------LKRGRIYVEGVTVKKADGTEVPRPIHPSNVMITKLDLSDER  111 (120)
T ss_pred             ccceEeCCCEEEEeecCCCCceEEEEEEE------cCCCEEEEeCcEEECCCCeEEEcccchhHeEEEeCccCCHH
Confidence            47899999999999999999999999999      9999999999999999887    899999999999999875

>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic

Probab=99.80  E-value=7.5e-20  Score=127.21  Aligned_cols=67  Identities=25%  Similarity=0.410  Sum_probs=63.0

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----ccCCCccEEEeeccCCcee
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----PVGHSSVMSSVGRMSPEVS   73 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----pV~~snvmi~~~~~~~~~~   73 (86)
                      ++|+|++||+|+|++|+|||++|+|++|+      +++++|+|||||+.|.+|.    |++.||||++.+.++|++-
T Consensus        38 r~~~IkkGD~V~Vi~Gk~KGk~GkV~~V~------~~~~~V~Vegvn~~k~~G~~~e~pIh~SnV~l~~l~l~~~~R  108 (114)
T TIGR01080        38 RALPVRKGDKVRIMRGDFKGHEGKVSKVD------LKRYRIYVEGVTKEKVNGTEVPVPIHPSNVMITKLNLDDEKR  108 (114)
T ss_pred             ccceeecCCEEEEecCCCCCCEEEEEEEE------cCCCEEEEcCeEEECCCCeEEEeeechHHeEEEeccCChHHH
Confidence            47899999999999999999999999999      9999999999999998877    8899999999999999853

This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by the related TIGR01079.

>COG0198 RplX Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]

Probab=99.78  E-value=3.5e-19  Score=122.74  Aligned_cols=59  Identities=31%  Similarity=0.469  Sum_probs=55.9

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc---------------ccCCCccEEEe
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE---------------PVGHSSVMSSV   65 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~---------------pV~~snvmi~~   65 (86)
                      |+++||+||+|.|++|++||++|+|++++      +++  |+|||||+.++|++               |++.|||||+.
T Consensus         1 ~~~~IrkGD~V~Vi~GkdKGk~GkVl~v~------~k~--V~VEGvnv~kkh~k~~~~~~~ggii~~EapIh~SnV~i~~   72 (104)
T COG0198           1 MKMKVKKGDTVKVIAGKDKGKEGKVLKVL------PKK--VVVEGVNVVKKHIKPSQENPEGGIINKEAPIHISNVAIID   72 (104)
T ss_pred             CCcceecCCEEEEEecCCCCcceEEEEEe------cCe--EEEECcEEEEecCCCCCcCCCCceeeeeecccHHHeEEec
Confidence            68999999999999999999999999999      877  99999999999998               78899999999


Q ss_pred             ec
Q 041704           66 GR   67 (86)
Q Consensus        66 ~~   67 (86)
                      ..
T Consensus        73 ~~   74 (104)
T COG0198          73 PN   74 (104)
T ss_pred             cc
Confidence            84

>PRK00004 rplX 50S ribosomal protein L24; Reviewed

Probab=99.72  E-value=2e-17  Score=112.46  Aligned_cols=71  Identities=24%  Similarity=0.322  Sum_probs=61.6

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCC---------Cc------ccCCCccEEEe
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIP---------LE------PVGHSSVMSSV   65 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~---------g~------pV~~snvmi~~   65 (86)
                      |.++|++||+|+|++|++||++|+|++|+      +++++|+|||+|+.++|         |.      |++.||||+..
T Consensus         1 ~~~~i~kGD~V~Vi~G~dKGk~G~V~~V~------~~~~~V~Vegvn~~k~h~k~~~~~~~G~i~~~e~pI~~SnV~lv~   74 (105)
T PRK00004          1 MMMKIKKGDTVIVIAGKDKGKRGKVLKVL------PKKNKVIVEGVNIVKKHQKPNQENPQGGIIEKEAPIHISNVALVD   74 (105)
T ss_pred             CCCcccCCCEEEEeEcCCCCcEEEEEEEE------cCCCEEEEcCcEEEEEecCCCCCCCCCceEEEECCcCHHHEEEEe
Confidence            56899999999999999999999999999      99999999999999887         22      89999999999


Q ss_pred             eccCCceeeeee
Q 041704           66 GRMSPEVSTSFS   77 (86)
Q Consensus        66 ~~~~~~~~~~~~   77 (86)
                      ..+.+.....|.
T Consensus        75 p~~~~~~rv~~~   86 (105)
T PRK00004         75 PKTGKATRVGFK   86 (105)
T ss_pred             CcCCCCeEEEEE
Confidence            877654444443

>PRK12281 rplX 50S ribosomal protein L24; Reviewed

Probab=99.70  E-value=1.6e-17  Score=108.13  Aligned_cols=57  Identities=26%  Similarity=0.424  Sum_probs=50.5

Q ss_pred             cccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc---------------ccCCCccEEE
Q 041704            2 SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE---------------PVGHSSVMSS   64 (86)
Q Consensus         2 Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~---------------pV~~snvmi~   64 (86)
                      .|+|++||+|+|++|+|||++|+|++|+      +++++|+|||+|+.++|.+               |++.|||+..
T Consensus         4 ~~~I~kGD~V~Vi~G~dKGK~G~V~~V~------~~~~~V~Vegvn~~kkh~kp~~~~~~G~i~~~e~pI~~SnV~l~   75 (76)
T PRK12281          4 KLKVKKGDMVKVIAGDDKGKTGKVLAVL------PKKNRVIVEGVKIAKKAIKPSQKNPNGGFIEKEMPIHISNVKKV   75 (76)
T ss_pred             cccccCCCEEEEeEcCCCCcEEEEEEEE------cCCCEEEEcCcEEEEEEcCCCccCCCCCEEEEEcCcCHHHceec
Confidence            5899999999999999999999999999      9999999999999877753               6667777653

>CHL00141 rpl24 ribosomal protein L24; Validated

Probab=99.70  E-value=2.2e-17  Score=108.84  Aligned_cols=59  Identities=27%  Similarity=0.362  Sum_probs=52.9

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc---------------ccCCCccEEEe
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE---------------PVGHSSVMSSV   65 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~---------------pV~~snvmi~~   65 (86)
                      +.|+|++||+|+|++|+|||++|+|++|+      +++++|+|||+|+.++|.+               |++.|||++.+
T Consensus         5 ~~~~I~~GD~V~Vi~G~dKGK~G~V~~V~------~~~~~V~Vegvn~~~k~~k~~~~~~~g~i~~~e~pI~~SnV~lvd   78 (83)
T CHL00141          5 KKMHVKIGDTVKIISGSDKGKIGEVLKII------KKSNKVIVKGINIKFKHIKPNKENEVGEIKQFEAPIHSSNVMLYN   78 (83)
T ss_pred             eeCcccCCCEEEEeEcCCCCcEEEEEEEE------cCCCEEEEcCcEEEEEEcCCccCCCCCCEEEEECCCCHHHEEEeC
Confidence            36899999999999999999999999999      9999999999998775432               78889999975

>TIGR01079 rplX_bact ribosomal protein L24, bacterial/organelle

Probab=99.67  E-value=1.7e-16  Score=108.22  Aligned_cols=61  Identities=26%  Similarity=0.403  Sum_probs=56.0

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----------------ccCCCccEEEee
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----------------PVGHSSVMSSVG   66 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----------------pV~~snvmi~~~   66 (86)
                      |+|++||+|+|++|++||++|+|++|+      +++++|+|||+|+.++|.+                |++.||||+...
T Consensus         2 ~~ikkGD~V~Vi~G~dKGK~G~V~~V~------~~~~~V~VegvN~~kkh~k~~~~~~~~g~i~~~e~pI~~SnV~lv~p   75 (104)
T TIGR01079         2 MKIKKGDTVKVISGKDKGKRGKVLKVL------PKTNKVIVEGVNMVKKHVKPKPTQRSQGGIIEKEAPIHISNVMLFDP   75 (104)
T ss_pred             CcccCCCEEEEeEcCCCCcEEEEEEEE------cCCCEEEECCcEEEEEecCcccCCCCCCceEEEEccCCHHHeEEEcC
Confidence            689999999999999999999999999      9999999999999998864                899999999885


Q ss_pred             ccC
Q 041704           67 RMS   69 (86)
Q Consensus        67 ~~~   69 (86)
                      .+.
T Consensus        76 ~~~   78 (104)
T TIGR01079        76 KTG   78 (104)
T ss_pred             cCC
Confidence            443

This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes.

