Citrus Sinensis ID: 032297

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140---
Protein Sequence
MAAMAALQSSMTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKPGGS
Secondary Structure (PSIPRED)
cHHHHHHHHHHcccccccccccccccccccccccccccccccEEEEEEEEHHHHHHcccccccccccEEEEcccEEEEEEccccccEEEEEEEEcccccEEEEcccEEEEccccccccccccEEEEEEcEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHccccccccccccccccccccccccccccccccEEEEEcHHHHHHccccccccEEEEEEEcccEEEEEEccccccEEEEEEEEccccEEEEEEEEEEEEccccccccccccEEEEEHHHHHHHccccccccc
Coil and Loop (DISEMBL)
MAAMAALQSSMtslsissnsffgqrlsfpslspitvkptdkpclIVVRLKRwerkeckpnslpvlhkmhvkagDTVKVIAgcdkgkigeitKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLkrngsskpggs
Flexible Loop (DISEMBL)
MAAMAALQSSMTSLSISSNSFFGQRLSFPslspitvkptdkPCLIVVRLkrwerkeckpnslpvlhkmhvkaGDTVKVIAGCdkgkigeitkvfrhnstvmvkdinlktkhvkkreeeeqgqiiklkcdallkrngsskpggs
Low Complexity Region (SEG)
MAAMAALQssmtslsissnsFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKPGGS
Disordered region (IsUnstruct)
************************RLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINL************************************
Disordered Region (DISOPRED)
**************SISSNSFFGQRLSF***************LIVV********************MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLK*******************CDALLKRNGSSKP***
Disordered Region (DISEMBL)
**************SISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKH*********GQIIKLKCDALLKR*********
Disordered Region (DISPRO)
*************************LSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNG*******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAMAALQSSMTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKPGGS
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	143	2.2.26 [Sep-21-2011]
Q02764	187	50S ribosomal protein L24	N/A	no	0.853	0.652	0.68	1e-43
P92959	198	50S ribosomal protein L24	yes	no	0.741	0.535	0.694	1e-38
P11893	194	50S ribosomal protein L24	N/A	no	0.881	0.649	0.724	1e-37
P27683	191	50S ribosomal protein L24	N/A	no	0.734	0.549	0.682	6e-36
Q8DMM1	117	50S ribosomal protein L24	yes	no	0.468	0.572	0.611	3e-16
B1XJS8	116	50S ribosomal protein L24	yes	no	0.461	0.568	0.575	2e-15
O24700	113	50S ribosomal protein L24	yes	no	0.433	0.548	0.612	2e-15
Q31L18	113	50S ribosomal protein L24	yes	no	0.433	0.548	0.612	2e-15
Q3MFB0	117	50S ribosomal protein L24	yes	no	0.468	0.572	0.552	2e-14
B2ITP4	117	50S ribosomal protein L24	yes	no	0.426	0.521	0.622	2e-14

>sp|Q02764|RK24_TOBAC 50S ribosomal protein L24, chloroplastic OS=Nicotiana tabacum GN=RPL24 PE=1 SV=1

 Score =  174 bits (442), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 85/125 (68%), Positives = 99/125 (79%), Gaps = 3/125 (2%)

Query: 4   MAALQSSMTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLP 63
           MAALQSS   LS    SFFGQR S P   P  VK T+ PCLI  +LKRWERKECKPNSLP
Sbjct: 1   MAALQSSFAGLS---TSFFGQRFSPPLSLPPLVKSTEGPCLIQAKLKRWERKECKPNSLP 57

Query: 64  VLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQI 123
           VLHKMHVK GDTVK+I+G DKGK+GEIT++ +HNS V+VKD+NLKTKHVK R E+E GQI
Sbjct: 58  VLHKMHVKLGDTVKIISGHDKGKVGEITEIIKHNSKVVVKDVNLKTKHVKSRSEDEPGQI 117

Query: 124 IKLKC 128
           +K++ 
Sbjct: 118 VKIEA 122

One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.
Nicotiana tabacum (taxid: 4097)

>sp|P92959|RK24_ARATH 50S ribosomal protein L24, chloroplastic OS=Arabidopsis thaliana GN=RPL24 PE=2 SV=2

 Score =  158 bits (399), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 75/108 (69%), Positives = 92/108 (85%), Gaps = 2/108 (1%)

Query: 23  GQRLSFP-SLSPIT-VKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIA 80
           GQRL  P SLS  + VKP + PCL++ +LKRWERKECKPNSLP+LHKMHVK GDTVKVI+
Sbjct: 24  GQRLISPISLSVTSPVKPAENPCLVLAKLKRWERKECKPNSLPILHKMHVKFGDTVKVIS 83

Query: 81  GCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKC 128
           G DKGKIGE+TK+F HNST+++KD+NLKTKH+K REE E GQI+K++ 
Sbjct: 84  GRDKGKIGEVTKIFTHNSTIVIKDVNLKTKHMKSREEGEPGQIVKIEA 131

One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Arabidopsis thaliana (taxid: 3702)

>sp|P11893|RK24_PEA 50S ribosomal protein L24, chloroplastic OS=Pisum sativum GN=RPL24 PE=2 SV=1

 Score =  154 bits (390), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 92/127 (72%), Positives = 111/127 (87%), Gaps = 1/127 (0%)

Query: 3   AMAALQSSMTSLSISSNSFFGQRLSFPSLSP-ITVKPTDKPCLIVVRLKRWERKECKPNS 61
           AMA+LQSSM+SLS+SSNSF GQ LS  +LSP +  KPT+K CLIV++LKRWERKECKPNS
Sbjct: 5   AMASLQSSMSSLSLSSNSFLGQPLSPITLSPFLQGKPTEKKCLIVMKLKRWERKECKPNS 64

Query: 62  LPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQG 121
           LPVLHK+HVK GDTVKVI+G +KG+IGEITK+F+HNS+V+VKDINLKTKHVK  +E E G
Sbjct: 65  LPVLHKLHVKVGDTVKVISGHEKGQIGEITKIFKHNSSVIVKDINLKTKHVKSNQEGEPG 124

Query: 122 QIIKLKC 128
           QI K++ 
Sbjct: 125 QINKVEA 131

One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Pisum sativum (taxid: 3888)

>sp|P27683|RK24_SPIOL 50S ribosomal protein L24, chloroplastic OS=Spinacia oleracea GN=RPL24 PE=1 SV=1

 Score =  149 bits (375), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 73/107 (68%), Positives = 89/107 (83%), Gaps = 2/107 (1%)

Query: 23  GQRLSFPSLSPITVKPT-DKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAG 81
           GQRL FPS + + VK     PCLIV+R+KRWERK+CKPNSLP LHK HVK GDTVKVI+G
Sbjct: 22  GQRL-FPSPTTLQVKTEGHSPCLIVMRIKRWERKDCKPNSLPKLHKRHVKVGDTVKVISG 80

Query: 82  CDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKC 128
            +KGKIGEI+K+ +HNSTV++KD+N KTKHVK +EE EQGQIIK++ 
Sbjct: 81  GEKGKIGEISKIHKHNSTVIIKDLNFKTKHVKSKEEGEQGQIIKIEA 127

One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit (By similarity). Located at the polypeptide exit tunnel on the outside of the subunit.

Spinacia oleracea (taxid: 3562)

>sp|Q8DMM1|RL24_THEEB 50S ribosomal protein L24 OS=Thermosynechococcus elongatus (strain BP-1) GN=rplX PE=3 SV=1

 Score = 84.0 bits (206), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 41/67 (61%), Positives = 50/67 (74%)

Query: 58  KPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE 117
           K N  PV ++MHVK GDTV+VIAG DK K+GE+  VF   S V+VK +NLKTKH+K R+E
Sbjct: 5   KANKKPVRYRMHVKKGDTVQVIAGSDKAKVGEVLAVFPKTSQVIVKGVNLKTKHLKPRQE 64

Query: 118 EEQGQII 124
            E GQII
Sbjct: 65  GESGQII 71

One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.

Thermosynechococcus elongatus (strain BP-1) (taxid: 197221)

>sp|B1XJS8|RL24_SYNP2 50S ribosomal protein L24 OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=rplX PE=3 SV=1

 Score = 81.3 bits (199), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 38/66 (57%), Positives = 51/66 (77%)

Query: 58  KPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE 117
           + +S P  HKMHVK GDTV+VI+G DKGK+GE+ K    +S V+VKD+N++TKHVK ++E
Sbjct: 4   RKSSTPTRHKMHVKTGDTVQVISGRDKGKVGEVIKTLPKSSKVVVKDVNIRTKHVKPQQE 63

Query: 118 EEQGQI 123
            E GQI
Sbjct: 64  GESGQI 69

One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.

Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (taxid: 32049)

>sp|O24700|RL24_SYNP6 50S ribosomal protein L24 OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=rplX PE=3 SV=1

 Score = 80.9 bits (198), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 38/62 (61%), Positives = 48/62 (77%)

Query: 63  PVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQ 122
           PV H +HVK GDTV+VIAG DKG +GE+ +VF   S V+VK +NL+TKHVK R+E E GQ
Sbjct: 6   PVRHSVHVKKGDTVQVIAGKDKGTVGEVLQVFPKTSRVLVKGVNLRTKHVKPRQEGESGQ 65

Query: 123 II 124
           I+
Sbjct: 66  IV 67

One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.

Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) (taxid: 269084)

>sp|Q31L18|RL24_SYNE7 50S ribosomal protein L24 OS=Synechococcus elongatus (strain PCC 7942) GN=rplX PE=3 SV=1

 Score = 80.9 bits (198), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 38/62 (61%), Positives = 48/62 (77%)

Query: 63  PVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQ 122
           PV H +HVK GDTV+VIAG DKG +GE+ +VF   S V+VK +NL+TKHVK R+E E GQ
Sbjct: 6   PVRHSVHVKKGDTVQVIAGKDKGTVGEVLQVFPKTSRVLVKGVNLRTKHVKPRQEGESGQ 65

Query: 123 II 124
           I+
Sbjct: 66  IV 67

One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.

Synechococcus elongatus (strain PCC 7942) (taxid: 1140)

>sp|Q3MFB0|RL24_ANAVT 50S ribosomal protein L24 OS=Anabaena variabilis (strain ATCC 29413 / PCC 7937) GN=rplX PE=3 SV=1

 Score = 78.2 bits (191), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 37/67 (55%), Positives = 50/67 (74%)

Query: 58  KPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE 117
           K ++ P  HK+HVK GDTV+VIAG DKGK+GE+ K     S V+VK +N+KTKHVK ++E
Sbjct: 4   KKDTTPKFHKLHVKTGDTVQVIAGKDKGKVGEVIKALPQLSKVIVKGVNIKTKHVKPQQE 63

Query: 118 EEQGQII 124
            E G+I+
Sbjct: 64  GESGRIV 70

One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.

Anabaena variabilis (strain ATCC 29413 / PCC 7937) (taxid: 240292)

>sp|B2ITP4|RL24_NOSP7 50S ribosomal protein L24 OS=Nostoc punctiforme (strain ATCC 29133 / PCC 73102) GN=rplX PE=3 SV=1

 Score = 77.8 bits (190), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/61 (62%), Positives = 47/61 (77%)

Query: 64  VLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQI 123
           V HKMHVK GDTV+VIAG DKGKIGEI +     S V+VK +N+KTKHVK ++E E G+I
Sbjct: 10  VFHKMHVKTGDTVQVIAGKDKGKIGEIVQALPQLSKVIVKGVNIKTKHVKPQQEGESGRI 69

Query: 124 I 124
           +
Sbjct: 70  V 70

One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit.