>KOG3401 consensus 60S ribosomal protein L26 [Translation, ribosomal structure and biogenesis]

Probab=99.43  E-value=7.4e-14  Score=101.44  Aligned_cols=64  Identities=33%  Similarity=0.495  Sum_probs=59.7

Q ss_pred             CcccccCCCEEEEeeccCCC-eeeeEEEEEeccccCcccceEEEeceecccCCCc----ccCCCccEEEeeccCC
Q 041704            1 MSMSVRKDDEVQVVGGTYKG-REGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----PVGHSSVMSSVGRMSP   70 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KG-k~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----pV~~snvmi~~~~~~~   70 (86)
                      ++|||+++|+|+|.+|+++| ++|+|+++|      ++++.+++|.|+.+|++|.    ++++|.++||++.+|.
T Consensus        45 rs~pir~ddev~v~rg~~kG~q~G~v~~vy------rKk~~iyie~v~~eK~nGt~v~vgihPsK~~iTkl~lDk  113 (145)
T KOG3401|consen   45 RSMPIRKDDEVQVVRGHFKGFQIGKVSQVY------RKKYVIYIERVQREKANGTTVPVGIHPSKVVITKLKLDK  113 (145)
T ss_pred             cccceeeccEEEEEeccccccccceehhhh------hhhheeeeEeEEEeeccCcccccccCccceeecccchhh
Confidence            58999999999999999999 779999999      9999999999999999999    5669999999988764

>KOG1708 consensus Mitochondrial/chloroplast ribosomal protein L24 [Translation, ribosomal structure and biogenesis]

Probab=98.77  E-value=1e-08  Score=79.31  Aligned_cols=59  Identities=22%  Similarity=0.232  Sum_probs=50.7

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc---------------ccCCCc-cEEEee
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE---------------PVGHSS-VMSSVG   66 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~---------------pV~~sn-vmi~~~   66 (86)
                      +++..||.|+|+.|++||++|.|+++.      +....|+|+|+|...+|-.               |.+.|| ||+.+-
T Consensus        71 w~ff~GDtVeVlvGkDkGkqG~Vtqv~------r~~s~VvV~gln~k~r~~gsekeg~pgtivk~EaPlhvsk~VmLvdp  144 (236)
T KOG1708|consen   71 WHFFFGDTVEVLVGKDKGKQGEVTQVI------RHRSWVVVKGLNTKYRHMGSEKEGEPGTIVKSEAPLHVSKQVMLVDP  144 (236)
T ss_pred             eeEecCCEEEEEecccCCccceEEEEe------ecCceEEEcccchhhhhhcccccCCCceEEeecCCceecceeEEECc
Confidence            467789999999999999999999999      9999999999997665522               777888 888765


Q ss_pred             c
Q 041704           67 R   67 (86)
Q Consensus        67 ~   67 (86)
                      +
T Consensus       145 ~  145 (236)
T KOG1708|consen  145 E  145 (236)
T ss_pred             c
Confidence            4

>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.70  E-value=3.8e-08  Score=54.20  Aligned_cols=32  Identities=38%  Similarity=0.646  Sum_probs=30.1

Q ss_pred             CCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            7 KDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         7 KgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      +||.|+|++|+|+|++|+|++++      +.+.+|+||
T Consensus         1 ~Gd~V~V~~G~~~G~~G~I~~i~------~~~~~V~ve   32 (32)
T PF00467_consen    1 VGDTVKVISGPFKGKIGKIVEID------RSKVRVTVE   32 (32)
T ss_dssp             TTSEEEESSSTTTTEEEEEEEEE------TTTTEEEES
T ss_pred             CCCEEEEeEcCCCCceEEEEEEE------CCCCEEEEC
Confidence            69999999999999999999999      998888876

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 [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....

>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif

Probab=97.67  E-value=8.4e-05  Score=38.11  Aligned_cols=26  Identities=31%  Similarity=0.640  Sum_probs=23.9

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEE
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIF   29 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~   29 (86)
                      +++.||.|+|+.|.++|++|.|++++
T Consensus         1 ~~~~G~~V~I~~G~~~g~~g~i~~i~   26 (28)
T smart00739        1 KFEVGDTVRVIAGPFKGKVGKVLEVD   26 (28)
T ss_pred             CCCCCCEEEEeECCCCCcEEEEEEEc
Confidence            36789999999999999999999886

Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.

>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal

Probab=96.98  E-value=0.0021  Score=44.27  Aligned_cols=39  Identities=26%  Similarity=0.474  Sum_probs=34.3

Q ss_pred             ccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecc
Q 041704            5 VRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP   49 (86)
Q Consensus         5 IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~   49 (86)
                      ++.||.|.|+.|.++|.+|.|.+++      ..+..+.++-.+..
T Consensus        87 ~~~Gd~V~I~~GPf~G~~g~v~~~d------~~k~~v~v~l~~~~  125 (145)
T TIGR00405        87 IKKGDIVEIISGPFKGERAKVIRVD------ESKEEVTLELIEAA  125 (145)
T ss_pred             cCCCCEEEEeecCCCCCeEEEEEEc------CCCCEEEEEEEEcC
Confidence            6799999999999999999999999      77778888866643

This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.

>TIGR00922 nusG transcription termination/antitermination factor NusG

Probab=96.86  E-value=0.0026  Score=44.43  Aligned_cols=35  Identities=11%  Similarity=0.190  Sum_probs=30.8

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      .++.||.|.|+.|.++|.+|.|.+++      +.+.++.|+
T Consensus       119 ~~~~G~~V~I~~Gpf~G~~g~v~~~~------~~~~r~~V~  153 (172)
T TIGR00922       119 DFEVGEQVRVNDGPFANFTGTVEEVD------YEKSKLKVS  153 (172)
T ss_pred             CCCCCCEEEEeecCCCCcEEEEEEEc------CCCCEEEEE
Confidence            47899999999999999999999998      777676665

Archaeal proteins once termed NusG share the KOW domain but are actually a ribosomal protein corresponding to L24p in bacterial and L26e in eukaryotes (TIGR00405).

>PRK05609 nusG transcription antitermination protein NusG; Validated

Probab=96.78  E-value=0.0033  Score=44.01  Aligned_cols=36  Identities=11%  Similarity=0.193  Sum_probs=31.2

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      ..++.||.|.|+.|.++|.+|.|.+++      +.+.++.|+
T Consensus       125 ~~~~~Gd~VrI~~GPf~G~~g~v~~i~------~~~~r~~v~  160 (181)
T PRK05609        125 VDFEVGEMVRVIDGPFADFNGTVEEVD------YEKSKLKVL  160 (181)
T ss_pred             cCCCCCCEEEEeccCCCCCEEEEEEEe------CCCCEEEEE
Confidence            457899999999999999999999998      767666665

>PRK08559 nusG transcription antitermination protein NusG; Validated

Probab=96.58  E-value=0.0056  Score=43.24  Aligned_cols=40  Identities=20%  Similarity=0.424  Sum_probs=35.5

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecc
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP   49 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~   49 (86)
                      .++.||.|.|+.|.++|.+|.|.+++      ..+.++.++-++..
T Consensus        94 ~~~~G~~V~I~~Gpf~g~~g~V~~vd------~~k~~v~v~ll~~~  133 (153)
T PRK08559         94 GIKEGDIVELIAGPFKGEKARVVRVD------ESKEEVTVELLEAA  133 (153)
T ss_pred             CCCCCCEEEEeccCCCCceEEEEEEc------CCCCEEEEEEECCc
Confidence            57899999999999999999999999      88888988876543

>COG0250 NusG Transcription antiterminator [Transcription]

Probab=95.94  E-value=0.014  Score=42.96  Aligned_cols=35  Identities=17%  Similarity=0.317  Sum_probs=30.9

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      -+..||.|.|+.|.|+|..|+|..++      ..+.++.|+
T Consensus       123 ~~e~Gd~VrI~~GpFa~f~g~V~evd------~ek~~~~v~  157 (178)
T COG0250         123 DFEPGDVVRIIDGPFAGFKAKVEEVD------EEKGKLKVE  157 (178)
T ss_pred             cCCCCCEEEEeccCCCCccEEEEEEc------CcCcEEEEE
Confidence            46889999999999999999999999      777766665

>TIGR01955 RfaH transcriptional activator RfaH

Probab=95.61  E-value=0.028  Score=38.63  Aligned_cols=26  Identities=27%  Similarity=0.415  Sum_probs=24.3

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEE
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIF   29 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~   29 (86)
                      .++.||.|.|+.|.++|.+|.|.+++
T Consensus       108 ~~~~G~~V~V~~GPf~g~~g~v~~~~  133 (159)
T TIGR01955       108 LPYKGDKVRITDGAFAGFEAIFLEPD  133 (159)
T ss_pred             CCCCCCEEEEeccCCCCcEEEEEEEC
Confidence            46899999999999999999999987

This model represents the transcriptional activator protein, RfaH. This protein is most closely related to the transcriptional termination/antitermination protein NusG (TIGR00922) and contains the KOW motif (pfam00467). This protein appears to be limited to the gamma proteobacteria. In E. coli, this gene appears to control the expression of haemolysin, sex factor and lipopolysaccharide genes.