Nostoc punctiforme (strain ATCC 29133 / PCC 73102) (taxid: 63737)

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	143
449463166	191	PREDICTED: 50S ribosomal protein L24, ch	0.881	0.659	0.776	5e-51
449523692	191	PREDICTED: LOW QUALITY PROTEIN: 50S ribo	0.895	0.670	0.757	6e-51
255563629	193	mitochondrial ribosomal protein L24, put	0.895	0.663	0.751	1e-50
351723593	194	uncharacterized protein LOC100306643 [Gl	0.874	0.644	0.738	7e-47
224124188	194	predicted protein [Populus trichocarpa]	0.895	0.659	0.782	1e-45
351725277	193	uncharacterized protein LOC100500009 [Gl	0.874	0.647	0.715	8e-45
400989	187	RecName: Full=50S ribosomal protein L24,	0.853	0.652	0.68	8e-42
302143191	236	unnamed protein product [Vitis vinifera]	0.888	0.538	0.75	6e-39
225461164	191	PREDICTED: 50S ribosomal protein L24, ch	0.888	0.664	0.75	7e-39
357452635	194	50S ribosomal protein L24 [Medicago trun	0.874	0.644	0.746	3e-38

>gi|449463166|ref|XP_004149305.1| PREDICTED: 50S ribosomal protein L24, chloroplastic-like [Cucumis sativus]

 Score =  205 bits (521), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 101/130 (77%), Positives = 116/130 (89%), Gaps = 4/130 (3%)

Query: 1   MAAMAALQSSMTSLSISSNSFFGQRLSFPSL--SPITVKPTDKPCLIVVRLKRWERKECK 58
           MAAMAALQSSMT+LS+SSNSF GQRL  P++  +PIT K  +KPCLIV++LKRWERKECK
Sbjct: 1   MAAMAALQSSMTALSLSSNSFLGQRLPPPTIYAAPITSK--EKPCLIVMKLKRWERKECK 58

Query: 59  PNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEE 118
           PNSLPV+HKMHVK GDTVKVIAG DKGKIGEITK+F+HNS V+V +INLKTKHVK REEE
Sbjct: 59  PNSLPVVHKMHVKIGDTVKVIAGRDKGKIGEITKIFKHNSKVVVNEINLKTKHVKSREEE 118

Query: 119 EQGQIIKLKC 128
           EQGQIIK++ 
Sbjct: 119 EQGQIIKIEA 128

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449523692|ref|XP_004168857.1| PREDICTED: LOW QUALITY PROTEIN: 50S ribosomal protein L24, chloroplastic-like [Cucumis sativus]

 Score =  204 bits (520), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 97/128 (75%), Positives = 112/128 (87%)

Query: 1   MAAMAALQSSMTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPN 60
           MAAMAALQSSMT+LS+SSNSF GQRL  P++    +   +KPCLIV++LKRWERKECKPN
Sbjct: 1   MAAMAALQSSMTALSLSSNSFLGQRLPPPTIYAAPITSKEKPCLIVMKLKRWERKECKPN 60

Query: 61  SLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQ 120
           SLPV+HKMHVK GDTVKVIAG DKGKIGEITK+F+HNS V+V +INLKTKHVK REEEEQ
Sbjct: 61  SLPVVHKMHVKIGDTVKVIAGRDKGKIGEITKIFKHNSKVVVNEINLKTKHVKSREEEEQ 120

Query: 121 GQIIKLKC 128
           GQIIK++ 
Sbjct: 121 GQIIKIEA 128

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563629|ref|XP_002522816.1| mitochondrial ribosomal protein L24, putative [Ricinus communis] gi|223537900|gb|EEF39514.1| mitochondrial ribosomal protein L24, putative [Ricinus communis]

 Score =  204 bits (518), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 97/129 (75%), Positives = 112/129 (86%), Gaps = 1/129 (0%)

Query: 1   MAAMAALQSSMTSLSISSN-SFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKP 59
           MAAMAALQS+MTSLSISSN +FFGQRLSFPS +   VK  D  CLIV R+KRWERK+CKP
Sbjct: 1   MAAMAALQSAMTSLSISSNNTFFGQRLSFPSFTSTQVKRPDNSCLIVARIKRWERKKCKP 60

Query: 60  NSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEE 119
           NSLP+LHKMHVK GDTVKVIAG DKGK+GE+TK+FRHNS+V++ +INLKTKHVK REE E
Sbjct: 61  NSLPILHKMHVKLGDTVKVIAGDDKGKVGEVTKIFRHNSSVVINEINLKTKHVKSREEGE 120

Query: 120 QGQIIKLKC 128
            GQIIK++ 
Sbjct: 121 PGQIIKIEA 129

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351723593|ref|NP_001238052.1| uncharacterized protein LOC100306643 [Glycine max] gi|255629161|gb|ACU14925.1| unknown [Glycine max]

 Score =  191 bits (486), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 96/130 (73%), Positives = 111/130 (85%), Gaps = 5/130 (3%)

Query: 1   MAAMAALQSSMTSLSISSNSFFGQRLS---FPSLSPITVKPTDKPCLIVVRLKRWERKEC 57
           MAAMAALQSSM  LS+SSNSF GQRLS    PSL P   K T+K C IV+RLKRWERKEC
Sbjct: 1   MAAMAALQSSMVGLSLSSNSFLGQRLSPITLPSLLP--GKSTEKQCPIVMRLKRWERKEC 58

Query: 58  KPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE 117
           KPNSLP+LHKMHVK GDTV+VI+G ++GK+GEITK+F+HNSTV+VKD+NLKTKHVK REE
Sbjct: 59  KPNSLPILHKMHVKLGDTVQVISGRERGKVGEITKIFKHNSTVIVKDLNLKTKHVKSREE 118

Query: 118 EEQGQIIKLK 127
            E GQIIK++
Sbjct: 119 GEPGQIIKIE 128

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224124188|ref|XP_002319267.1| predicted protein [Populus trichocarpa] gi|118484624|gb|ABK94184.1| unknown [Populus trichocarpa] gi|222857643|gb|EEE95190.1| predicted protein [Populus trichocarpa]

 Score =  187 bits (475), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 101/129 (78%), Positives = 111/129 (86%), Gaps = 1/129 (0%)

Query: 1   MAAMAALQSSM-TSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKP 59
           MAAMAALQSSM T    SSNSFFGQRLS PSLS   VK  +KPCLIVV++KRWERKECK 
Sbjct: 1   MAAMAALQSSMATLSLSSSNSFFGQRLSLPSLSFPQVKSPEKPCLIVVKIKRWERKECKE 60

Query: 60  NSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEE 119
           NSLPVLHKMHVK GDT++VIAG DKGKIGEITK+FRHNSTV+VK+INLKTKHVK REE E
Sbjct: 61  NSLPVLHKMHVKVGDTIQVIAGDDKGKIGEITKIFRHNSTVVVKEINLKTKHVKSREEGE 120

Query: 120 QGQIIKLKC 128
            GQIIK++ 
Sbjct: 121 PGQIIKIEA 129

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351725277|ref|NP_001235551.1| uncharacterized protein LOC100500009 [Glycine max] gi|255628481|gb|ACU14585.1| unknown [Glycine max]

 Score =  184 bits (468), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 93/130 (71%), Positives = 109/130 (83%), Gaps = 5/130 (3%)

Query: 1   MAAMAALQSSMTSLSISSNSFFGQRL---SFPSLSPITVKPTDKPCLIVVRLKRWERKEC 57
           MAAMAALQSSM  LS+SS SF GQ L   + PSL P   K T+K C IV+RLKRWERKEC
Sbjct: 1   MAAMAALQSSMAGLSLSSKSFLGQLLPPITLPSLLP--GKSTEKQCPIVMRLKRWERKEC 58

Query: 58  KPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE 117
           KPNSLP+LHKMHVK GDTV+VI+G ++GK+GEITK+F+HNSTV+VKD+NLKTKHVK REE
Sbjct: 59  KPNSLPILHKMHVKLGDTVQVISGRERGKVGEITKIFKHNSTVIVKDLNLKTKHVKSREE 118

Query: 118 EEQGQIIKLK 127
            E GQIIK++
Sbjct: 119 GEPGQIIKIE 128

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|400989|sp|Q02764.1|RK24_TOBAC RecName: Full=50S ribosomal protein L24, chloroplastic; AltName: Full=CL24; Flags: Precursor gi|170273|gb|AAA34086.1| ribosomal protein L24 [Nicotiana tabacum] gi|170324|gb|AAA34114.1| ribosomal protein L24 [Nicotiana tabacum]

 Score =  174 bits (442), Expect = 8e-42,   Method: Compositional matrix adjust.
 Identities = 85/125 (68%), Positives = 99/125 (79%), Gaps = 3/125 (2%)

Query: 4   MAALQSSMTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLP 63
           MAALQSS   LS    SFFGQR S P   P  VK T+ PCLI  +LKRWERKECKPNSLP
Sbjct: 1   MAALQSSFAGLS---TSFFGQRFSPPLSLPPLVKSTEGPCLIQAKLKRWERKECKPNSLP 57

Query: 64  VLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQI 123
           VLHKMHVK GDTVK+I+G DKGK+GEIT++ +HNS V+VKD+NLKTKHVK R E+E GQI
Sbjct: 58  VLHKMHVKLGDTVKIISGHDKGKVGEITEIIKHNSKVVVKDVNLKTKHVKSRSEDEPGQI 117

Query: 124 IKLKC 128
           +K++ 
Sbjct: 118 VKIEA 122

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143191|emb|CBI20486.3| unnamed protein product [Vitis vinifera]

 Score =  165 bits (417), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 96/128 (75%), Positives = 109/128 (85%), Gaps = 1/128 (0%)

Query: 1   MAAMAALQSSMTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPN 60
           MAAMAALQSS TSLS+SSNSF GQ  S P L P   K T+KPC IV+RLKRWERKECKPN
Sbjct: 46  MAAMAALQSSFTSLSLSSNSFLGQPFS-PLLYPSLAKSTEKPCPIVMRLKRWERKECKPN 104

Query: 61  SLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQ 120
           SLPVLHKMHVK GDTVK+I+G +KG+ GEI+K+FRHNSTV+VKDINLKTKHVK R E+E 
Sbjct: 105 SLPVLHKMHVKVGDTVKIISGREKGRTGEISKIFRHNSTVVVKDINLKTKHVKGRGEDEP 164

Query: 121 GQIIKLKC 128
           GQIIK++ 
Sbjct: 165 GQIIKIEA 172

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225461164|ref|XP_002282889.1| PREDICTED: 50S ribosomal protein L24, chloroplastic isoform 1 [Vitis vinifera] gi|359493940|ref|XP_003634697.1| PREDICTED: 50S ribosomal protein L24, chloroplastic isoform 2 [Vitis vinifera] gi|359493942|ref|XP_003634698.1| PREDICTED: 50S ribosomal protein L24, chloroplastic isoform 3 [Vitis vinifera] gi|147860928|emb|CAN78749.1| hypothetical protein VITISV_002445 [Vitis vinifera]

 Score =  165 bits (417), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 96/128 (75%), Positives = 109/128 (85%), Gaps = 1/128 (0%)

Query: 1   MAAMAALQSSMTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPN 60
           MAAMAALQSS TSLS+SSNSF GQ  S P L P   K T+KPC IV+RLKRWERKECKPN
Sbjct: 1   MAAMAALQSSFTSLSLSSNSFLGQPFS-PLLYPSLAKSTEKPCPIVMRLKRWERKECKPN 59

Query: 61  SLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQ 120
           SLPVLHKMHVK GDTVK+I+G +KG+ GEI+K+FRHNSTV+VKDINLKTKHVK R E+E 
Sbjct: 60  SLPVLHKMHVKVGDTVKIISGREKGRTGEISKIFRHNSTVVVKDINLKTKHVKGRGEDEP 119

Query: 121 GQIIKLKC 128
           GQIIK++ 
Sbjct: 120 GQIIKIEA 127

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357452635|ref|XP_003596594.1| 50S ribosomal protein L24 [Medicago truncatula] gi|355485642|gb|AES66845.1| 50S ribosomal protein L24 [Medicago truncatula] gi|388513937|gb|AFK45030.1| unknown [Medicago truncatula]

 Score =  162 bits (411), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 94/126 (74%), Positives = 112/126 (88%), Gaps = 1/126 (0%)

Query: 3   AMAALQSSMTSLSISSNSFFGQRLSFPSLSPITV-KPTDKPCLIVVRLKRWERKECKPNS 61
           AMA+LQSSMTSLS+SSNSFFGQ LS  +LSP+   KPTDK C IV++LKRWERKECKPNS
Sbjct: 5   AMASLQSSMTSLSLSSNSFFGQPLSPITLSPLLPGKPTDKQCRIVMKLKRWERKECKPNS 64

Query: 62  LPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQG 121
           LPVLHK+HVK GDTVKVI+G +KG+IGE+TK+F+HNST++VKDINLKTKHVK R+E E G
Sbjct: 65  LPVLHKLHVKVGDTVKVISGHEKGQIGEVTKIFKHNSTIIVKDINLKTKHVKSRQEGEPG 124

Query: 122 QIIKLK 127
           QI K++
Sbjct: 125 QINKIE 130

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	143
TAIR|locus:2172154	198	RPL24 "plastid ribosomal prote	0.888	0.641	0.630	2e-40
TIGR_CMR|BA_0121	103	BA_0121 "ribosomal protein L24	0.398	0.553	0.473	1.1e-07
TIGR_CMR|GSU_2846	108	GSU_2846 "ribosomal protein L2	0.412	0.546	0.355	6.1e-07
TIGR_CMR|CBU_0249	107	CBU_0249 "ribosomal protein L2	0.384	0.514	0.473	7.8e-07
TIGR_CMR|CHY_2298	107	CHY_2298 "ribosomal protein L2	0.412	0.551	0.389	2.6e-06
TIGR_CMR|DET_0485	103	DET_0485 "ribosomal protein L2	0.405	0.563	0.379	3.4e-06
TIGR_CMR|CJE_1864	77	CJE_1864 "ribosomal protein L2	0.405	0.753	0.379	4.3e-06
TIGR_CMR|SPO_0496	103	SPO_0496 "ribosomal protein L2	0.482	0.669	0.351	1.1e-05
TAIR|locus:504954880	159	AT5G23535 [Arabidopsis thalian	0.342	0.308	0.428	3e-05
GENEDB_PFALCIPARUM|PFF0245w	194	PFF0245w "50S ribosomal subuni	0.412	0.304	0.377	5.6e-05

TAIR|locus:2172154 RPL24 "plastid ribosomal protein L24" [Arabidopsis thaliana (taxid:3702)]

 Score = 430 (156.4 bits), Expect = 2.0e-40, P = 2.0e-40
 Identities = 82/130 (63%), Positives = 100/130 (76%)