>PRK09014 rfaH transcriptional activator RfaH; Provisional

Probab=94.65  E-value=0.058  Score=37.52  Aligned_cols=26  Identities=15%  Similarity=0.377  Sum_probs=24.0

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEE
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIF   29 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~   29 (86)
                      .++.||.|+|+.|.++|.+|.|.+++
T Consensus       109 ~~~~G~~V~I~~Gp~~g~eg~v~~~~  134 (162)
T PRK09014        109 TPKPGDKVIITEGAFEGLQAIYTEPD  134 (162)
T ss_pred             CCCCCCEEEEecCCCCCcEEEEEEeC
Confidence            36789999999999999999999987

>TIGR01956 NusG_myco NusG family protein

Probab=94.45  E-value=0.091  Score=41.39  Aligned_cols=36  Identities=28%  Similarity=0.358  Sum_probs=30.7

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      ..+..||.|.|+.|.++|.+|.|..++      ..+.++.|.
T Consensus       204 ~~f~vGd~VrI~dGPF~GfeG~I~eid------~~k~Rv~Vl  239 (258)
T TIGR01956       204 SKFRVGNFVKIVDGPFKGIVGKIKKID------QEKKKAIVE  239 (258)
T ss_pred             cCCCCCCEEEEEecCCCCcEEEEEEEe------CCCCEEEEE
Confidence            346799999999999999999999998      666666654

This model represents a family of Mycoplasma proteins orthologous to the bacterial transcription termination/antitermination factor NusG. These sequences from Mycoplasma are notably diverged (long branches in a Neighbor-joining phylogenetic tree) from the bacterial species. And although NusA and ribosomal protein S10 (NusE) appear to be present, NusB may be absent in Mycoplasmas calling into question whether these species have a functional Nus system including this family as a member.

>PRK04333 50S ribosomal protein L14e; Validated

Probab=89.67  E-value=1.5  Score=29.01  Aligned_cols=56  Identities=11%  Similarity=0.009  Sum_probs=39.7

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCcccCCCccEEEe
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSV   65 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~pV~~snvmi~~   65 (86)
                      +.+..|--|.+..|.|+|+..-|+.+.      . +.+++|.|-......-+..+...+..|.
T Consensus         2 ~~v~~GrvV~~~~Grd~gk~~vIv~i~------d-~~~vlVdg~~~~~~~rk~kn~khl~lt~   57 (84)
T PRK04333          2 PAIEVGRVCVKTAGREAGRKCVIVDII------D-KNFVLVTGPSLTGVKRRRCNIKHLEPTD   57 (84)
T ss_pred             CcccccEEEEEeccCCCCCEEEEEEEe------c-CCEEEEECCCcCCCCCeeechHHEEEee
Confidence            467889999999999999999998885      3 5788888874322333344444555554

>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]

Probab=89.00  E-value=0.52  Score=43.31  Aligned_cols=26  Identities=31%  Similarity=0.583  Sum_probs=24.4

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEE
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIF   29 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~   29 (86)
                      .++.||-|+|++|.|+|.+|-|++|+
T Consensus       459 yF~~GDhVKVi~G~~eG~tGlVvrVe  484 (1024)
T KOG1999|consen  459 YFEPGDHVKVIAGRYEGDTGLVVRVE  484 (1024)
T ss_pred             hccCCCeEEEEeccccCCcceEEEEe
Confidence            46789999999999999999999998

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	86
3izr_Y	150	Localization Of The Large Subunit Ribosomal Protein		9e-07
2zkr_t	145	Structure Of A Mammalian Ribosomal 60s Subunit With		6e-04

>pdb|3IZR|Y Chain Y, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 150

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 29/60 (48%), Positives = 37/60 (61%), Gaps = 11/60 (18%)
Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSV 61
          S+ +RKDDEVQVV G+YKGREGK VQ++      +R  V+  E     RI  E V  S+V
Sbjct: 46 SIPIRKDDEVQVVRGSYKGREGKVVQVY------RRRWVIHVE-----RITREKVNGSTV 94

>pdb|2ZKR|TT Chain t, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 145

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 19/29 (65%), Positives = 24/29 (82%), Gaps = 1/29 (3%)
Query: 2  SMSVRKDDEVQVVGGTYKGRE-GKFVQIF 29
          SM +RKDDEVQVV G YKG++ GK VQ++
Sbjct: 46 SMPIRKDDEVQVVRGHYKGQQIGKVVQVY 74

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	86
1vq8_T	120	50S ribosomal protein L24P; ribosome 50S, protein-	5e-05
3u5e_Y	127	L33, YL33, 60S ribosomal protein L26-A; translatio	7e-05
4a17_S	135	RPL26, 60S ribosomal protein L21; eukaryotic ribos	8e-05
3iz5_Y	150	60S ribosomal protein L26 (L24P); eukaryotic ribos	2e-04
3v2d_Y	110	50S ribosomal protein L24; ribosome associated inh	4e-04
2zjr_R	115	50S ribosomal protein L24; ribosome, large ribosom	8e-04

>1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ... Length = 120

 Score = 37.9 bits (88), Expect = 5e-05
 Identities = 8/28 (28%), Positives = 16/28 (57%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQIF 29
          ++ V   D V+V+ G + G EG+ + + 
Sbjct: 40 NVRVNAGDTVEVLRGDFAGEEGEVINVD 67

>3u5e_Y L33, YL33, 60S ribosomal protein L26-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_L 2ww9_L 2wwb_L 3o5h_X 3o58_X 3u5i_Y 1s1i_U 3izc_Y 3izs_Y 3jyw_U Length = 127

 Score = 37.7 bits (87), Expect = 7e-05
 Identities = 13/27 (48%), Positives = 20/27 (74%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQI 28
          ++ +R+DDEV VV G+ KG+EGK   +
Sbjct: 47 ALPIRRDDEVLVVRGSKKGQEGKISSV 73

>4a17_S RPL26, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_S 4a1c_S 4a1e_S Length = 135

 Score = 37.3 bits (86), Expect = 8e-05
 Identities = 16/27 (59%), Positives = 20/27 (74%)

Query: 2  SMSVRKDDEVQVVGGTYKGREGKFVQI 28
          SM VRKDDEV +V G +KG +GK  Q+
Sbjct: 46 SMPVRKDDEVLIVRGKFKGNKGKVTQV 72

>3v2d_Y 50S ribosomal protein L24; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_S 2hgj_X 2hgq_X 2hgu_X 1vsa_S 2j03_Y 2jl6_Y 2jl8_Y 2v47_Y 2v49_Y 2wdi_Y 2wdj_Y 2wdl_Y 2wdn_Y 2wh2_Y 2wh4_Y 2wrj_Y 2wrl_Y 2wro_Y 2wrr_Y ... Length = 110

 Score = 35.3 bits (82), Expect = 4e-04
 Identities = 13/29 (44%), Positives = 17/29 (58%)

Query: 1  MSMSVRKDDEVQVVGGTYKGREGKFVQIF 29
          + M V+K D V V  G YKGR GK  ++ 
Sbjct: 3  VKMHVKKGDTVLVASGKYKGRVGKVKEVL 31

>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S* 1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R* 3pio_R* 3pip_R* 1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V 1voy_V 1vp0_V Length = 115

 Score = 34.5 bits (80), Expect = 8e-04
 Identities = 9/27 (33%), Positives = 15/27 (55%)

Query: 3  MSVRKDDEVQVVGGTYKGREGKFVQIF 29
          +  +K D V V+ G +KG+ GK +   
Sbjct: 14 LHFKKGDTVIVLSGKHKGQTGKVLLAL 40

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	86
3u5e_Y	127	L33, YL33, 60S ribosomal protein L26-A; translatio	99.87
4a17_S	135	RPL26, 60S ribosomal protein L21; eukaryotic ribos	99.85
3iz5_Y	150	60S ribosomal protein L26 (L24P); eukaryotic ribos	99.84
3j21_U	121	50S ribosomal protein L24P; archaea, archaeal, KIN	99.83
1vq8_T	120	50S ribosomal protein L24P; ribosome 50S, protein-	99.79
2zjr_R	115	50S ribosomal protein L24; ribosome, large ribosom	99.76
3v2d_Y	110	50S ribosomal protein L24; ribosome associated inh	99.76
2zkr_t	145	60S ribosomal protein L26; protein-RNA complex, 60	99.75
3r8s_U	102	50S ribosomal protein L24; protein biosynthesis, R	99.73
3bbo_W	191	Ribosomal protein L24; large ribosomal subunit, sp	99.66
2ftc_N	96	Mitochondrial ribosomal protein L24; mitochondrial	99.64
1nz9_A	58	Transcription antitermination protein NUSG; transc	98.08
3p8b_B	152	Transcription antitermination protein NUSG; transc	97.41
2ckk_A	127	KIN17; beta barrel, ribosomal protein, ribonucleop	96.95
2e6z_A	59	Transcription elongation factor SPT5; KOW motif, s	96.95
2do3_A	69	Transcription elongation factor SPT5; KOW motif, s	96.83
2jvv_A	181	Transcription antitermination protein NUSG; transc	96.61
2xhc_A	352	Transcription antitermination protein NUSG; 2.45A	94.71
1m1h_A	248	Transcription antitermination protein NUSG; transc	92.92
3iz5_N	134	60S ribosomal protein L14 (L14E); eukaryotic ribos	91.18
2e70_A	71	Transcription elongation factor SPT5; KOW motif, s	89.78
2joy_A	96	50S ribosomal protein L14E; protein solution struc	89.45
3j21_5	83	50S ribosomal protein L14E; archaea, archaeal, KIN	88.51
3izc_N	138	60S ribosomal protein RPL14 (L14E); eukaryotic rib	88.5
4a18_F	126	RPL14; ribosome, eukaryotic initiation factor 6, E	87.13