Query:     1 MAAMAALQXXXXXXXXX-XXXFFGQRLSFP-SLSPIT-VKPTDKPCLIVVRLKRWERKEC 57
             MA M+ALQ             F GQRL  P SLS  + VKP + PCL++ +LKRWERKEC
Sbjct:     1 MATMSALQSSFTSLSLSPSSSFLGQRLISPISLSVTSPVKPAENPCLVLAKLKRWERKEC 60

Query:    58 KPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE 117
             KPNSLP+LHKMHVK GDTVKVI+G DKGKIGE+TK+F HNST+++KD+NLKTKH+K REE
Sbjct:    61 KPNSLPILHKMHVKFGDTVKVISGRDKGKIGEVTKIFTHNSTIVIKDVNLKTKHMKSREE 120

Query:   118 EEQGQIIKLK 127
              E GQI+K++
Sbjct:   121 GEPGQIVKIE 130

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

GO:0006412 "translation" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0015934 "large ribosomal subunit" evidence=ISS

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0032544 "plastid translation" evidence=IMP

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

TIGR_CMR|BA_0121 BA_0121 "ribosomal protein L24" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 121 (47.7 bits), Expect = 1.1e-07, P = 1.1e-07
 Identities = 27/57 (47%), Positives = 34/57 (59%)

Query:    68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII 124
             MHVK GD V+VI G DKGK G I   F   + V+V+ +N+  KH K  +   QG II
Sbjct:     1 MHVKKGDKVQVITGKDKGKQGVILVAFPKQNRVIVEGVNIVKKHSKPSQLNPQGGII 57

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|GSU_2846 GSU_2846 "ribosomal protein L24" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 114 (45.2 bits), Expect = 6.1e-07, P = 6.1e-07
 Identities = 21/59 (35%), Positives = 33/59 (55%)

Query:    67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
             K H+K GDTV V+ G DK K G + ++      V+V+ +N+  +H + R  E  G + K
Sbjct:     5 KFHIKKGDTVSVVTGKDKSKTGTVLRILPKRDGVLVEGLNIVKRHTRARGNEPGGIVEK 63

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|CBU_0249 CBU_0249 "ribosomal protein L24" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 113 (44.8 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 27/57 (47%), Positives = 37/57 (64%)

Query:    70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKR-EEEEQGQIIK 125
             +K  DTV VI G DKG+ G++ KV   NS ++V+ INL  KHVK    + EQG I++
Sbjct:     6 IKKDDTVIVITGRDKGRQGKVLKVLP-NSRLLVEGINLVKKHVKPNPNKNEQGGILE 61

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CHY_2298 CHY_2298 "ribosomal protein L24" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 108 (43.1 bits), Expect = 2.6e-06, P = 2.6e-06
 Identities = 23/59 (38%), Positives = 36/59 (61%)

Query:    67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
             K+ VK GD V VIAG DK K G+I +V    + V+V+ +N+  +H +   +  QG I++
Sbjct:     3 KLKVKKGDMVLVIAGKDKDKKGKIVQVLPKENRVVVEGVNIVKRHTRPNPKLPQGGIVE 61

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|DET_0485 DET_0485 "ribosomal protein L24" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 107 (42.7 bits), Expect = 3.4e-06, P = 3.4e-06
 Identities = 22/58 (37%), Positives = 34/58 (58%)

Query:    68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
             M +K  D V VIAG DKGK G++   F     V+V+ +N+  +H + R + +Q  II+
Sbjct:     1 MRLKKNDNVLVIAGKDKGKTGKVRYAFPRTDRVLVEGVNMIKRHSRARGQAKQAGIIE 58

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|CJE_1864 CJE_1864 "ribosomal protein L24" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 106 (42.4 bits), Expect = 4.3e-06, P = 4.3e-06
 Identities = 22/58 (37%), Positives = 33/58 (56%)

Query:    67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII 124
             K+ +K GD+VKVI G DKGK G++  V+     V+V+   +  K +K  E+   G  I
Sbjct:     4 KLKIKKGDSVKVITGDDKGKTGKVLAVYPKTLKVVVEGCKIAKKAIKPSEKNPNGGFI 61

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

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|SPO_0496 SPO_0496 "ribosomal protein L24" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 102 (41.0 bits), Expect = 1.1e-05, P = 1.1e-05
 Identities = 26/74 (35%), Positives = 41/74 (55%)

Query:    70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK-LKC 128
             ++ GD V V+AG DKGK G IT V       +V  +N+  +H ++ +  + G++ K L  
Sbjct:     5 LRKGDKVVVLAGKDKGKEGTITSVDPKAGKAVVDGVNIAIRHTRQTQTSQGGRLPKALPI 64

Query:   129 D----ALLKRNGSS 138
             D    ALL +NG +
Sbjct:    65 DLSNLALLDKNGKA 78

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

GO:0006412 "translation" evidence=ISS

GO:0042255 "ribosome assembly" evidence=ISS

TAIR|locus:504954880 AT5G23535 [Arabidopsis thaliana (taxid:3702)]

 Score = 98 (39.6 bits), Expect = 3.0e-05, P = 3.0e-05
 Identities = 21/49 (42%), Positives = 29/49 (59%)

Query:    73 GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQG 121
             GD V +I G DKG+ G I +V R  + V+V+  NL  KH+K   + E G
Sbjct:    18 GDNVMIIRGKDKGETGTIKRVIRSQNRVIVEGKNLIKKHIKGGPDHEGG 66

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

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

GENEDB_PFALCIPARUM|PFF0245w PFF0245w "50S ribosomal subunit L24, putative" [Plasmodium falciparum (taxid:5833)]

 Score = 98 (39.6 bits), Expect = 5.6e-05, P = 5.6e-05
 Identities = 23/61 (37%), Positives = 35/61 (57%)

Query:    55 KECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKK 114
             K  KP ++  + K  ++ GD VKVI+G DKGKIGE+    +  + V VK  N++   V  
Sbjct:    33 KIIKPRNIIKMWK--IRKGDEVKVISGKDKGKIGEVLSCDKFRNMVKVKGCNMRKLFVDN 90

Query:   115 R 115
             +
Sbjct:    91 K 91

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P11893	RK24_PEA	No assigned EC number	0.7244	0.8811	0.6494	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_Genewise1_v1.C_LG_XIII2686	SubName- Full=Putative uncharacterized protein; (194 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	eugene3.00141000	hypothetical protein (227 aa)	•			•	•		•		0.969
	rpl22	50S ribosomal protein L22 ; This protein binds specifically to 23S rRNA (By similarity) (129 aa)	•			•	•		•		0.963
	gw1.IV.3048.1	SubName- Full=Putative uncharacterized protein; (227 aa)	•			•			•		0.959
	estExt_fgenesh4_pg.C_13160002	hypothetical protein (165 aa)	•		•	•	•		•		0.956
	fgenesh4_pm.C_LG_XIII000297	hypothetical protein (222 aa)	•			•	•		•		0.953
	gw1.16155.2.1	Predicted protein (206 aa)	•			•			•		0.952
	estExt_Genewise1_v1.C_LG_X3691	SubName- Full=Putative uncharacterized protein; (165 aa)	•			•	•		•		0.951
	gw1.II.2942.1	SubName- Full=Putative uncharacterized protein; (218 aa)	•			•	•		•		0.951
	rps8	RecName- Full=30S ribosomal protein S8, chloroplastic;; One of the primary rRNA binding protein [...] (134 aa)	•			•			•		0.947
	fgenesh4_pm.C_LG_VI000651	hypothetical protein (279 aa)	•			•	•		•		0.938

---

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	143
CHL00141	83	CHL00141, rpl24, ribosomal protein L24; Validated	7e-20
PRK00004	105	PRK00004, rplX, 50S ribosomal protein L24; Reviewe	1e-19
TIGR01079	104	TIGR01079, rplX_bact, ribosomal protein L24, bacte	1e-17
cd06089	65	cd06089, KOW_RPL26, KOW motif of Ribosomal Protein	4e-17
COG0198	104	COG0198, RplX, Ribosomal protein L24 [Translation,	2e-13
PRK12281	76	PRK12281, rplX, 50S ribosomal protein L24; Reviewe	4e-13
pfam00467	32	pfam00467, KOW, KOW motif	2e-06
cd00380	49	cd00380, KOW, KOW: an acronym for the authors' sur	3e-04
smart00739	28	smart00739, KOW, KOW (Kyprides, Ouzounis, Woese) m	3e-04
PRK01191	120	PRK01191, rpl24p, 50S ribosomal protein L24P; Vali	9e-04
cd06091	56	cd06091, KOW_NusG, NusG contains an NGN domain at	0.004

>gnl|CDD|214374 CHL00141, rpl24, ribosomal protein L24; Validated

 Score = 77.8 bits (192), Expect = 7e-20
 Identities = 33/60 (55%), Positives = 46/60 (76%)

Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKL 126
           KMHVK GDTVK+I+G DKGKIGE+ K+ + ++ V+VK IN+K KH+K  +E E G+I + 
Sbjct: 6   KMHVKIGDTVKIISGSDKGKIGEVLKIIKKSNKVIVKGINIKFKHIKPNKENEVGEIKQF 65

Length = 83

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

 Score = 77.5 bits (192), Expect = 1e-19
 Identities = 28/59 (47%), Positives = 38/59 (64%)

Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
            M +K GDTV VIAG DKGK G++ KV    + V+V+ +N+  KH K  +E  QG II+
Sbjct: 2   MMKIKKGDTVIVIAGKDKGKRGKVLKVLPKKNKVIVEGVNIVKKHQKPNQENPQGGIIE 60

Length = 105

>gnl|CDD|233263 TIGR01079, rplX_bact, ribosomal protein L24, bacterial/organelle

 Score = 72.7 bits (179), Expect = 1e-17
 Identities = 29/60 (48%), Positives = 40/60 (66%), Gaps = 1/60 (1%)

Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE-EEQGQIIK 125
           KM +K GDTVKVI+G DKGK G++ KV    + V+V+ +N+  KHVK +     QG II+
Sbjct: 1   KMKIKKGDTVKVISGKDKGKRGKVLKVLPKTNKVIVEGVNMVKKHVKPKPTQRSQGGIIE 60

This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 104

>gnl|CDD|240513 cd06089, KOW_RPL26, KOW motif of Ribosomal Protein L26

 Score = 70.2 bits (173), Expect = 4e-17
 Identities = 26/53 (49%), Positives = 36/53 (67%)

Query: 73  GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
           GD V+VI G DKGK G++ KV R  + V+V+ +N+  KHVK  +E  QG II+
Sbjct: 1   GDEVQVIRGKDKGKQGKVLKVDRKKNRVIVEGVNVVKKHVKPSQENPQGGIIE 53

RPL26 and its bacterial paralogs RPL24 have a KOW motif at their N terminal. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. RPL26 makes a very minor contributions to the biogenesis, structure, and function of 60s ribosomal subunits. However, RPL24 is essential to generate the first intermediate during 50s ribosomal subunits assembly. RPL26 have an extra-ribosomal function to enhances p53 translation after DNA damage. Length = 65

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

 Score = 61.6 bits (150), Expect = 2e-13
 Identities = 30/59 (50%), Positives = 39/59 (66%), Gaps = 2/59 (3%)

Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
           KM VK GDTVKVIAG DKGK G++ KV      V+V+ +N+  KH+K  +E  +G II 
Sbjct: 2   KMKVKKGDTVKVIAGKDKGKEGKVLKVLPK--KVVVEGVNVVKKHIKPSQENPEGGIIN 58

Length = 104

>gnl|CDD|183399 PRK12281, rplX, 50S ribosomal protein L24; Reviewed

 Score = 60.1 bits (146), Expect = 4e-13
 Identities = 23/58 (39%), Positives = 34/58 (58%)

Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII 124
           K+ VK GD VKVIAG DKGK G++  V    + V+V+ + +  K +K  ++   G  I
Sbjct: 4   KLKVKKGDMVKVIAGDDKGKTGKVLAVLPKKNRVIVEGVKIAKKAIKPSQKNPNGGFI 61

Length = 76

>gnl|CDD|144165 pfam00467, KOW, KOW motif

 Score = 41.6 bits (99), Expect = 2e-06
 Identities = 13/31 (41%), Positives = 20/31 (64%)

Query: 73  GDTVKVIAGCDKGKIGEITKVFRHNSTVMVK 103
           GD V+VI+G  KGK G++ +V    + V V+
Sbjct: 2   GDVVRVISGPFKGKKGKVVEVDDSKARVHVE 32

This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and NusG. Length = 32

>gnl|CDD|240504 cd00380, KOW, KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese)

 Score = 36.0 bits (84), Expect = 3e-04
 Identities = 12/42 (28%), Positives = 17/42 (40%)

Query: 73  GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKK 114
           GD V+V+ G  KG+ G +  +      V VK          K
Sbjct: 1   GDVVRVLRGPYKGREGVVVDIDPRFGIVTVKGATGSKGAELK 42

KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. The KOW motif contains an invariants glycine residue and comprises alternating blocks of hydrophilic and hydrophobic residues. Length = 49

>gnl|CDD|128978 smart00739, KOW, KOW (Kyprides, Ouzounis, Woese) motif

 Score = 35.8 bits (84), Expect = 3e-04
 Identities = 13/28 (46%), Positives = 19/28 (67%)

Query: 69 HVKAGDTVKVIAGCDKGKIGEITKVFRH 96
            + GDTV+VIAG  KGK+G++ +V   
Sbjct: 1  KFEVGDTVRVIAGPFKGKVGKVLEVDGE 28

Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54. Length = 28

>gnl|CDD|234915 PRK01191, rpl24p, 50S ribosomal protein L24P; Validated

 Score = 36.4 bits (85), Expect = 9e-04
 Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 6/56 (10%)

Query: 54  RKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKT 109
           R++    SLPV      + GDTVKV+ G  KG+ G++ +V      + V+ + +K 
Sbjct: 36  REKYGIRSLPV------RKGDTVKVMRGDFKGEEGKVVEVDLKRGRIYVEGVTVKK 85

Length = 120

>gnl|CDD|240515 cd06091, KOW_NusG, NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus

 Score = 33.6 bits (78), Expect = 0.004
 Identities = 10/33 (30%), Positives = 18/33 (54%)

Query: 70  VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMV 102
            + GDTV++I+G   G  G++ ++      V V
Sbjct: 4   FEVGDTVRIISGPFAGFEGKVEEIDEEKGKVKV 36

KOW_NusG motif is one of the two domains of N-Utilization Substance G (NusG) a transcription elongation and Rho-termination factor in bacteria and archaea. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. The eukaryotic ortholog of NusG is Spt5 with multiple KOW motifs at its C-terminus. Length = 56

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	143
KOG1708	236	consensus Mitochondrial/chloroplast ribosomal prot	99.97
PRK12281	76	rplX 50S ribosomal protein L24; Reviewed	99.94
CHL00141	83	rpl24 ribosomal protein L24; Validated	99.92
PRK00004	105	rplX 50S ribosomal protein L24; Reviewed	99.92
TIGR01079	104	rplX_bact ribosomal protein L24, bacterial/organel	99.91
COG0198	104	RplX Ribosomal protein L24 [Translation, ribosomal	99.91
PRK01191	120	rpl24p 50S ribosomal protein L24P; Validated	99.77
PTZ00194	143	60S ribosomal protein L26; Provisional	99.77
TIGR01080	114	rplX_A_E ribosomal protein L24p/L26e, archaeal/euk	99.74
PF00467	32	KOW: KOW motif; InterPro: IPR005824 Ribosomes are	98.84
KOG3401	145	consensus 60S ribosomal protein L26 [Translation,	98.08
smart00739	28	KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif i	97.94
TIGR00405	145	L26e_arch ribosomal protein L24p/L26e, archaeal. T	97.21
PRK05609	181	nusG transcription antitermination protein NusG; V	97.17
TIGR00922	172	nusG transcription termination/antitermination fac	97.1
PRK08559	153	nusG transcription antitermination protein NusG; V	97.02
COG0250	178	NusG Transcription antiterminator [Transcription]	96.79
TIGR01955	159	RfaH transcriptional activator RfaH. This model re	96.5
PRK09014	162	rfaH transcriptional activator RfaH; Provisional	96.33
TIGR01956	258	NusG_myco NusG family protein. This model represen	95.95
PRK04333	84	50S ribosomal protein L14e; Validated	94.87
PTZ00065	130	60S ribosomal protein L14; Provisional	93.03
KOG1999	1024	consensus RNA polymerase II transcription elongati	91.64
PTZ00471	134	60S ribosomal protein L27; Provisional	88.39
COG2163	125	RPL14A Ribosomal protein L14E/L6E/L27E [Translatio	87.44
PRK04313	237	30S ribosomal protein S4e; Validated	85.94
PF09953	57	DUF2187: Uncharacterized protein conserved in bact	83.1
COG5164	607	SPT5 Transcription elongation factor [Transcriptio	80.05
KOG1999	1024	consensus RNA polymerase II transcription elongati	80.04

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

Probab=99.97  E-value=1.8e-31  Score=218.70  Aligned_cols=134  Identities=42%  Similarity=0.568  Sum_probs=125.1

Q ss_pred             Chhhhhhhhhcccccccc-ccccCccc-CCCCCCC-ccccCCCCceeeeeeeeeeeeeccCCCCCcccccceeeeCCEEE
Q 032297            1 MAAMAALQSSMTSLSISS-NSFFGQRL-SFPSLSP-ITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVK   77 (143)
Q Consensus         1 ~~~~~~~~~~~~~l~~~~-~~f~g~~l-~~~~~~~-~~~~~~~~~~~~~~~~k~Werk~~kpn~lp~~~k~~IkkGD~V~   77 (143)
                      |+.|+||||++++||++- .+|.+|.+ +|.++.+ .+.+..+|+|+.....++|+|+.|.++..+..++|+++.||+|+
T Consensus         1 M~ts~aL~s~l~s~s~lPs~y~er~y~isP~~~~~~~pr~~adk~~~~~qk~~~w~rrr~~~~e~i~d~dw~ff~GDtVe   80 (236)
T KOG1708|consen    1 MRTSSALASSLTSLSLLPSSYFERQYLISPISLSVTSPRKVADKRCLVLQKNKPWERRRCVPVEPIIDEDWHFFFGDTVE   80 (236)
T ss_pred             CchHHHHHHHhhhhhcCCHHHhhceeeeccccccccCCCChhhhhhhHHhhcCccccccCCCCCCccccceeEecCCEEE
Confidence            889999999999999865 66778888 5667774 34788899999999999999999999999999999999999999


Q ss_pred             EEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecc
Q 032297           78 VIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKR  134 (143)
Q Consensus        78 VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSn  134 (143)
                      ||.|+||||+|+|++|++++|+|+|+|+|.+.+|++...++.+|.|++.|+|||+||
T Consensus        81 VlvGkDkGkqG~Vtqv~r~~s~VvV~gln~k~r~~gsekeg~pgtivk~EaPlhvsk  137 (236)
T KOG1708|consen   81 VLVGKDKGKQGEVTQVIRHRSWVVVKGLNTKYRHMGSEKEGEPGTIVKSEAPLHVSK  137 (236)
T ss_pred             EEecccCCccceEEEEeecCceEEEcccchhhhhhcccccCCCceEEeecCCceecc
Confidence            999999999999999999999999999999999999998899999999999999999

>PRK12281 rplX 50S ribosomal protein L24; Reviewed

Probab=99.94  E-value=8e-27  Score=164.10  Aligned_cols=73  Identities=32%  Similarity=0.492  Sum_probs=69.6

Q ss_pred             cccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeeccccc
Q 032297           65 LHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGS  137 (143)
Q Consensus        65 ~~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~  137 (143)
                      +.+|+|++||+|+||+|+||||+|+|++|++++++|+|||+|+.++|+||+++++.|+|+++|+|||+|||..
T Consensus         2 ~~~~~I~kGD~V~Vi~G~dKGK~G~V~~V~~~~~~V~Vegvn~~kkh~kp~~~~~~G~i~~~e~pI~~SnV~l   74 (76)
T PRK12281          2 KVKLKVKKGDMVKVIAGDDKGKTGKVLAVLPKKNRVIVEGVKIAKKAIKPSQKNPNGGFIEKEMPIHISNVKK   74 (76)
T ss_pred             CccccccCCCEEEEeEcCCCCcEEEEEEEEcCCCEEEEcCcEEEEEEcCCCccCCCCCEEEEEcCcCHHHcee
Confidence            3578999999999999999999999999999999999999999999999998888999999999999999974

>CHL00141 rpl24 ribosomal protein L24; Validated

Probab=99.92  E-value=2.8e-25  Score=158.38  Aligned_cols=76  Identities=43%  Similarity=0.653  Sum_probs=72.0

Q ss_pred             ccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCCC
Q 032297           66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKPG  141 (143)
Q Consensus        66 ~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~~  141 (143)
                      .+++|++||+|+||+|+||||+|+|++|++++++|+|||+|+.++|+|++++++.|+++++|+|||+|||..-.|.
T Consensus         5 ~~~~I~~GD~V~Vi~G~dKGK~G~V~~V~~~~~~V~Vegvn~~~k~~k~~~~~~~g~i~~~e~pI~~SnV~lvdp~   80 (83)
T CHL00141          5 KKMHVKIGDTVKIISGSDKGKIGEVLKIIKKSNKVIVKGINIKFKHIKPNKENEVGEIKQFEAPIHSSNVMLYNEE   80 (83)
T ss_pred             eeCcccCCCEEEEeEcCCCCcEEEEEEEEcCCCEEEEcCcEEEEEEcCCccCCCCCCEEEEECCCCHHHEEEeCcc
Confidence            4678999999999999999999999999999999999999999999999988899999999999999999987664

>PRK00004 rplX 50S ribosomal protein L24; Reviewed

Probab=99.92  E-value=4.2e-25  Score=162.96  Aligned_cols=75  Identities=39%  Similarity=0.566  Sum_probs=71.6

Q ss_pred             cceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCCC
Q 032297           67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKPG  141 (143)
Q Consensus        67 k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~~  141 (143)
                      +|+|++||+|+||+|+|||++|+|++|++++++|+|||+|+.++|+|+++++++|+|+++|+|||+|||..-.|.
T Consensus         2 ~~~i~kGD~V~Vi~G~dKGk~G~V~~V~~~~~~V~Vegvn~~k~h~k~~~~~~~G~i~~~e~pI~~SnV~lv~p~   76 (105)
T PRK00004          2 MMKIKKGDTVIVIAGKDKGKRGKVLKVLPKKNKVIVEGVNIVKKHQKPNQENPQGGIIEKEAPIHISNVALVDPK   76 (105)
T ss_pred             CCcccCCCEEEEeEcCCCCcEEEEEEEEcCCCEEEEcCcEEEEEecCCCCCCCCCceEEEECCcCHHHEEEEeCc
Confidence            689999999999999999999999999999999999999999999999988899999999999999999887653

>TIGR01079 rplX_bact ribosomal protein L24, bacterial/organelle

Probab=99.91  E-value=1.1e-24  Score=160.98  Aligned_cols=74  Identities=41%  Similarity=0.604  Sum_probs=69.6

Q ss_pred             cceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccC-CceEEEEeeceeecccccCCC
Q 032297           67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEE-QGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        67 k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~-~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      +++|++||+|+||+|+||||+|+|++|++++++|+|||+|+.++|+||++.++ +|+|+++|+|||+|||..-.|
T Consensus         1 ~~~ikkGD~V~Vi~G~dKGK~G~V~~V~~~~~~V~VegvN~~kkh~k~~~~~~~~g~i~~~e~pI~~SnV~lv~p   75 (104)
T TIGR01079         1 KMKIKKGDTVKVISGKDKGKRGKVLKVLPKTNKVIVEGVNMVKKHVKPKPTQRSQGGIIEKEAPIHISNVMLFDP   75 (104)
T ss_pred             CCcccCCCEEEEeEcCCCCcEEEEEEEEcCCCEEEECCcEEEEEecCcccCCCCCCceEEEEccCCHHHeEEEcC
Confidence            35899999999999999999999999999999999999999999999998777 899999999999999987655

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

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

Probab=99.91  E-value=1.4e-24  Score=161.25  Aligned_cols=73  Identities=42%  Similarity=0.630  Sum_probs=69.4

Q ss_pred             cceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCCC
Q 032297           67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKPG  141 (143)
Q Consensus        67 k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~~  141 (143)
                      .++|++||+|+||+|+|||++|+|++|++++  |+|||||+.++|.||.++++.|+|+++|+|||+|||....|.
T Consensus         2 ~~~IrkGD~V~Vi~GkdKGk~GkVl~v~~k~--V~VEGvnv~kkh~k~~~~~~~ggii~~EapIh~SnV~i~~~~   74 (104)
T COG0198           2 KMKVKKGDTVKVIAGKDKGKEGKVLKVLPKK--VVVEGVNVVKKHIKPSQENPEGGIINKEAPIHISNVAIIDPN   74 (104)
T ss_pred             CcceecCCEEEEEecCCCCcceEEEEEecCe--EEEECcEEEEecCCCCCcCCCCceeeeeecccHHHeEEeccc
Confidence            5789999999999999999999999999998  999999999999998888888999999999999999988773

>PRK01191 rpl24p 50S ribosomal protein L24P; Validated

Probab=99.77  E-value=3.4e-19  Score=135.37  Aligned_cols=70  Identities=26%  Similarity=0.324  Sum_probs=60.9

Q ss_pred             eeeccCCCCCcccccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceee
Q 032297           53 ERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALL  132 (143)
Q Consensus        53 erk~~kpn~lp~~~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhi  132 (143)
                      .|++|+.++      |+|++||+|+||+|+|||++|+|++|++++++|+|||||+.++         +|  +++|+|||+
T Consensus        35 Lr~~y~ir~------~~IkkGD~V~VisG~~KGk~GkV~~V~~~~~~V~VeGvn~~k~---------~G--~~~e~pIh~   97 (120)
T PRK01191         35 LREKYGIRS------LPVRKGDTVKVMRGDFKGEEGKVVEVDLKRGRIYVEGVTVKKA---------DG--TEVPRPIHP   97 (120)
T ss_pred             HHHHhCCcc------ceEeCCCEEEEeecCCCCceEEEEEEEcCCCEEEEeCcEEECC---------CC--eEEEcccch
Confidence            467777554      4599999999999999999999999999999999999999772         34  689999999