>3u5e_Y L33, YL33, 60S ribosomal protein L26-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_L 2ww9_L 2wwb_L 3o5h_X 3o58_X 3u5i_Y 4b6a_Y 1s1i_U 3izc_Y 3izs_Y 3jyw_U

Probab=99.87  E-value=1.6e-22  Score=142.18  Aligned_cols=65  Identities=23%  Similarity=0.442  Sum_probs=61.8

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----ccCCCccEEEeeccCCc
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----PVGHSSVMSSVGRMSPE   71 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----pV~~snvmi~~~~~~~~   71 (86)
                      |+|+||+||+|+|++|+|||++|+|++|+      +++++|+|||||++|.+|.    |+++|||||+.+.++++
T Consensus        46 rs~~IkkgD~V~Vi~GkdKGk~GkV~~V~------~kk~~V~VEgVn~~K~~G~~~e~pIh~SNV~i~~~~~dk~  114 (127)
T 3u5e_Y           46 KALPIRRDDEVLVVRGSKKGQEGKISSVY------RLKFAVQVDKVTKEKVNGASVPINLHPSKLVITKLHLDKD  114 (127)
T ss_dssp             CEEECCTTCEEEECSSTTTTCEEEEEEEE------GGGTEEEEETCEEECSSSCEEECCBCGGGEEEEECCCCHH
T ss_pred             CcccccCCCEEEEeecCCCCccceEEEEE------CCCCEEEEeCeEEECCCCcEEEcccchHHEEEEccccCcH
Confidence            58999999999999999999999999999      9999999999999999998    89999999999999753

>4a17_S RPL26, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_S 4a1c_S 4a1e_S

Probab=99.85  E-value=5.3e-22  Score=140.85  Aligned_cols=64  Identities=31%  Similarity=0.549  Sum_probs=61.0

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----ccCCCccEEEeeccCC
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----PVGHSSVMSSVGRMSP   70 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----pV~~snvmi~~~~~~~   70 (86)
                      |+|+||+||+|+|++|+|||++|+|++|+      +++++|+|||||++|++|.    |+++|||||+.+.+++
T Consensus        45 Rs~~IkkgD~V~Vi~GkdKGk~GkV~~V~------~kk~~V~VEgVn~~K~~G~~~e~pIh~SNV~i~~~k~dk  112 (135)
T 4a17_S           45 RSMPVRKDDEVLIVRGKFKGNKGKVTQVY------RKKWAIHVEKISKNKLNGAPYQIPLSASQLVLTKLKLDK  112 (135)
T ss_dssp             SEEECCTTCEEEECSSTTTTCEEEEEEEE------TTTTEEEETTCCEEETTTEEECCCBCGGGEEEEECCCCH
T ss_pred             CcccccCCCEEEEeecCCCCceeeEEEEE------cCCCEEEEeCeEEEcCCCCEEEcccchHHEEEEcccCCc
Confidence            58999999999999999999999999999      9999999999999999997    8899999999998864

>3j21_U 50S ribosomal protein L24P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.83  E-value=5.2e-21  Score=133.10  Aligned_cols=65  Identities=28%  Similarity=0.360  Sum_probs=61.4

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----ccCCCccEEEeeccCCc
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----PVGHSSVMSSVGRMSPE   71 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----pV~~snvmi~~~~~~~~   71 (86)
                      ++|+|++||+|+|++|+|||++|+|++|+      +++++|+|||||+.++||.    |++.|||||+...+.|.
T Consensus        42 r~~~IkkGD~V~Vi~GkdKGk~GkV~~V~------~k~~~V~VEgvn~~k~~G~~~e~pIh~SNV~l~~~~~~d~  110 (121)
T 3j21_U           42 RNLPVRVGDKVRIMRGDYKGHEGKVVEVD------LKRYRIYVEGATLRKTNGTEVFYPIHPSNVMIIELNLEDE  110 (121)
T ss_dssp             SEEECCSSSEEEECSSSCSSEEEEEEEEE------TTTTEEEETTCEEECSSSCEEECCBCGGGEEEEECCCCCH
T ss_pred             cccccccCCEEEEeecCCCCcEeEEEEEE------ecCCEEEEeCeEEEecCCcEEEcccCHHHeEEEcCccCCc
Confidence            47899999999999999999999999999      9999999999999999987    88999999999988664

>1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ...

Probab=99.79  E-value=8.8e-20  Score=126.88  Aligned_cols=65  Identities=23%  Similarity=0.334  Sum_probs=59.5

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----ccCCCccEEEeeccCCc
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----PVGHSSVMSSVGRMSPE   71 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----pV~~snvmi~~~~~~~~   71 (86)
                      ++|+|++||+|+|++|+|||++|+|++|+      +++++|+|||||+.|.+|.    |++.|||||+.+.+++.
T Consensus        39 r~~~IkkGD~V~Vi~G~dKGk~GkV~~V~------~k~~~V~VEgvn~kK~~Gg~~e~pIh~SNV~i~~~~~~k~  107 (120)
T 1vq8_T           39 RNVRVNAGDTVEVLRGDFAGEEGEVINVD------LDKAVIHVEDVTLEKTDGEEVPRPLDTSNVRVTDLDLEDE  107 (120)
T ss_dssp             SEEECCTTCEEEECSSTTTTCEEEEEEEE------TTTTEEEETTCEEECSSSCEEECCBCGGGEEEEECCCCCH
T ss_pred             ccccccCCCEEEEEecCCCCCEEEEEEEE------CCCCEEEEeCeEeEcCCCCEEEeeechHHEEEEeccCCCc
Confidence            57899999999999999999999999999      9999999999999766665    89999999999888653

>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S* 1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R* 3pio_R* 3pip_R* 1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V 1voy_V 1vp0_V

Probab=99.76  E-value=5e-19  Score=121.72  Aligned_cols=64  Identities=23%  Similarity=0.234  Sum_probs=57.5

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc---------------ccCCCccEEEe
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE---------------PVGHSSVMSSV   65 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~---------------pV~~snvmi~~   65 (86)
                      ++|+|++||+|+|++|+|||++|+|++|+      +++++|+|||+|+.++|.+               |++.||||+.+
T Consensus        12 rkm~IkkGD~V~Vi~GkdKGk~GkV~~V~------~~~~~V~VEGvN~~kkh~kp~~~~~~Ggiv~~e~PIh~SNV~lv~   85 (115)
T 2zjr_R           12 DKLHFKKGDTVIVLSGKHKGQTGKVLLAL------PRDQKVVVEGVNVITKNVKPSMTNPQGGQEQRELALHASKVALVD   85 (115)
T ss_dssp             SCCSSCTTSEEECCSSSSTTCEEEEEEEE------TTTTEEEESSSCBCCCCCCTTSSSCCCCCCCBCCCBCSSSEECBS
T ss_pred             eeCcccCCCEEEEeEcCCCCcEEEEEEEE------CCCCEEEEeCcEeEEEecCCCcCCCCCCEEEEEcccCHHHEEEEe
Confidence            47899999999999999999999999999      9999999999999987632               88899999997


Q ss_pred             eccCC
Q 041704           66 GRMSP   70 (86)
Q Consensus        66 ~~~~~   70 (86)
                      ..+..
T Consensus        86 p~~~k   90 (115)
T 2zjr_R           86 PETGK   90 (115)
T ss_dssp             SSSBC
T ss_pred             ccCCC
Confidence            65543

>3v2d_Y 50S ribosomal protein L24; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_S 2hgj_X 2hgq_X 2hgu_X 1vsa_S 2j03_Y 2jl6_Y 2jl8_Y 2v47_Y 2v49_Y 2wdi_Y 2wdj_Y 2wdl_Y 2wdn_Y 2wh2_Y 2wh4_Y 2wrj_Y 2wrl_Y 2wro_Y 2wrr_Y ...