Q ss_pred             cccccCC
Q 032297          133 KRNGSSK  139 (143)
Q Consensus       133 Snv~~~~  139 (143)
                      |||.+-.
T Consensus        98 SNV~l~~  104 (120)
T PRK01191         98 SNVMITK  104 (120)
T ss_pred             hHeEEEe
Confidence            9998654

>PTZ00194 60S ribosomal protein L26; Provisional

Probab=99.77  E-value=2.7e-19  Score=139.35  Aligned_cols=71  Identities=23%  Similarity=0.340  Sum_probs=64.7

Q ss_pred             eeeccCCCCCcccccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceee
Q 032297           53 ERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALL  132 (143)
Q Consensus        53 erk~~kpn~lp~~~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhi  132 (143)
                      .|.+|+.++++      |++||+|+||+|+|||++|+|++|++++++|+|||||+.++|.++           .|+|||+
T Consensus        36 Lr~k~~~Rs~~------IkkGD~V~Vi~Gk~KGk~GkV~~V~~k~~~ViVEgvn~~Kk~gk~-----------~e~PIh~   98 (143)
T PTZ00194         36 LRAKYNVRSMP------VRKDDEVMVVRGHHKGREGKVTAVYRKKWVIHIEKITREKANGEP-----------VQIGIHP   98 (143)
T ss_pred             HHHHhCCccce------eecCCEEEEecCCCCCCceEEEEEEcCCCEEEEeCeEEEecCCCE-----------eecCcCc
Confidence            47788877765      899999999999999999999999999999999999999999776           7999999


Q ss_pred             cccccCCC
Q 032297          133 KRNGSSKP  140 (143)
Q Consensus       133 Snv~~~~~  140 (143)
                      |||.+-++
T Consensus        99 SNV~iv~l  106 (143)
T PTZ00194         99 SNVIITKL  106 (143)
T ss_pred             hheEEEcc
Confidence            99988665

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

Probab=99.74  E-value=2.1e-18  Score=129.73  Aligned_cols=77  Identities=19%  Similarity=0.268  Sum_probs=66.7

Q ss_pred             eeeeeeeeeeeccCCCCCcccccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEE
Q 032297           45 IVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII  124 (143)
Q Consensus        45 ~~~~~k~Werk~~kpn~lp~~~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi  124 (143)
                      ....+-+|.|++|++++.      +|++||+|+||+|+|||++|+|++|++++++|+|||+|+.+    ++     |  +
T Consensus        23 ~~a~ls~elr~~y~~r~~------~IkkGD~V~Vi~Gk~KGk~GkV~~V~~~~~~V~Vegvn~~k----~~-----G--~   85 (114)
T TIGR01080        23 MSAPLSKELREKYGKRAL------PVRKGDKVRIMRGDFKGHEGKVSKVDLKRYRIYVEGVTKEK----VN-----G--T   85 (114)
T ss_pred             eecccCHHHHHHcCcccc------eeecCCEEEEecCCCCCCEEEEEEEEcCCCEEEEcCeEEEC----CC-----C--e
Confidence            334566789999986665      48999999999999999999999999999999999999976    21     4  6


Q ss_pred             EEeeceeecccccC
Q 032297          125 KLKCDALLKRNGSS  138 (143)
Q Consensus       125 ~~E~PIhiSnv~~~  138 (143)
                      +.|+|||+|||+.-
T Consensus        86 ~~e~pIh~SnV~l~   99 (114)
T TIGR01080        86 EVPVPIHPSNVMIT   99 (114)
T ss_pred             EEEeeechHHeEEE
Confidence            89999999999864

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.

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

Probab=98.84  E-value=6.3e-09  Score=61.81  Aligned_cols=32  Identities=53%  Similarity=0.709  Sum_probs=30.8

Q ss_pred             eCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           72 AGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        72 kGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      +||.|+|++|+++|++|+|++|++++++|+||
T Consensus         1 ~Gd~V~V~~G~~~G~~G~I~~i~~~~~~V~ve   32 (32)
T PF00467_consen    1 VGDTVKVISGPFKGKIGKIVEIDRSKVRVTVE   32 (32)
T ss_dssp             TTSEEEESSSTTTTEEEEEEEEETTTTEEEES
T ss_pred             CCCEEEEeEcCCCCceEEEEEEECCCCEEEEC
Confidence            59999999999999999999999999999986

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 ....

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

Probab=98.08  E-value=2.8e-06  Score=66.84  Aligned_cols=70  Identities=21%  Similarity=0.409  Sum_probs=56.5

Q ss_pred             eeccCCCCCcccccceeeeCCEEEEEecCCCC-eEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceee
Q 032297           54 RKECKPNSLPVLHKMHVKAGDTVKVIAGCDKG-KIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALL  132 (143)
Q Consensus        54 rk~~kpn~lp~~~k~~IkkGD~V~VIsG~dKG-K~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhi  132 (143)
                      |.+++..++|      |+.+|+|.|..|.++| ++|+|++|++++..+++|.|... |....          ....|||.
T Consensus        39 R~~y~vrs~p------ir~ddev~v~rg~~kG~q~G~v~~vyrKk~~iyie~v~~e-K~nGt----------~v~vgihP  101 (145)
T KOG3401|consen   39 RQKYNVRSMP------IRKDDEVQVVRGHFKGFQIGKVSQVYRKKYVIYIERVQRE-KANGT----------TVPVGIHP  101 (145)
T ss_pred             HHHhCccccc------eeeccEEEEEeccccccccceehhhhhhhheeeeEeEEEe-eccCc----------ccccccCc
Confidence            6677766666      8999999999999999 99999999999999999998643 22222          25678888


Q ss_pred             cccccCCC
Q 032297          133 KRNGSSKP  140 (143)
Q Consensus       133 Snv~~~~~  140 (143)
                      |.+-+++|
T Consensus       102 sK~~iTkl  109 (145)
T KOG3401|consen  102 SKVVITKL  109 (145)
T ss_pred             cceeeccc
Confidence            88877665

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

Probab=97.94  E-value=1.5e-05  Score=44.45  Aligned_cols=26  Identities=50%  Similarity=0.704  Sum_probs=24.3

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEc
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFR   95 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~   95 (143)
                      +.+||.|+|+.|+++|++|+|++++.
T Consensus         2 ~~~G~~V~I~~G~~~g~~g~i~~i~~   27 (28)
T smart00739        2 FEVGDTVRVIAGPFKGKVGKVLEVDG   27 (28)
T ss_pred             CCCCCEEEEeECCCCCcEEEEEEEcC
Confidence            57999999999999999999999975

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

>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal

Probab=97.21  E-value=0.00073  Score=50.99  Aligned_cols=37  Identities=30%  Similarity=0.457  Sum_probs=34.3

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEecee
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDIN  106 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN  106 (143)
                      ++.||.|.|+.|+++|-.|+|.+++.++..|.|+-.+
T Consensus        87 ~~~Gd~V~I~~GPf~G~~g~v~~~d~~k~~v~v~l~~  123 (145)
T TIGR00405        87 IKKGDIVEIISGPFKGERAKVIRVDESKEEVTLELIE  123 (145)
T ss_pred             cCCCCEEEEeecCCCCCeEEEEEEcCCCCEEEEEEEE
Confidence            7899999999999999999999999888899888665

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.

>PRK05609 nusG transcription antitermination protein NusG; Validated

Probab=97.17  E-value=0.0007  Score=52.18  Aligned_cols=36  Identities=25%  Similarity=0.288  Sum_probs=32.5

Q ss_pred             ceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        68 ~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      ..+++||+|.|+.|+++|.+|+|.+++++++++.|.
T Consensus       125 ~~~~~Gd~VrI~~GPf~G~~g~v~~i~~~~~r~~v~  160 (181)
T PRK05609        125 VDFEVGEMVRVIDGPFADFNGTVEEVDYEKSKLKVL  160 (181)
T ss_pred             cCCCCCCEEEEeccCCCCCEEEEEEEeCCCCEEEEE
Confidence            447899999999999999999999999888888775

>TIGR00922 nusG transcription termination/antitermination factor NusG

Probab=97.10  E-value=0.00089  Score=51.45  Aligned_cols=36  Identities=22%  Similarity=0.282  Sum_probs=32.2

Q ss_pred             ceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        68 ~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      ..+++||+|.|+.|+++|-+|+|.+++++++++.|.
T Consensus       118 ~~~~~G~~V~I~~Gpf~G~~g~v~~~~~~~~r~~V~  153 (172)
T TIGR00922       118 IDFEVGEQVRVNDGPFANFTGTVEEVDYEKSKLKVS  153 (172)
T ss_pred             cCCCCCCEEEEeecCCCCcEEEEEEEcCCCCEEEEE
Confidence            347899999999999999999999999888888775

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).

>PRK08559 nusG transcription antitermination protein NusG; Validated

Probab=97.02  E-value=0.0012  Score=50.92  Aligned_cols=41  Identities=29%  Similarity=0.379  Sum_probs=36.7

Q ss_pred             ceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeee
Q 032297           68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLK  108 (143)
Q Consensus        68 ~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~  108 (143)
                      ..+.+||.|.|+.|+++|..|.|.+++.++.++.|+-++..
T Consensus        93 ~~~~~G~~V~I~~Gpf~g~~g~V~~vd~~k~~v~v~ll~~~  133 (153)
T PRK08559         93 EGIKEGDIVELIAGPFKGEKARVVRVDESKEEVTVELLEAA  133 (153)
T ss_pred             cCCCCCCEEEEeccCCCCceEEEEEEcCCCCEEEEEEECCc
Confidence            34799999999999999999999999999999999877643

>COG0250 NusG Transcription antiterminator [Transcription]

Probab=96.79  E-value=0.0021  Score=51.47  Aligned_cols=38  Identities=24%  Similarity=0.366  Sum_probs=34.9

Q ss_pred             ccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        66 ~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      .+..+.+||.|.|++|+++|-.|+|.+|+.+++++.|+
T Consensus       120 ~~~~~e~Gd~VrI~~GpFa~f~g~V~evd~ek~~~~v~  157 (178)
T COG0250         120 PKVDFEPGDVVRIIDGPFAGFKAKVEEVDEEKGKLKVE  157 (178)
T ss_pred             ccccCCCCCEEEEeccCCCCccEEEEEEcCcCcEEEEE
Confidence            45668999999999999999999999999999888776

>TIGR01955 RfaH transcriptional activator RfaH

Probab=96.50  E-value=0.0043  Score=46.88  Aligned_cols=35  Identities=17%  Similarity=0.102  Sum_probs=29.6

Q ss_pred             ceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        68 ~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      ..+.+||+|.|+.|+++|-.|.|.+++ .++++.|.
T Consensus       107 ~~~~~G~~V~V~~GPf~g~~g~v~~~~-~~~r~~v~  141 (159)
T TIGR01955       107 TLPYKGDKVRITDGAFAGFEAIFLEPD-GEKRSMLL  141 (159)
T ss_pred             cCCCCCCEEEEeccCCCCcEEEEEEEC-CCceEEEE
Confidence            447899999999999999999999997 44576554

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=96.33  E-value=0.0059  Score=46.67  Aligned_cols=33  Identities=21%  Similarity=0.198  Sum_probs=28.5

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      +++||+|.|+.|+++|-+|+|.+++ .+++++|.
T Consensus       110 ~~~G~~V~I~~Gp~~g~eg~v~~~~-~~~r~~v~  142 (162)
T PRK09014        110 PKPGDKVIITEGAFEGLQAIYTEPD-GEARSILL  142 (162)
T ss_pred             CCCCCEEEEecCCCCCcEEEEEEeC-CCeEEEEe
Confidence            6899999999999999999999998 55665543

>TIGR01956 NusG_myco NusG family protein

Probab=95.95  E-value=0.014  Score=49.79  Aligned_cols=36  Identities=28%  Similarity=0.508  Sum_probs=32.5

Q ss_pred             ceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        68 ~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      ..+..||.|.|+.|+++|-.|+|.+++.++.++.|.
T Consensus       204 ~~f~vGd~VrI~dGPF~GfeG~I~eid~~k~Rv~Vl  239 (258)
T TIGR01956       204 SKFRVGNFVKIVDGPFKGIVGKIKKIDQEKKKAIVE  239 (258)
T ss_pred             cCCCCCCEEEEEecCCCCcEEEEEEEeCCCCEEEEE
Confidence            447899999999999999999999999888888776

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=94.87  E-value=0.06  Score=38.70  Aligned_cols=36  Identities=19%  Similarity=0.310  Sum_probs=32.2

Q ss_pred             eeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEece
Q 032297           69 HVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDI  105 (143)
Q Consensus        69 ~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegv  105 (143)
                      .+..|-.|.+..|+|+|+...|+++.. +++|+|+|-
T Consensus         3 ~v~~GrvV~~~~Grd~gk~~vIv~i~d-~~~vlVdg~   38 (84)
T PRK04333          3 AIEVGRVCVKTAGREAGRKCVIVDIID-KNFVLVTGP   38 (84)
T ss_pred             cccccEEEEEeccCCCCCEEEEEEEec-CCEEEEECC
Confidence            478899999999999999999999876 489999886

>PTZ00065 60S ribosomal protein L14; Provisional

Probab=93.03  E-value=0.23  Score=38.65  Aligned_cols=35  Identities=26%  Similarity=0.367  Sum_probs=32.0