Probab=99.76  E-value=9.6e-19  Score=119.93  Aligned_cols=63  Identities=29%  Similarity=0.399  Sum_probs=56.4

Q ss_pred             cccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc---------------ccCCCccEEEee
Q 041704            2 SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE---------------PVGHSSVMSSVG   66 (86)
Q Consensus         2 Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~---------------pV~~snvmi~~~   66 (86)
                      .|+|++||+|+|++|+|||++|+|++|+      +++++|+|||||+.++|.+               |++.||||+...
T Consensus         4 k~~IkkGD~V~Vi~GkdKGk~GkV~~V~------~~~~~ViVEGvN~~kkh~kp~~~~~~Ggi~~~E~PIh~SNV~lv~p   77 (110)
T 3v2d_Y            4 KMHVKKGDTVLVASGKYKGRVGKVKEVL------PKKYAVIVEGVNIVKKAVRVSPKYPQGGFIEKEAPLHASKVRPICP   77 (110)
T ss_dssp             CCSCCTTSEEEECSSTTTTCEEEEEEEE------GGGTEEEETTSSEEEEECCSSSSSTTCCEEEEECCEEGGGEEEBCT
T ss_pred             ccccCCCCEEEEeEcCCCCeEeEEEEEE------CCCCEEEEeCEEEEEEEeCCCccCCCCCEEEEECCcCHHHeEEEcC
Confidence            5899999999999999999999999999      9999999999999986532               888999999976


Q ss_pred             ccCC
Q 041704           67 RMSP   70 (86)
Q Consensus        67 ~~~~   70 (86)
                      ....
T Consensus        78 ~~~k   81 (110)
T 3v2d_Y           78 ACGK   81 (110)
T ss_dssp             TTCS
T ss_pred             cCCC
Confidence            5443

>2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=99.75  E-value=1.1e-18  Score=124.64  Aligned_cols=65  Identities=35%  Similarity=0.559  Sum_probs=58.4

Q ss_pred             CcccccCCCEEEEeeccCCCee-eeEEEEEeccccCcccceEEEeceecccCCCc----ccCCCccEEEeeccCCc
Q 041704            1 MSMSVRKDDEVQVVGGTYKGRE-GKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----PVGHSSVMSSVGRMSPE   71 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~-GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----pV~~snvmi~~~~~~~~   71 (86)
                      |+|+|++||+|+||+|+|||++ |+|++|+      +++++|+|||||+.|.+|.    |++.|||||++..+++.
T Consensus        45 r~~~IkkGD~V~Vi~GkdKGk~~GkV~~V~------~k~~~V~VEgvn~~Kp~G~~~e~PIh~SNV~lv~~~~~k~  114 (145)
T 2zkr_t           45 RSMPIRKDDEVQVVRGHYKGQQIGKVVQVY------RKKYVIYIERVQREKANGTTVHVGIHPSKVVITRLKLDKD  114 (145)
T ss_dssp             -CCBCCTTCEEEECSSTTTTCCSEEEEEEE------TTTTEEEETTCEEECSSCCEEECCBCGGGEEECC-CCCHH
T ss_pred             cccccCCCCEEEEeecCCCCcceeEEEEEE------CCCCEEEEeeeEeEcCCCceEEeccCHHHEEEEcCcCCch
Confidence            5799999999999999999999 9999999      9999999999999888775    89999999998876543

>3r8s_U 50S ribosomal protein L24; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2j28_U* 3fik_U 3j19_U 2wwq_U 3oat_U* 3oas_U* 3ofd_U 3ofc_U 3ofr_U* 3ofz_U* 3og0_U 3ofq_U 3r8t_U 3i1n_U 1vs8_U 1vs6_U 1vt2_U 3i1p_U 3i1r_U 3i1t_U ...

Probab=99.73  E-value=2.3e-18  Score=116.62  Aligned_cols=59  Identities=27%  Similarity=0.276  Sum_probs=53.9

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----------------ccCCCccEEEee
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----------------PVGHSSVMSSVG   66 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----------------pV~~snvmi~~~   66 (86)
                      ++|++||+|+|++|+|||++|+|++|+      ++ ++|+|||+|+.++|++                |++.||||+...
T Consensus         2 ~~IkkGD~V~Vi~GkdKGk~GkV~~V~------~~-~~ViVeGvN~~kkh~kp~~~~~~~Ggi~~~E~PIh~SNV~lv~p   74 (102)
T 3r8s_U            2 AKIRRDDEVIVLTGKDKGKRGKVKNVL------SS-GKVIVEGINLVKKHQKPVPALNQPGGIVEKEAAIQVSNVAIFNA   74 (102)
T ss_dssp             CSSCSSCEEEECSSSSTTCEEEEEEEE------TT-TEEEETTCSEEEEEECCCSSSSCSCEEEEEECCEEGGGEEEEET
T ss_pred             CCccCCCEEEEeEcCCCCeeeEEEEEE------eC-CEEEEeCeEEEEeccccCcccCCCCCEEEEECCcCHHHEEEEcC
Confidence            489999999999999999999999999      99 9999999999999985                666799999976


Q ss_pred             cc
Q 041704           67 RM   68 (86)
Q Consensus        67 ~~   68 (86)
                      ..
T Consensus        75 ~~   76 (102)
T 3r8s_U           75 AT   76 (102)
T ss_dssp             TT
T ss_pred             cC
Confidence            43

>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=99.66  E-value=1e-17  Score=124.49  Aligned_cols=60  Identities=23%  Similarity=0.297  Sum_probs=53.8

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc---------------ccCCCccEEEeec
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE---------------PVGHSSVMSSVGR   67 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~---------------pV~~snvmi~~~~   67 (86)
                      |+|++||+|+|++|+|||++|+|++|+      +++++|+|||||+.++|.+               |++.||||+.+..
T Consensus        67 mkIkKGD~V~VIaGkDKGK~GkVl~V~------~k~~rViVEGVN~vkKH~Kp~~~~~~GgIv~kEaPIhiSNV~Lvdp~  140 (191)
T 3bbo_W           67 RHVKVGDTVKVISGGEKGKIGEISKIH------KHNSTVIIKDLNFKTKHVKSKEEGEQGQIIKIEAAIHSSNVMLILKE  140 (191)
T ss_dssp             CCSCCSSCEEECSSSSTTCCCSCCCCC------SSSCCCCCSSCCCCCCBCCSCCSSSCCBSSCCCCCCCGGGEEECSSS
T ss_pred             CeeecCCEEEEeecCCCCceEEEEEEE------CCCCEEEEeCCEEEEEecCCcccCCCCCEEEEecCcCHHHeEEEecc
Confidence            349999999999999999999999999      9999999999999997533               7889999999754


Q ss_pred             c
Q 041704           68 M   68 (86)
Q Consensus        68 ~   68 (86)
                      .
T Consensus       141 ~  141 (191)
T 3bbo_W          141 Q  141 (191)
T ss_dssp             S
T ss_pred             C
Confidence            3

>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_N

Probab=99.64  E-value=3.3e-16  Score=104.96  Aligned_cols=57  Identities=21%  Similarity=0.229  Sum_probs=50.7

Q ss_pred             CCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc--------------ccCCCccEEEeeccCC
Q 041704            8 DDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE--------------PVGHSSVMSSVGRMSP   70 (86)
Q Consensus         8 gDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~--------------pV~~snvmi~~~~~~~   70 (86)
                      ||+|+|++|+|||++|+|++|+      +++++|+|||+|+.++|.+              |++.||||+.+.....
T Consensus         1 GD~V~Vi~GkdKGk~GkV~~V~------~~~~~ViVeGvN~~kkh~kp~~~~~Ggiv~~e~pIh~SNV~lv~p~~~k   71 (96)
T 2ftc_N            1 GDTVEILEGKDAGKQGKVVQVI------RQRNWVVVGGLNTHYRYIGKTMDYRGTMIPSEAPLLHRQVKLVDPMDRK   71 (96)
T ss_pred             CCEEEEeEcCCCCcEEEEEEEE------CCCCEEEEeCCEEEEEEcCCCCCCCCCEEEEecCcCHHHEEEEeCcCCC
Confidence            8999999999999999999999      9999999999999986432              7889999999765543

>1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4

Probab=98.08  E-value=5.3e-06  Score=49.14  Aligned_cols=36  Identities=25%  Similarity=0.360  Sum_probs=32.6

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      +++++||.|.|+.|.++|.+|+|.+++      +.+.++.|+
T Consensus         3 ~~~~~Gd~V~V~~Gpf~g~~g~v~~v~------~~k~~v~V~   38 (58)
T 1nz9_A            3 VAFREGDQVRVVSGPFADFTGTVTEIN------PERGKVKVM   38 (58)
T ss_dssp             CSCCTTCEEEECSGGGTTCEEEEEEEE------TTTTEEEEE
T ss_pred             cccCCCCEEEEeecCCCCcEEEEEEEc------CCCCEEEEE
Confidence            578899999999999999999999999      887777765

>3p8b_B Transcription antitermination protein NUSG; transcription elongation factor, RNA polymerase, transferase transcription complex; 1.80A {Pyrococcus furiosus} PDB: 3qqc_D

Probab=97.41  E-value=0.00032  Score=47.76  Aligned_cols=57  Identities=21%  Similarity=0.138  Sum_probs=41.6

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCcccCCCccEEEe
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSV   65 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~pV~~snvmi~~   65 (86)
                      ..++.||.|.|+.|.++|.+|.|.+++      ..+.++.|+=.-.-+.---+++.++|....
T Consensus        90 ~~~~~Gd~VrI~~Gpf~g~~g~V~~vd------~~k~~v~V~v~~~gr~tpvel~~~~v~~i~  146 (152)
T 3p8b_B           90 SGLEPGDLVEVIAGPFKGQKAKVVKID------ESKDEVVVQFIDAIVPIPVTIKGDYVRLIS  146 (152)
T ss_dssp             TTCCTTCEEEECSSTTTTCEEEEEEEE------TTTTEEEEEESSCSSCCEEEEEGGGEEEEE
T ss_pred             ccCCCCCEEEEeeecCCCCEEEEEEEe------CCCCEEEEEEEecceeEEEEECHHHEEEec
Confidence            457899999999999999999999999      888887777433322212244466666544

>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear protein; 1.45A {Homo sapiens}

Probab=96.95  E-value=0.0013  Score=45.10  Aligned_cols=35  Identities=20%  Similarity=0.459  Sum_probs=31.1

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      .| ++|+.|.|+.|+|+|+.|+++.++      ..++.+.|+
T Consensus        70 iP-~~g~~V~Iv~G~~rG~~g~L~~id------~~~~~~~V~  104 (127)
T 2ckk_A           70 IP-APGKRILVLNGGYRGNEGTLESIN------EKTFSATIV  104 (127)
T ss_dssp             CC-CTTCEEEECSSTTTTCEEEEEEEE------GGGTEEEEE
T ss_pred             cC-CCCCEEEEEecccCCcEEEEEEEe------CCCcEEEEE
Confidence            35 789999999999999999999999      887777765

>2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.95  E-value=0.00055  Score=41.24  Aligned_cols=36  Identities=17%  Similarity=0.292  Sum_probs=30.7

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      ..+..||.|.|+.|.++|-+|+|..++      ..+.+|.++
T Consensus         6 ~~f~~GD~V~V~~Gpf~g~~G~V~evd------~e~v~V~v~   41 (59)
T 2e6z_A            6 SGFQPGDNVEVCEGELINLQGKILSVD------GNKITIMPK   41 (59)
T ss_dssp             SSCCTTSEEEECSSTTTTCEEEECCCB------TTEEEEEEC
T ss_pred             ccCCCCCEEEEeecCCCCCEEEEEEEe------CCEEEEEEE
Confidence            467899999999999999999999999      655566665

>2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5

Probab=96.83  E-value=0.0012  Score=42.03  Aligned_cols=26  Identities=27%  Similarity=0.579  Sum_probs=24.4

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEE
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIF   29 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~   29 (86)
                      ..+.||-|+|++|+|+|.+|-|+++.
T Consensus        17 ~F~~GDHVkVi~G~~~getGlVV~v~   42 (69)
T 2do3_A           17 YFKMGDHVKVIAGRFEGDTGLIVRVE   42 (69)
T ss_dssp             SCCTTCEEEESSSTTTTCEEEEEEEC
T ss_pred             eccCCCeEEEeccEEcCceEEEEEEe
Confidence            56789999999999999999999997

>2jvv_A Transcription antitermination protein NUSG; transcription factor, transcription regulation, transcription termination; NMR {Escherichia coli} PDB: 2k06_A 2kvq_G

Probab=96.61  E-value=0.0028  Score=43.97  Aligned_cols=34  Identities=12%  Similarity=0.129  Sum_probs=29.6

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEE
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSY   43 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~V   43 (86)
                      .+..||.|.|+.|.++|.+|.|.+++      ..+.++.|
T Consensus       127 ~~~~Gd~V~V~~GPf~g~~G~v~~v~------~~k~r~~V  160 (181)
T 2jvv_A          127 LFEPGEMVRVNDGPFADFNGVVEEVD------YEKSRLKV  160 (181)
T ss_dssp             CCCTTEEEEECSSTTTTEEEEEEEEE------TTTTEEEE
T ss_pred             cCCCCCEEEEeccCCCCcEEEEEEEe------CCCCEEEE
Confidence            56799999999999999999999999      77666544

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

Probab=94.71  E-value=0.043  Score=42.89  Aligned_cols=35  Identities=14%  Similarity=0.276  Sum_probs=30.0

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      .+..||.|.|+.|.++|.+|.|.+++      ..+.++.|.
T Consensus       298 ~f~~Gd~VrV~~GPF~G~~G~V~evd------~ek~rv~V~  332 (352)
T 2xhc_A          298 GFKVGDMVKIISGPFEDFAGVIKEID------PERQELKVN  332 (352)
T ss_dssp             CCCTTCEEEECSSTTTTCEEEEEEEE------TTTTEEEEE
T ss_pred             cCCCCCEEEEeccCCCCcEEEEEEEc------CCCCEEEEE
Confidence            46789999999999999999999999      776665553

>1m1h_A Transcription antitermination protein NUSG; transcription termination, RNP motif, immunoglobulin fold, nucleic acid interaction; 1.95A {Aquifex aeolicus} SCOP: b.114.1.1 d.58.42.1 PDB: 1m1g_A 1npp_A 1npr_A

Probab=92.92  E-value=0.018  Score=43.01  Aligned_cols=35  Identities=17%  Similarity=0.332  Sum_probs=0.0

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      .+..||.|.|+.|.++|.+|.|.+++      +.+.++.|.
T Consensus       194 ~~~~Gd~V~I~~Gpf~g~~G~v~ev~------~~k~~~~V~  228 (248)
T 1m1h_A          194 EFEKGDQVRVIEGPFMNFTGTVEEVH------PEKRKLTVM  228 (248)
T ss_dssp             -----------------------------------------
T ss_pred             cCCCCCEEEEeccCCCCcEEEEEEEe------CCCCEEEEE
Confidence            46789999999999999999999998      766555443

>2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.78  E-value=0.4  Score=30.43  Aligned_cols=29  Identities=24%  Similarity=0.357  Sum_probs=24.8

Q ss_pred             CCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            8 DDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         8 gDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      |-+|.|..|.|||..|.|..+.        +..+.||
T Consensus        21 GktV~I~kGpyKG~~GiVkd~t--------~~~~RVE   49 (71)
T 2e70_A           21 GQTVRISQGPYKGYIGVVKDAT--------ESTARVE   49 (71)
T ss_dssp             TSEEEECSSTTTTCEEEEEEEC--------SSCEEEE
T ss_pred             CCEEEEeccCCCCeEEEEEECC--------CCeEEEE
Confidence            5689999999999999999998        4566666

>2joy_A 50S ribosomal protein L14E; protein solution structure, structural genomics, PSI-2, protein structure initiative; NMR {Sulfolobus solfataricus} SCOP: b.34.5.7 PDB: 2kds_A

Probab=89.45  E-value=0.98  Score=29.26  Aligned_cols=59  Identities=15%  Similarity=0.088  Sum_probs=45.1

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecc-cCCCcccCCCccEEEeeccC
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP-RIPLEPVGHSSVMSSVGRMS   69 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~-K~~g~pV~~snvmi~~~~~~   69 (86)
                      -+..|-.|.+.+|.|+|+.--|+++.      . .+.++|.|.... -.+-+.++...++.|....+
T Consensus         3 ~v~~GrVv~~~~Gr~~Gk~~VIv~~i------D-~~~vLV~gp~~~~~~~rk~~n~khl~~T~~~vd   62 (96)
T 2joy_A            3 AIEVGRICVKVKGREAGSKCVIVDII------D-DNFVLVTGPKDITGVKRRRVNILHLEPTDKKID   62 (96)
T ss_dssp             SSSTTEEEECSSSSTTCCEEEEEEEC------S-SSCEEEECCTTTTCCCCEEESCSSCEEEEEECC
T ss_pred             ccccCEEEEEeecCCCCCEEEEEEEe------C-CCEEEEECCcccCCcCCEEEchHHEEEeeEEEe
Confidence            36789899999999999998888885      3 567888887422 22346788888999987664

>3j21_5 50S ribosomal protein L14E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=88.51  E-value=0.8  Score=29.26  Aligned_cols=58  Identities=10%  Similarity=0.074  Sum_probs=43.1

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCcccCCCccEEEeecc
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSVGRM   68 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~pV~~snvmi~~~~~   68 (86)
                      -+..|-.|.+.+|.|+|+..-|+.+.      . +.+++|.|....+.+-+.++...+..|....
T Consensus         3 ~~~~Grvv~~~~Gr~~Gk~~vIv~ii------D-~~~vlV~g~~~~~v~rk~kn~khl~lt~~~i   60 (83)
T 3j21_5            3 AIDVGRIAVVIAGRRAGQKVVVVDII------D-KNFVLVTGAGLNKVKRRRMNIKHIEPLPQKI   60 (83)
T ss_dssp             CCCTTEEEECSSSSSSCCCEEEEEEC------S-SSCEEEECCTTTTCCCEEESCSSCEEEEEEC
T ss_pred             ccccCEEEEEeecCCCCCEEEEEEEc------C-CCEEEEECCccCccCCeEechHHEEEeeEEE
Confidence            36788899999999999999999875      3 4688888875333344566677777777654

>4a18_F RPL14; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_F 4a1b_F 4a1d_F 4adx_7

Probab=87.13  E-value=1  Score=31.26  Aligned_cols=55  Identities=16%  Similarity=0.093  Sum_probs=44.5