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEece
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDI  105 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegv  105 (143)
                      +..|=.|.|..|+++||.+.|+.|..+ |+|+|+|=
T Consensus         8 VEiGRVvli~~Gp~~GKL~vIVDIID~-nRvLVDGP   42 (130)
T PTZ00065          8 VEPGRLCLIQYGPDAGKLCFIVDIVTP-TRVLVDGA   42 (130)
T ss_pred             eeeceEEEEecCCCCCCEEEEEEEEcC-CeEEEeCC
Confidence            678889999999999999999999975 79999986

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

Probab=91.64  E-value=0.19  Score=49.70  Aligned_cols=29  Identities=38%  Similarity=0.505  Sum_probs=26.7

Q ss_pred             ceeeeCCEEEEEecCCCCeEeEEEEEEcc
Q 032297           68 MHVKAGDTVKVIAGCDKGKIGEITKVFRH   96 (143)
Q Consensus        68 ~~IkkGD~V~VIsG~dKGK~G~V~~V~~k   96 (143)
                      -.|+.||-|+||+|+++|.+|.|++|...
T Consensus       458 KyF~~GDhVKVi~G~~eG~tGlVvrVe~~  486 (1024)
T KOG1999|consen  458 KYFEPGDHVKVIAGRYEGDTGLVVRVEQG  486 (1024)
T ss_pred             hhccCCCeEEEEeccccCCcceEEEEeCC
Confidence            46899999999999999999999999874

>PTZ00471 60S ribosomal protein L27; Provisional

Probab=88.39  E-value=0.84  Score=35.81  Aligned_cols=39  Identities=26%  Similarity=0.349  Sum_probs=34.3

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEccC------CEEEEeceeee
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRHN------STVMVKDINLK  108 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k~------n~ViVegvN~~  108 (143)
                      +++|-.|.|++|++.|+...|++.+.+.      +.++|-|+...
T Consensus         5 ~kpgkVVivL~GR~AGkKaVivk~~ddgt~drpy~halVaGIdry   49 (134)
T PTZ00471          5 LKPGKVVIVTSGRYAGRKAVIVQNFDTASKERPYGHALVAGIKKY   49 (134)
T ss_pred             ccCCEEEEEEccccCCcEEEEEeecCCCCccCcCceEEEEeeccc
Confidence            6789999999999999999999988776      78999997643

>COG2163 RPL14A Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]

Probab=87.44  E-value=0.99  Score=34.83  Aligned_cols=34  Identities=32%  Similarity=0.401  Sum_probs=31.3

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEec
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKD  104 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVeg  104 (143)
                      +.+|=.|.|++|++.||...|+++..++ .+++.|
T Consensus         5 l~~GrVvvv~~GR~aGkk~VIv~~iDd~-~v~i~g   38 (125)
T COG2163           5 LEVGRVVVVTAGRFAGKKVVIVKIIDDN-FVLITG   38 (125)
T ss_pred             ccCCeEEEEecceeCCceEEEEEEccCC-EEEEeC
Confidence            6789999999999999999999999887 888887

>PRK04313 30S ribosomal protein S4e; Validated

Probab=85.94  E-value=1.3  Score=37.53  Aligned_cols=41  Identities=20%  Similarity=0.393  Sum_probs=34.9

Q ss_pred             ccceeeeCCEEEEEecCCCCeEeEEEEEEccC----CEEEEecee
Q 032297           66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHN----STVMVKDIN  106 (143)
Q Consensus        66 ~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~----n~ViVegvN  106 (143)
                      .-+++..|-.|.|+.|++-|.+|+|.++.+..    |.|.||+-+
T Consensus       168 ~~i~fe~G~l~~itgG~n~GriG~I~~i~~~~~~~~~~V~i~d~~  212 (237)
T PRK04313        168 DHIPFEEGNLAIITGGKHVGEIGKIKEIEVTKSSKPNIVTLEDKD  212 (237)
T ss_pred             EEEecCCCCEEEEECCeeeeeEEEEEEEEEccCCCCcEEEEEcCC
Confidence            45778999999999999999999999998655    778888654

>PF09953 DUF2187: Uncharacterized protein conserved in bacteria (DUF2187); InterPro: IPR018690 This family consists of various hypothetical bacterial proteins with known function

Probab=83.10  E-value=2.6  Score=28.70  Aligned_cols=27  Identities=33%  Similarity=0.665  Sum_probs=22.8

Q ss_pred             eeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           71 KAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        71 kkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      ..||.+..    .+|-+|+|.+|+  .|+|+|+
T Consensus         5 ~vGdiIef----k~g~~G~V~kv~--eNSVIVd   31 (57)
T PF09953_consen    5 KVGDIIEF----KDGFTGIVEKVY--ENSVIVD   31 (57)
T ss_pred             ccCcEEEE----cCCcEEEEEEEe--cCcEEEE
Confidence            57999986    358999999997  6899997

It includes the uncharacterised YkvS protein from Bacillus subtilis.

>COG5164 SPT5 Transcription elongation factor [Transcription]

Probab=80.05  E-value=1.4  Score=41.24  Aligned_cols=29  Identities=31%  Similarity=0.444  Sum_probs=26.2

Q ss_pred             eeeeCCEEEEEecCCCCeEeEEEEEEccC
Q 032297           69 HVKAGDTVKVIAGCDKGKIGEITKVFRHN   97 (143)
Q Consensus        69 ~IkkGD~V~VIsG~dKGK~G~V~~V~~k~   97 (143)
                      .+.+||.|+||.|.+++.+|.|..|..++
T Consensus       139 ~f~~gD~vkVI~g~~~~d~g~V~rI~~~~  167 (607)
T COG5164         139 GFYKGDLVKVIEGGEMVDIGTVPRIDGEK  167 (607)
T ss_pred             ccccCCeEEEeccccccccceEEEecCce
Confidence            37899999999999999999999997663

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

Probab=80.04  E-value=4.5  Score=40.55  Aligned_cols=27  Identities=37%  Similarity=0.473  Sum_probs=25.1

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEcc
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRH   96 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k   96 (143)
                      |.+||.|.|+.|..+|-.|+|..|+-.
T Consensus       408 F~~GD~VeV~~Gel~glkG~ve~vdg~  434 (1024)
T KOG1999|consen  408 FSPGDAVEVIVGELKGLKGKVESVDGT  434 (1024)
T ss_pred             cCCCCeEEEeeeeeccceeEEEeccCc
Confidence            899999999999999999999999654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	143
3bbo_W	191	Homology Model For The Spinach Chloroplast 50s Subu		1e-36
3pyo_U	100	Crystal Structure Of A Complex Containing Domain 3		6e-05
3fin_Y	101	T. Thermophilus 70s Ribosome In Complex With Mrna,		6e-05
3tve_U	102	Crystal Structure Analysis Of Ribosomal Decoding. T		7e-05
2j01_Y	110	Structure Of The Thermus Thermophilus 70s Ribosome		8e-05
3mrz_U	109	Recognition Of The Amber Stop Codon By Release Fact		8e-05

>pdb|3BBO|W Chain W, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 191

Iteration: 1
 Score =  148 bits (373), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 73/107 (68%), Positives = 89/107 (83%), Gaps = 2/107 (1%)
Query: 23  GQRLSFPSLSPITVKPT-DKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAG 81
           GQRL FPS + + VK     PCLIV+R+KRWERK+CKPNSLP LHK HVK GDTVKVI+G
Sbjct: 22  GQRL-FPSPTTLQVKTEGHSPCLIVMRIKRWERKDCKPNSLPKLHKRHVKVGDTVKVISG 80
Query: 82  CDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKC 128
            +KGKIGEI+K+ +HNSTV++KD+N KTKHVK +EE EQGQIIK++ 
Sbjct: 81  GEKGKIGEISKIHKHNSTVIIKDLNFKTKHVKSKEEGEQGQIIKIEA 127

>pdb|3PYO|U Chain U, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 50s Subunit Of The First 70s Ribosome. Length = 100

Iteration: 1
 Score = 43.1 bits (100), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII 124
           KMHVK GDTV V +G  KG++G++ +V      V+V+ +N+  K V+   +  QG  I
Sbjct: 3   KMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFI 60

>pdb|3FIN|Y Chain Y, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 50s Subunit Length = 101

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII 124
           KMHVK GDTV V +G  KG++G++ +V      V+V+ +N+  K V+   +  QG  I
Sbjct: 3   KMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFI 60

>pdb|3TVE|U Chain U, Crystal Structure Analysis Of Ribosomal Decoding. This Entry Contains The 50s Ribosomal Subunit Of The First 70s Molecule In The Asymmetric Unit For The Cognate Trna-Leu Complex Length = 102

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII 124
           KMHVK GDTV V +G  KG++G++ +V      V+V+ +N+  K V+   +  QG  I
Sbjct: 3   KMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFI 60

>pdb|2J01|Y Chain Y, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4). This File Contains The 50s Subunit From Molecule I. Length = 110

Iteration: 1
 Score = 42.7 bits (99), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII 124
           KMHVK GDTV V +G  KG++G++ +V      V+V+ +N+  K V+   +  QG  I
Sbjct: 4   KMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFI 61

>pdb|3MRZ|U Chain U, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3mrz Contains 50s Ribosomal Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb Entry 3ms0. Molecule A In The Same Asymmetric Unit Is Deposited As 3mr8 (50s) And 3ms1 (30s). Length = 109

Iteration: 1
 Score = 42.7 bits (99), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 23/58 (39%), Positives = 35/58 (60%)
Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII 124
           KMHVK GDTV V +G  KG++G++ +V      V+V+ +N+  K V+   +  QG  I
Sbjct: 3   KMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFI 60

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	143
3bbo_W	191	Ribosomal protein L24; large ribosomal subunit, sp	1e-43
3v2d_Y	110	50S ribosomal protein L24; ribosome associated inh	4e-19
2zjr_R	115	50S ribosomal protein L24; ribosome, large ribosom	5e-19
2ftc_N	96	Mitochondrial ribosomal protein L24; mitochondrial	1e-15
3r8s_U	102	50S ribosomal protein L24; protein biosynthesis, R	9e-12
1vq8_T	120	50S ribosomal protein L24P; ribosome 50S, protein-	4e-07
3iz5_Y	150	60S ribosomal protein L26 (L24P); eukaryotic ribos	9e-05
3u5e_Y	127	L33, YL33, 60S ribosomal protein L26-A; translatio	7e-04
4a17_S	135	RPL26, 60S ribosomal protein L21; eukaryotic ribos	7e-04

>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 191

 Score =  141 bits (356), Expect = 1e-43
 Identities = 85/125 (68%), Positives = 99/125 (79%), Gaps = 1/125 (0%)

Query: 1   MAAMAALQSSMTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPN 60
           MAAM  LQSS TSLS+SSNSF GQRL     +         PCLIV+R+KRWERK+CKPN
Sbjct: 1   MAAMV-LQSSFTSLSLSSNSFLGQRLFPSPTTLQVKTEGHSPCLIVMRIKRWERKDCKPN 59

Query: 61  SLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQ 120
           SLP LHK HVK GDTVKVI+G +KGKIGEI+K+ +HNSTV++KD+N KTKHVK +EE EQ
Sbjct: 60  SLPKLHKRHVKVGDTVKVISGGEKGKIGEISKIHKHNSTVIIKDLNFKTKHVKSKEEGEQ 119

Query: 121 GQIIK 125
           GQIIK
Sbjct: 120 GQIIK 124

>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 = 76.1 bits (188), Expect = 4e-19
 Identities = 23/60 (38%), Positives = 36/60 (60%)

Query: 66  HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
            KMHVK GDTV V +G  KG++G++ +V      V+V+ +N+  K V+   +  QG  I+
Sbjct: 3   VKMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFIE 62

>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 = 76.1 bits (188), Expect = 5e-19
 Identities = 21/68 (30%), Positives = 34/68 (50%)

Query: 58  KPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE 117
                    K+H K GDTV V++G  KG+ G++      +  V+V+ +N+ TK+VK    
Sbjct: 4   PSAGSHHNDKLHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMT 63

Query: 118 EEQGQIIK 125
             QG   +
Sbjct: 64  NPQGGQEQ 71

>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_N Length = 96

 Score = 66.4 bits (163), Expect = 1e-15
 Identities = 17/53 (32%), Positives = 32/53 (60%), Gaps = 1/53 (1%)

Query: 73  GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
           GDTV+++ G D GK G++ +V R  + V+V  +N   +++ K   + +G +I 
Sbjct: 1   GDTVEILEGKDAGKQGKVVQVIRQRNWVVVGGLNTHYRYIGKT-MDYRGTMIP 52

>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 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 3i20_U ... Length = 102

 Score = 56.8 bits (138), Expect = 9e-12
 Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 68  MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVK-KREEEEQGQIIK 125
             ++  D V V+ G DKGK G++  V      V+V+ INL  KH K      + G I++
Sbjct: 2   AKIRRDDEVIVLTGKDKGKRGKVKNVLSSG-KVIVEGINLVKKHQKPVPALNQPGGIVE 59

>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 = 45.2 bits (107), Expect = 4e-07
 Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 6/73 (8%)

Query: 44  LIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK 103
            +   L    R+E    +      + V AGDTV+V+ G   G+ GE+  V    + + V+
Sbjct: 23  QVRATLSADLREEYGQRN------VRVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVE 76