Q ss_pred             ccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCcccCCCccEEEeeccC
Q 041704            5 VRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSVGRMS   69 (86)
Q Consensus         5 IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~pV~~snvmi~~~~~~   69 (86)
                      |..|=.|.+..|.|.|+...|+.|.      - .+++.|+|..+++   +.++...+++|++-.+
T Consensus         7 vevGRVv~i~~G~~aGklavIVdII------D-~nrvLVdGp~V~R---q~~n~k~l~LT~~~v~   61 (126)
T 4a18_F            7 VQVGRVVYINYGADKGKLAVIVNII------N-QNRILIDGEHIVR---QVIPIRRVHLTKFQID   61 (126)
T ss_dssp             EETTEEEEECSSTTTTEEEEEEEEE------T-TTEEEEEETTEEE---EEEEGGGEEEEEEECT
T ss_pred             eecceEEEEccCCccCCEEEEEEEe------c-CCeEEEeCCCccc---ceeeccceEEcceecc
Confidence            5667788899999999999999987      3 4799999987332   4788889999988765

---

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	86
d1vqot1	119	b.34.5.1 (T:1-119) Ribosomal proteins L24 (L24p) {	1e-06
d2j01y1	101	b.34.5.1 (Y:2-102) Ribosomal proteins L24 (L24p) {	3e-04
d2zjrr1	110	b.34.5.1 (R:4-113) Ribosomal proteins L24 (L24p) {	0.001
d2gycs1	99	b.34.5.1 (S:3-101) Ribosomal proteins L24 (L24p) {	0.004

>d1vqot1 b.34.5.1 (T:1-119) Ribosomal proteins L24 (L24p) {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 119

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 40.8 bits (96), Expect = 1e-06
 Identities = 8/29 (27%), Positives = 16/29 (55%)

Query: 1  MSMSVRKDDEVQVVGGTYKGREGKFVQIF 29
           ++ V   D V+V+ G + G EG+ + + 
Sbjct: 38 RNVRVNAGDTVEVLRGDFAGEEGEVINVD 66

>d2j01y1 b.34.5.1 (Y:2-102) Ribosomal proteins L24 (L24p) {Thermus thermophilus [TaxId: 274]} Length = 101

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Thermus thermophilus [TaxId: 274]

 Score = 34.3 bits (79), Expect = 3e-04
 Identities = 13/27 (48%), Positives = 16/27 (59%)

Query: 3  MSVRKDDEVQVVGGTYKGREGKFVQIF 29
          M V+K D V V  G YKGR GK  ++ 
Sbjct: 4  MHVKKGDTVLVASGKYKGRVGKVKEVL 30

>d2zjrr1 b.34.5.1 (R:4-113) Ribosomal proteins L24 (L24p) {Deinococcus radiodurans [TaxId: 1299]} Length = 110

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Deinococcus radiodurans [TaxId: 1299]

 Score = 33.2 bits (76), Expect = 0.001
 Identities = 9/27 (33%), Positives = 15/27 (55%)

Query: 3  MSVRKDDEVQVVGGTYKGREGKFVQIF 29
          +  +K D V V+ G +KG+ GK +   
Sbjct: 11 LHFKKGDTVIVLSGKHKGQTGKVLLAL 37

>d2gycs1 b.34.5.1 (S:3-101) Ribosomal proteins L24 (L24p) {Escherichia coli [TaxId: 562]} Length = 99

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Escherichia coli [TaxId: 562]

 Score = 31.2 bits (71), Expect = 0.004
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 5  VRKDDEVQVVGGTYKGREGKFVQIF 29
          +R+DDEV V+ G  KG+ GK   + 
Sbjct: 2  IRRDDEVIVLTGKDKGKRGKVKNVL 26

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	86
d1vqot1	119	Ribosomal proteins L24 (L24p) {Archaeon Haloarcula	99.85
d2zjrr1	110	Ribosomal proteins L24 (L24p) {Deinococcus radiodu	99.7
d2j01y1	101	Ribosomal proteins L24 (L24p) {Thermus thermophilu	99.65
d2gycs1	99	Ribosomal proteins L24 (L24p) {Escherichia coli [T	99.61
d1nppa2	58	N-utilization substance G protein NusG, C-terminal	97.48
d1nz9a_	58	N-utilization substance G protein NusG, C-terminal	97.45
d2do3a1	62	Transcription elongation factor SPT5 {Human (Homo	96.7
d1vhka1	72	Hypothetical protein YqeU {Bacillus subtilis [TaxI	85.08
d2joya1	96	Ribosomal protein L14e {Sulfolobus solfataricus [T	84.71
d1nxza1	72	Hypothetical protein HI0303 {Haemophilus influenza	81.02

>d1vqot1 b.34.5.1 (T:1-119) Ribosomal proteins L24 (L24p) {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.85  E-value=2.1e-22  Score=138.29  Aligned_cols=75  Identities=23%  Similarity=0.302  Sum_probs=67.7

Q ss_pred             CcccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----ccCCCccEEEeeccCCceeeee
Q 041704            1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----PVGHSSVMSSVGRMSPEVSTSF   76 (86)
Q Consensus         1 ~Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----pV~~snvmi~~~~~~~~~~~~~   76 (86)
                      ++|+||+||+|+|++|+|||++|+|++|+      +++++|+|||||+.++|++    |++.|||||+++.+++..-..+
T Consensus        38 r~~~IkkGD~V~Vi~Gk~KGk~GkV~~V~------~k~~~V~Vegin~~k~~~k~~~~pIh~SNv~i~~~~~~~~~R~~~  111 (119)
T d1vqot1          38 RNVRVNAGDTVEVLRGDFAGEEGEVINVD------LDKAVIHVEDVTLEKTDGEEVPRPLDTSNVRVTDLDLEDEKREAR  111 (119)
T ss_dssp             SEEECCTTCEEEECSSTTTTCEEEEEEEE------TTTTEEEETTCEEECTTSCEEECCBCGGGEEEEECCCCSHHHHHH
T ss_pred             cccceeCCCEEEEeecCCCCCcceEEEEE------CCCCEEEEeCcEEEecCCceeeccCchHHEEEEeCcCCcchhhhh
Confidence            57999999999999999999999999999      9999999999999999998    7889999999999998766555


Q ss_pred             eccCC
Q 041704           77 SKSND   81 (86)
Q Consensus        77 ~~~~~   81 (86)
                      -..-|
T Consensus       112 le~kd  116 (119)
T d1vqot1         112 LESED  116 (119)
T ss_dssp             HHCSS
T ss_pred             hhccc
Confidence            44433

>d2zjrr1 b.34.5.1 (R:4-113) Ribosomal proteins L24 (L24p) {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.70  E-value=5.8e-18  Score=114.44  Aligned_cols=58  Identities=26%  Similarity=0.286  Sum_probs=54.2

Q ss_pred             cccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc---------------ccCCCccEEEe
Q 041704            2 SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE---------------PVGHSSVMSSV   65 (86)
Q Consensus         2 Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~---------------pV~~snvmi~~   65 (86)
                      .|+||+||+|+||+|+|||++|+|++|+      +++++|+|||||+.++|.+               |++.||||+.+
T Consensus        10 K~kikkGD~V~VisGkdKGk~G~Vl~V~------~~~~~ViVeGvN~~kkh~Kp~~~~~~Ggiv~~E~PIhiSNV~lvd   82 (110)
T d2zjrr1          10 KLHFKKGDTVIVLSGKHKGQTGKVLLAL------PRDQKVVVEGVNVITKNVKPSMTNPQGGQEQRELALHASKVALVD   82 (110)
T ss_dssp             CCSSCTTSEEECCSSSSTTCEEEEEEEE------TTTTEEEESSSCBCCCCCCTTSSSCCCCCCCBCCCBCSSSEECBS
T ss_pred             eeeeeCCCEEEEeecCCCCcceEEEEEE------CCCCEEEEeCcEEEEEEecccccCCCCCeEeeeeeEEhhhEEEEc
Confidence            5899999999999999999999999999      9999999999999999854               78999999864

>d2j01y1 b.34.5.1 (Y:2-102) Ribosomal proteins L24 (L24p) {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Thermus thermophilus [TaxId: 274]

Probab=99.65  E-value=4.3e-18  Score=113.53  Aligned_cols=60  Identities=30%  Similarity=0.425  Sum_probs=55.1

Q ss_pred             cccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc---------------ccCCCccEEEee
Q 041704            2 SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE---------------PVGHSSVMSSVG   66 (86)
Q Consensus         2 Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~---------------pV~~snvmi~~~   66 (86)
                      .|+|++||+|+|++|+|||++|+|++|+      +++++|+|||+|+.++|.+               |++.||||+..-
T Consensus         3 K~kIkkGD~V~VisGkdKGk~G~Vl~V~------~~~~~ViVeGvN~~kkh~k~~~~~~~Ggi~~~E~pIh~SNV~lv~~   76 (101)
T d2j01y1           3 KMHVKKGDTVLVASGKYKGRVGKVKEVL------PKKYAVIVEGVNIVKKAVRVSPKYPQGGFIEKEAPLHASKVRPICP   76 (101)
T ss_dssp             CCCSCCSSCEECCSSTTSSCCBSCCCCC------CTTCBCCTTSCCCCCCCCCSCCCSSCCCSSCCCCCCBGGGCEECSS
T ss_pred             ccEEECCCEEEEeeCCCCCCeEEEEEEE------CCCCEEEEEcceEEEEeecCCCCCCccceEEEEccccHHHeEEEeC
Confidence            4899999999999999999999999999      9999999999999999865               889999998654