Query: 104 DINLKTKHVKKRE 116
           D+ L+    ++  
Sbjct: 77  DVTLEKTDGEEVP 89

>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 = 36.6 bits (84), Expect = 7e-04
 Identities = 12/51 (23%), Positives = 23/51 (45%)

Query: 66  HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKRE 116
             + ++  D V V+ G  KG+ G+I+ V+R    V V  +  +  +     
Sbjct: 46  KALPIRRDDEVLVVRGSKKGQEGKISSVYRLKFAVQVDKVTKEKVNGASVP 96

>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 = 36.6 bits (84), Expect = 7e-04
 Identities = 13/51 (25%), Positives = 25/51 (49%)

Query: 66  HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKRE 116
             M V+  D V ++ G  KG  G++T+V+R    + V+ I+    +    +
Sbjct: 45  RSMPVRKDDEVLIVRGKFKGNKGKVTQVYRKKWAIHVEKISKNKLNGAPYQ 95

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	143
3bbo_W	191	Ribosomal protein L24; large ribosomal subunit, sp	100.0
3v2d_Y	110	50S ribosomal protein L24; ribosome associated inh	99.93
2zjr_R	115	50S ribosomal protein L24; ribosome, large ribosom	99.92
3r8s_U	102	50S ribosomal protein L24; protein biosynthesis, R	99.92
2ftc_N	96	Mitochondrial ribosomal protein L24; mitochondrial	99.9
1vq8_T	120	50S ribosomal protein L24P; ribosome 50S, protein-	99.79
3j21_U	121	50S ribosomal protein L24P; archaea, archaeal, KIN	99.78
3u5e_Y	127	L33, YL33, 60S ribosomal protein L26-A; translatio	99.76
4a17_S	135	RPL26, 60S ribosomal protein L21; eukaryotic ribos	99.75
3iz5_Y	150	60S ribosomal protein L26 (L24P); eukaryotic ribos	99.74
2zkr_t	145	60S ribosomal protein L26; protein-RNA complex, 60	99.74
1nz9_A	58	Transcription antitermination protein NUSG; transc	98.17
2e6z_A	59	Transcription elongation factor SPT5; KOW motif, s	97.38
2jvv_A	181	Transcription antitermination protein NUSG; transc	97.35
3p8b_B	152	Transcription antitermination protein NUSG; transc	97.35
2do3_A	69	Transcription elongation factor SPT5; KOW motif, s	97.21
2ckk_A	127	KIN17; beta barrel, ribosomal protein, ribonucleop	96.7
2xhc_A	352	Transcription antitermination protein NUSG; 2.45A	96.05
1m1h_A	248	Transcription antitermination protein NUSG; transc	95.76
2joy_A	96	50S ribosomal protein L14E; protein solution struc	93.2
4a18_F	126	RPL14; ribosome, eukaryotic initiation factor 6, E	93.19
3iz5_N	134	60S ribosomal protein L14 (L14E); eukaryotic ribos	92.81
3izc_N	138	60S ribosomal protein RPL14 (L14E); eukaryotic rib	92.68
4a18_N	144	RPL27, ribosomal protein L22; ribosome, eukaryotic	92.46
3j21_5	83	50S ribosomal protein L14E; archaea, archaeal, KIN	92.13
2e70_A	71	Transcription elongation factor SPT5; KOW motif, s	89.7
1qp2_A	70	Protein (PSAE protein); mainly beta, roll, pleckst	84.97
3iz6_D	265	40S ribosomal protein S4 (S4E); eukaryotic ribosom	80.59

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

Probab=100.00  E-value=2.8e-53  Score=340.61  Aligned_cols=139  Identities=61%  Similarity=0.877  Sum_probs=74.5

Q ss_pred             ChhhhhhhhhccccccccccccCcccCCCCCCCccccCCCCceeeeeeeeeeeeeccCCCCCcccccceeeeCCEEEEEe
Q 032297            1 MAAMAALQSSMTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIA   80 (143)
Q Consensus         1 ~~~~~~~~~~~~~l~~~~~~f~g~~l~~~~~~~~~~~~~~~~~~~~~~~k~Werk~~kpn~lp~~~k~~IkkGD~V~VIs   80 (143)
                      |||| ||||||++||||+||||||||+|++.++.+++++++||++++++++|||++|+++++|+..+|+|++||+|+||+
T Consensus         1 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~lr~k~~~rslP~~~kmkIkKGD~V~VIa   79 (191)
T 3bbo_W            1 MAAM-VLQSSFTSLSLSSNSFLGQRLFPSPTTLQVKTEGHSPCLIVMRIKRWERKDCKPNSLPKLHKRHVKVGDTVKVIS   79 (191)
T ss_dssp             ---------------------------------------------------------------CTTSCCSCCSSCEEECS
T ss_pred             Ccch-hhhhhhhccccccccccCcccCCCccccCcccccCCceeeEecccHHHHHHhCCCCCCccccCeeecCCEEEEee
Confidence            8999 999999999999999999999988876667999999999999999999999999999998999999999999999


Q ss_pred             cCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCC
Q 032297           81 GCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        81 G~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      |+||||+|+|++|++++|+|+|||+|+.++|+||++++++|+|+++|+|||+|||..-.|
T Consensus        80 GkDKGK~GkVl~V~~k~~rViVEGVN~vkKH~Kp~~~~~~GgIv~kEaPIhiSNV~Lvdp  139 (191)
T 3bbo_W           80 GGEKGKIGEISKIHKHNSTVIIKDLNFKTKHVKSKEEGEQGQIIKIEAAIHSSNVMLILK  139 (191)
T ss_dssp             SSSTTCCCSCCCCCSSSCCCCCSSCCCCCCBCCSCCSSSCCBSSCCCCCCCGGGEEECSS
T ss_pred             cCCCCceEEEEEEECCCCEEEEeCCEEEEEecCCcccCCCCCEEEEecCcCHHHeEEEec
Confidence            999999999999999999999999999999999998899999999999999999988765

>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=99.93  E-value=1.7e-26  Score=171.52  Aligned_cols=75  Identities=32%  Similarity=0.467  Sum_probs=71.8

Q ss_pred             ccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCC
Q 032297           66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        66 ~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      .+|+|++||+|+||+|+||||+|+|++|++++++|+|||+|+.++|+||++++++|+|+++|+|||+|||..-.|
T Consensus         3 ~k~~IkkGD~V~Vi~GkdKGk~GkV~~V~~~~~~ViVEGvN~~kkh~kp~~~~~~Ggi~~~E~PIh~SNV~lv~p   77 (110)
T 3v2d_Y            3 VKMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFIEKEAPLHASKVRPICP   77 (110)
T ss_dssp             CCCSCCTTSEEEECSSTTTTCEEEEEEEEGGGTEEEETTSSEEEEECCSSSSSTTCCEEEEECCEEGGGEEEBCT
T ss_pred             cccccCCCCEEEEeEcCCCCeEeEEEEEECCCCEEEEeCEEEEEEEeCCCccCCCCCEEEEECCcCHHHeEEEcC
Confidence            478999999999999999999999999999999999999999999999998889999999999999999988655

>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=99.92  E-value=1.9e-26  Score=171.96  Aligned_cols=79  Identities=28%  Similarity=0.371  Sum_probs=74.0

Q ss_pred             CcccccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCC
Q 032297           62 LPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        62 lp~~~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      .+...+|+|++||+|+||+|+|||++|+|++|++++++|+|||+|+.++|+||++++++|+|+++|+|||+|||..-.|
T Consensus         8 ~~~~rkm~IkkGD~V~Vi~GkdKGk~GkV~~V~~~~~~V~VEGvN~~kkh~kp~~~~~~Ggiv~~e~PIh~SNV~lv~p   86 (115)
T 2zjr_R            8 SHHNDKLHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMTNPQGGQEQRELALHASKVALVDP   86 (115)
T ss_dssp             TTTTSCCSSCTTSEEECCSSSSTTCEEEEEEEETTTTEEEESSSCBCCCCCCTTSSSCCCCCCCBCCCBCSSSEECBSS
T ss_pred             cccceeCcccCCCEEEEeEcCCCCcEEEEEEEECCCCEEEEeCcEeEEEecCCCcCCCCCCEEEEEcccCHHHEEEEec
Confidence            3445678999999999999999999999999999999999999999999999998899999999999999999988765

>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=99.92  E-value=1.7e-25  Score=164.11  Aligned_cols=72  Identities=28%  Similarity=0.432  Sum_probs=68.2

Q ss_pred             ceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcc-cCCceEEEEeeceeecccccCCC
Q 032297           68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE-EEQGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        68 ~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~-~~~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      .+|++||+|+||+|+||||+|+|++|+++ ++|+|||+|+.++|.||+++ +++|+|+++|+|||+|||..-.|
T Consensus         2 ~~IkkGD~V~Vi~GkdKGk~GkV~~V~~~-~~ViVeGvN~~kkh~kp~~~~~~~Ggi~~~E~PIh~SNV~lv~p   74 (102)
T 3r8s_U            2 AKIRRDDEVIVLTGKDKGKRGKVKNVLSS-GKVIVEGINLVKKHQKPVPALNQPGGIVEKEAAIQVSNVAIFNA   74 (102)
T ss_dssp             CSSCSSCEEEECSSSSTTCEEEEEEEETT-TEEEETTCSEEEEEECCCSSSSCSCEEEEEECCEEGGGEEEEET
T ss_pred             CCccCCCEEEEeEcCCCCeeeEEEEEEeC-CEEEEeCeEEEEeccccCcccCCCCCEEEEECCcCHHHEEEEcC
Confidence            47999999999999999999999999999 99999999999999999986 89999999999999999987654

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

Probab=99.90  E-value=5e-24  Score=154.77  Aligned_cols=67  Identities=28%  Similarity=0.475  Sum_probs=64.4

Q ss_pred             CCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCC
Q 032297           73 GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        73 GD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      ||+|+||+|+||||+|+|++|++++++|+|||+|+.++|+||++ +++|+|+++|+|||+|||..-.|
T Consensus         1 GD~V~Vi~GkdKGk~GkV~~V~~~~~~ViVeGvN~~kkh~kp~~-~~~Ggiv~~e~pIh~SNV~lv~p   67 (96)
T 2ftc_N            1 GDTVEILEGKDAGKQGKVVQVIRQRNWVVVGGLNTHYRYIGKTM-DYRGTMIPSEAPLLHRQVKLVDP   67 (96)
T ss_pred             CCEEEEeEcCCCCcEEEEEEEECCCCEEEEeCCEEEEEEcCCCC-CCCCCEEEEecCcCHHHEEEEeC
Confidence            89999999999999999999999999999999999999999997 78999999999999999987655

>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=5.3e-20  Score=138.47  Aligned_cols=64  Identities=27%  Similarity=0.366  Sum_probs=57.4

Q ss_pred             ccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCC
Q 032297           66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        66 ~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      .+|+|++||+|+||+|+|||++|+|++|++++++|+|||+|+ +|        ++|+  +.|+|||+|||..-.|
T Consensus        39 r~~~IkkGD~V~Vi~G~dKGk~GkV~~V~~k~~~V~VEgvn~-kK--------~~Gg--~~e~pIh~SNV~i~~~  102 (120)
T 1vq8_T           39 RNVRVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVEDVTL-EK--------TDGE--EVPRPLDTSNVRVTDL  102 (120)
T ss_dssp             SEEECCTTCEEEECSSTTTTCEEEEEEEETTTTEEEETTCEE-EC--------SSSC--EEECCBCGGGEEEEEC
T ss_pred             ccccccCCCEEEEEecCCCCCEEEEEEEECCCCEEEEeCeEe-Ec--------CCCC--EEEeeechHHEEEEec
Confidence            467799999999999999999999999999999999999999 55        2456  8999999999987654

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

Probab=99.78  E-value=6.8e-20  Score=137.95  Aligned_cols=70  Identities=20%  Similarity=0.289  Sum_probs=60.5

Q ss_pred             eeccCCCCCcccccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeec
Q 032297           54 RKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLK  133 (143)
Q Consensus        54 rk~~kpn~lp~~~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiS  133 (143)
                      |.+|+.+      +|+|++||+|+||+|+|||++|+|++|++++++|+|||+|+.++|         |  .+.|+|||+|
T Consensus        36 R~ky~~r------~~~IkkGD~V~Vi~GkdKGk~GkV~~V~~k~~~V~VEgvn~~k~~---------G--~~~e~pIh~S   98 (121)
T 3j21_U           36 REKYKVR------NLPVRVGDKVRIMRGDYKGHEGKVVEVDLKRYRIYVEGATLRKTN---------G--TEVFYPIHPS   98 (121)
T ss_dssp             HHHTCCS------EEECCSSSEEEECSSSCSSEEEEEEEEETTTTEEEETTCEEECSS---------S--CEEECCBCGG
T ss_pred             HHHhCCc------ccccccCCEEEEeecCCCCcEeEEEEEEecCCEEEEeCeEEEecC---------C--cEEEcccCHH
Confidence            6667644      456999999999999999999999999999999999999998753         3  3889999999