Q ss_pred             c
Q 041704           67 R   67 (86)
Q Consensus        67 ~   67 (86)
                      .
T Consensus        77 ~   77 (101)
T d2j01y1          77 A   77 (101)
T ss_dssp             S
T ss_pred             C
Confidence            3

>d2gycs1 b.34.5.1 (S:3-101) Ribosomal proteins L24 (L24p) {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Escherichia coli [TaxId: 562]

Probab=99.61  E-value=1.1e-16  Score=106.40  Aligned_cols=55  Identities=29%  Similarity=0.308  Sum_probs=49.6

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEeceecccCCCc----------------ccCCCccEEEe
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLE----------------PVGHSSVMSSV   65 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn~~K~~g~----------------pV~~snvmi~~   65 (86)
                      +||+||+|+||+|+|||++|+|++|+      + +.+|+|||+|+.++|.+                |++.||||+..
T Consensus         1 KikkGD~V~VisGkdKGK~G~V~~V~------~-~~~viVeGvN~~kkh~Kp~~~~~~~Ggiv~~E~pIh~SNV~lvd   71 (99)
T d2gycs1           1 KIRRDDEVIVLTGKDKGKRGKVKNVL------S-SGKVIVEGINLVKKHQKPVPALNQPGGIVEKEAAIQVSNVAIFN   71 (99)
T ss_dssp             CCCTTSEEECSSSTTTTCEEEEEEEC------T-TSEEEETTCCEECTTCCEECCCSCCCSSCCCSCCEETTTCCSSC
T ss_pred             CccCCCEEEEeeCCCCCCceEEEEEE------C-CCeEEEeCeEEEEEEeCCCCCcCCCCCEEEEEeeEEhhHEEEEc
Confidence            58999999999999999999999998      7 47899999999999865                77899999763

>d1nppa2 b.34.5.4 (A:191-248) N-utilization substance G protein NusG, C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: N-utilization substance G protein NusG, C-terminal domain
domain: N-utilization substance G protein NusG, C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.48  E-value=0.0001  Score=43.20  Aligned_cols=35  Identities=17%  Similarity=0.332  Sum_probs=30.8

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      ....||.|+|+.|.++|.+|+|.+++      ..+.++.|.
T Consensus         4 df~~Gd~V~I~~GpF~g~~g~V~~i~------~~~~rv~V~   38 (58)
T d1nppa2           4 EFEKGDQVRVIEGPFMNFTGTVEEVH------PEKRKLTVM   38 (58)
T ss_dssp             SCCTTCEEEECSSTTTTCEEEEEEEE------GGGTEEEEE
T ss_pred             cccCCCEEEEcccCCCCCEEEEEEEc------CCCCEEEEE
Confidence            46789999999999999999999999      877777654

>d1nz9a_ b.34.5.4 (A:) N-utilization substance G protein NusG, C-terminal domain {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: N-utilization substance G protein NusG, C-terminal domain
domain: N-utilization substance G protein NusG, C-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=97.45  E-value=9.8e-05  Score=43.38  Aligned_cols=36  Identities=25%  Similarity=0.360  Sum_probs=31.3

Q ss_pred             ccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            3 MSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         3 m~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      ...+.||.|+|+.|.+.|.+|+|.+++      ..+.++.|.
T Consensus         3 v~F~~Gd~V~I~~GpF~g~~g~V~~i~------~~k~rv~V~   38 (58)
T d1nz9a_           3 VAFREGDQVRVVSGPFADFTGTVTEIN------PERGKVKVM   38 (58)
T ss_dssp             CSCCTTCEEEECSGGGTTCEEEEEEEE------TTTTEEEEE
T ss_pred             ccccCCCEEEEeccCCCCCEEEEEEEc------CCCCEEEEE
Confidence            356889999999999999999999999      877777654

>d2do3a1 b.34.5.5 (A:462-523) Transcription elongation factor SPT5 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: SPT5 KOW domain-like
domain: Transcription elongation factor SPT5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.70  E-value=0.00086  Score=40.58  Aligned_cols=26  Identities=27%  Similarity=0.579  Sum_probs=24.1

Q ss_pred             cccCCCEEEEeeccCCCeeeeEEEEE
Q 041704            4 SVRKDDEVQVVGGTYKGREGKFVQIF   29 (86)
Q Consensus         4 ~IrKgDeV~VI~Gk~KGk~GKV~~V~   29 (86)
                      ..+.||-|+|++|+|.|.+|-|+++.
T Consensus        10 ~F~~GDhVkVi~G~~~g~tGlVV~v~   35 (62)
T d2do3a1          10 YFKMGDHVKVIAGRFEGDTGLIVRVE   35 (62)
T ss_dssp             SCCTTCEEEESSSTTTTCEEEEEEEC
T ss_pred             ccCCCCeEEEeccEEcCccEEEEEEe
Confidence            46789999999999999999999987

>d1vhka1 b.122.1.2 (A:2-73) Hypothetical protein YqeU {Bacillus subtilis [TaxId: 1423]}

class: All beta proteins
fold: PUA domain-like
superfamily: PUA domain-like
family: YggJ N-terminal domain-like
domain: Hypothetical protein YqeU
species: Bacillus subtilis [TaxId: 1423]

Probab=85.08  E-value=0.81  Score=26.03  Aligned_cols=36  Identities=8%  Similarity=0.067  Sum_probs=27.7

Q ss_pred             cccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEE
Q 041704            2 SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSY   43 (86)
Q Consensus         2 Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~V   43 (86)
                      -|+++.||++.+.-|.-.--.++|..+.      ++...+.+
T Consensus        31 VLR~k~Gd~i~l~dg~g~~~~~~I~~i~------k~~v~~~i   66 (72)
T d1vhka1          31 VMRMNEGDQIICCSQDGFEAKCELQSVS------KDKVSCLV   66 (72)
T ss_dssp             TTCCCTTCEEEEECTTSCEEEEEEEEEC------SSEEEEEE
T ss_pred             eeccCCCCEEEEEECCCCEEEEEEEEEE------CCEEEEEE
Confidence            4789999999999997544569999998      65544433

>d2joya1 b.34.5.7 (A:1-96) Ribosomal protein L14e {Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal protein L14e
domain: Ribosomal protein L14e
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=84.71  E-value=1  Score=28.15  Aligned_cols=58  Identities=14%  Similarity=0.045  Sum_probs=45.3

Q ss_pred             ccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEecee-cccCCCcccCCCccEEEeeccC
Q 041704            5 VRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIF-DPRIPLEPVGHSSVMSSVGRMS   69 (86)
Q Consensus         5 IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VEgVn-~~K~~g~pV~~snvmi~~~~~~   69 (86)
                      |..|=-|.+..|.|+|+..-|+++.       +.+++.|.|=. ....+.+.++.-.++.|++..+
T Consensus         4 VevGrV~ii~~G~~~GK~~vIvdii-------d~~rvLVdGP~~~tgV~r~~in~k~l~lT~~~i~   62 (96)
T d2joya1           4 IEVGRICVKVKGREAGSKCVIVDII-------DDNFVLVTGPKDITGVKRRRVNILHLEPTDKKID   62 (96)
T ss_dssp             SSTTEEEECSSSSTTCCEEEEEEEC-------SSSCEEEECCTTTTCCCCEEESCSSCEEEEEECC
T ss_pred             eeccEEEEEeecCCCCCEEEEEEEe-------cCCeEEEecccccCCcccEEEchHHEEeccEEEE
Confidence            5678788999999999999888876       35789999832 2234566788889999988764

>d1nxza1 b.122.1.2 (A:2-73) Hypothetical protein HI0303 {Haemophilus influenzae [TaxId: 727]}

class: All beta proteins
fold: PUA domain-like
superfamily: PUA domain-like
family: YggJ N-terminal domain-like
domain: Hypothetical protein HI0303
species: Haemophilus influenzae [TaxId: 727]

Probab=81.02  E-value=1.5  Score=24.61  Aligned_cols=37  Identities=11%  Similarity=0.235  Sum_probs=28.4

Q ss_pred             cccccCCCEEEEeeccCCCeeeeEEEEEeccccCcccceEEEe
Q 041704            2 SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYE   44 (86)
Q Consensus         2 Sm~IrKgDeV~VI~Gk~KGk~GKV~~V~~~~~~~rkk~~V~VE   44 (86)
                      -|+++.||.|.+.-|.-.--.++|..+.      ++...+.|.
T Consensus        30 VLR~k~Gd~v~l~dg~g~~~~~~I~~i~------k~~~~~~i~   66 (72)
T d1nxza1          30 VLRMTEGEQLELFDGSNHIYPAKIIESN------KKSVKVEIL   66 (72)
T ss_dssp             TSCCCTTCEEEEECSSSEEEEEEEEEEE------TTEEEEEEC
T ss_pred             eeCCCCCCEEEEEeCCCCEEEEEEEEEe------CCEEEEEEE
Confidence            4789999999999998544559999998      665555544