Q ss_pred             ccccCCC
Q 032297          134 RNGSSKP  140 (143)
Q Consensus       134 nv~~~~~  140 (143)
                      ||..-.|
T Consensus        99 NV~l~~~  105 (121)
T 3j21_U           99 NVMIIEL  105 (121)
T ss_dssp             GEEEEEC
T ss_pred             HeEEEcC
Confidence            9987554

>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=99.76  E-value=3.1e-19  Score=135.54  Aligned_cols=71  Identities=24%  Similarity=0.367  Sum_probs=61.0

Q ss_pred             eeeccCCCCCcccccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceee
Q 032297           53 ERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALL  132 (143)
Q Consensus        53 erk~~kpn~lp~~~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhi  132 (143)
                      .|.+|+.+++|      |++||+|+||+|+|||++|+|++|++++++|+|||||+.+    +     .|.  +.|+|||+
T Consensus        39 Lr~ky~vrs~~------IkkgD~V~Vi~GkdKGk~GkV~~V~~kk~~V~VEgVn~~K----~-----~G~--~~e~pIh~  101 (127)
T 3u5e_Y           39 LRAQYGIKALP------IRRDDEVLVVRGSKKGQEGKISSVYRLKFAVQVDKVTKEK----V-----NGA--SVPINLHP  101 (127)
T ss_dssp             HHHHHTCCEEE------CCTTCEEEECSSTTTTCEEEEEEEEGGGTEEEEETCEEEC----S-----SSC--EEECCBCG
T ss_pred             HHHHhCcCccc------ccCCCEEEEeecCCCCccceEEEEECCCCEEEEeCeEEEC----C-----CCc--EEEcccch
Confidence            36778866665      8999999999999999999999999999999999999974    2     132  78999999


Q ss_pred             cccccCCC
Q 032297          133 KRNGSSKP  140 (143)
Q Consensus       133 Snv~~~~~  140 (143)
                      |||..-.|
T Consensus       102 SNV~i~~~  109 (127)
T 3u5e_Y          102 SKLVITKL  109 (127)
T ss_dssp             GGEEEEEC
T ss_pred             HHEEEEcc
Confidence            99987554

>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=99.75  E-value=6e-19  Score=135.21  Aligned_cols=71  Identities=24%  Similarity=0.338  Sum_probs=61.6

Q ss_pred             eeeccCCCCCcccccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceee
Q 032297           53 ERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALL  132 (143)
Q Consensus        53 erk~~kpn~lp~~~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhi  132 (143)
                      .|.+|+.+++|      |++||+|+||+|+|||++|+|++|++++++|+|||||+.+    +     .|  .+.|+|||+
T Consensus        38 Lr~ky~vRs~~------IkkgD~V~Vi~GkdKGk~GkV~~V~~kk~~V~VEgVn~~K----~-----~G--~~~e~pIh~  100 (135)
T 4a17_S           38 LRSKYNVRSMP------VRKDDEVLIVRGKFKGNKGKVTQVYRKKWAIHVEKISKNK----L-----NG--APYQIPLSA  100 (135)
T ss_dssp             HHHHHTCSEEE------CCTTCEEEECSSTTTTCEEEEEEEETTTTEEEETTCCEEE----T-----TT--EEECCCBCG
T ss_pred             HHHHhCCCccc------ccCCCEEEEeecCCCCceeeEEEEEcCCCEEEEeCeEEEc----C-----CC--CEEEcccch
Confidence            36778877666      8999999999999999999999999999999999999975    2     23  278999999


Q ss_pred             cccccCCC
Q 032297          133 KRNGSSKP  140 (143)
Q Consensus       133 Snv~~~~~  140 (143)
                      |||..-.|
T Consensus       101 SNV~i~~~  108 (135)
T 4a17_S          101 SQLVLTKL  108 (135)
T ss_dssp             GGEEEEEC
T ss_pred             HHEEEEcc
Confidence            99987655

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

Probab=99.74  E-value=1.7e-18  Score=133.83  Aligned_cols=63  Identities=19%  Similarity=0.382  Sum_probs=56.8

Q ss_pred             cceeeeCCEEEEEecCCCCeE-eEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCC
Q 032297           67 KMHVKAGDTVKVIAGCDKGKI-GEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        67 k~~IkkGD~V~VIsG~dKGK~-G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      .|+|++||+|+||+|+|||++ |+|++|++++++|+|||+|+    .||+     |  ++.|+|||+|||.+-.|
T Consensus        46 ~~~IkkGD~V~Vi~GkdKGk~~GkV~~V~~k~~~V~VEgvn~----~Kp~-----G--~~~e~PIh~SNV~lv~~  109 (145)
T 2zkr_t           46 SMPIRKDDEVQVVRGHYKGQQIGKVVQVYRKKYVIYIERVQR----EKAN-----G--TTVHVGIHPSKVVITRL  109 (145)
T ss_dssp             CCBCCTTCEEEECSSTTTTCCSEEEEEEETTTTEEEETTCEE----ECSS-----C--CEEECCBCGGGEEECC-
T ss_pred             ccccCCCCEEEEeecCCCCcceeEEEEEECCCCEEEEeeeEe----EcCC-----C--ceEEeccCHHHEEEEcC
Confidence            467999999999999999999 99999999999999999998    4553     4  89999999999998766

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

Probab=98.17  E-value=1.7e-06  Score=55.83  Aligned_cols=36  Identities=25%  Similarity=0.381  Sum_probs=33.2

Q ss_pred             ceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        68 ~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      ..+.+||+|.|+.|+++|..|+|.+++.++.++.|.
T Consensus         3 ~~~~~Gd~V~V~~Gpf~g~~g~v~~v~~~k~~v~V~   38 (58)
T 1nz9_A            3 VAFREGDQVRVVSGPFADFTGTVTEINPERGKVKVM   38 (58)
T ss_dssp             CSCCTTCEEEECSGGGTTCEEEEEEEETTTTEEEEE
T ss_pred             cccCCCCEEEEeecCCCCcEEEEEEEcCCCCEEEEE
Confidence            347899999999999999999999999999898886

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

Probab=97.38  E-value=5.6e-05  Score=49.48  Aligned_cols=30  Identities=27%  Similarity=0.241  Sum_probs=27.1

Q ss_pred             cceeeeCCEEEEEecCCCCeEeEEEEEEcc
Q 032297           67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRH   96 (143)
Q Consensus        67 k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k   96 (143)
                      +..+.+||.|+|+.|+++|-.|+|.+|+.+
T Consensus         5 ~~~f~~GD~V~V~~Gpf~g~~G~V~evd~e   34 (59)
T 2e6z_A            5 SSGFQPGDNVEVCEGELINLQGKILSVDGN   34 (59)
T ss_dssp             CSSCCTTSEEEECSSTTTTCEEEECCCBTT
T ss_pred             cccCCCCCEEEEeecCCCCCEEEEEEEeCC
Confidence            345799999999999999999999999975

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

Probab=97.35  E-value=0.00018  Score=54.89  Aligned_cols=37  Identities=24%  Similarity=0.210  Sum_probs=33.1

Q ss_pred             cceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        67 k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      +..+.+||+|.|+.|+++|-.|.|.+|+.+++++.|.
T Consensus       125 ~~~~~~Gd~V~V~~GPf~g~~G~v~~v~~~k~r~~V~  161 (181)
T 2jvv_A          125 KTLFEPGEMVRVNDGPFADFNGVVEEVDYEKSRLKVS  161 (181)
T ss_dssp             CCCCCTTEEEEECSSTTTTEEEEEEEEETTTTEEEEE
T ss_pred             cccCCCCCEEEEeccCCCCcEEEEEEEeCCCCEEEEE
Confidence            4467899999999999999999999999988888664

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

Probab=97.35  E-value=0.00021  Score=53.39  Aligned_cols=36  Identities=33%  Similarity=0.473  Sum_probs=33.6

Q ss_pred             ceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        68 ~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      ..+.+||+|.|+.|+++|-.|.|.+|+.+++++.|+
T Consensus        90 ~~~~~Gd~VrI~~Gpf~g~~g~V~~vd~~k~~v~V~  125 (152)
T 3p8b_B           90 SGLEPGDLVEVIAGPFKGQKAKVVKIDESKDEVVVQ  125 (152)
T ss_dssp             TTCCTTCEEEECSSTTTTCEEEEEEEETTTTEEEEE
T ss_pred             ccCCCCCEEEEeeecCCCCEEEEEEEeCCCCEEEEE
Confidence            457999999999999999999999999999998887

>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=97.21  E-value=0.00053  Score=47.09  Aligned_cols=45  Identities=33%  Similarity=0.451  Sum_probs=35.0

Q ss_pred             eeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecC
Q 032297           69 HVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKK  114 (143)
Q Consensus        69 ~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp  114 (143)
                      +++.||-|+||.|++.|..|.|++|..+ .-+++-|.++..-.+-+
T Consensus        17 ~F~~GDHVkVi~G~~~getGlVV~v~~d-~v~v~SD~t~~Ei~V~~   61 (69)
T 2do3_A           17 YFKMGDHVKVIAGRFEGDTGLIVRVEEN-FVILFSDLTMHELKVLP   61 (69)
T ss_dssp             SCCTTCEEEESSSTTTTCEEEEEEECSS-CEEEEESSSCSEEEECT
T ss_pred             eccCCCeEEEeccEEcCceEEEEEEeCC-EEEEEeCCCCCEEEEEh
Confidence            5899999999999999999999999843 45566777655444433

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

Probab=96.70  E-value=0.0018  Score=48.24  Aligned_cols=33  Identities=15%  Similarity=0.338  Sum_probs=31.4

Q ss_pred             eeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           71 KAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        71 kkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      ++||+|.|+.|+++|..|++++++.++..++|+
T Consensus        72 ~~g~~V~Iv~G~~rG~~g~L~~id~~~~~~~V~  104 (127)
T 2ckk_A           72 APGKRILVLNGGYRGNEGTLESINEKTFSATIV  104 (127)
T ss_dssp             CTTCEEEECSSTTTTCEEEEEEEEGGGTEEEEE
T ss_pred             CCCCEEEEEecccCCcEEEEEEEeCCCcEEEEE
Confidence            789999999999999999999999998888887

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

Probab=96.05  E-value=0.0062  Score=52.05  Aligned_cols=37  Identities=27%  Similarity=0.369  Sum_probs=33.0

Q ss_pred             cceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        67 k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      ...+..||+|.|+.|+++|-.|.|.+++.+++++.|.
T Consensus       296 ~~~f~~Gd~VrV~~GPF~G~~G~V~evd~ek~rv~V~  332 (352)
T 2xhc_A          296 ELGFKVGDMVKIISGPFEDFAGVIKEIDPERQELKVN  332 (352)
T ss_dssp             -CCCCTTCEEEECSSTTTTCEEEEEEEETTTTEEEEE
T ss_pred             cccCCCCCEEEEeccCCCCcEEEEEEEcCCCCEEEEE
Confidence            4457899999999999999999999999998888775

>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=95.76  E-value=0.0016  Score=53.22  Aligned_cols=37  Identities=27%  Similarity=0.383  Sum_probs=0.0

Q ss_pred             cceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        67 k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      +..+.+||+|.|++|+++|-.|.|.+|+.+++++.|.
T Consensus       192 ~~~~~~Gd~V~I~~Gpf~g~~G~v~ev~~~k~~~~V~  228 (248)
T 1m1h_A          192 KVEFEKGDQVRVIEGPFMNFTGTVEEVHPEKRKLTVM  228 (248)
T ss_dssp             -------------------------------------
T ss_pred             cccCCCCCEEEEeccCCCCcEEEEEEEeCCCCEEEEE
Confidence            4567899999999999999999999999988777664

>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=93.20  E-value=0.046  Score=38.75  Aligned_cols=36  Identities=17%  Similarity=0.316  Sum_probs=31.7

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEecee
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDIN  106 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN  106 (143)
                      +..|-.|.+++|+|+||...|+++.. ++.|+|.|-.
T Consensus         4 v~~GrVv~~~~Gr~~Gk~~VIv~~iD-~~~vLV~gp~   39 (96)
T 2joy_A            4 IEVGRICVKVKGREAGSKCVIVDIID-DNFVLVTGPK   39 (96)
T ss_dssp             SSTTEEEECSSSSTTCCEEEEEEECS-SSCEEEECCT
T ss_pred             cccCEEEEEeecCCCCCEEEEEEEeC-CCEEEEECCc
Confidence            67899999999999999999999984 5789998863

>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=93.19  E-value=0.13  Score=38.72  Aligned_cols=36  Identities=25%  Similarity=0.520  Sum_probs=32.8

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEecee
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDIN  106 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN  106 (143)
                      +..|=.|.|..|++.|+...|++|..+ |+|+|+|-.
T Consensus         7 vevGRVv~i~~G~~aGklavIVdIID~-nrvLVdGp~   42 (126)
T 4a18_F            7 VQVGRVVYINYGADKGKLAVIVNIINQ-NRILIDGEH   42 (126)
T ss_dssp             EETTEEEEECSSTTTTEEEEEEEEETT-TEEEEEETT
T ss_pred             eecceEEEEccCCccCCEEEEEEEecC-CeEEEeCCC
Confidence            678889999999999999999999976 799999976

>4a18_N RPL27, ribosomal protein L22; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_N 4a1b_N 4a1d_N

Probab=92.46  E-value=0.15  Score=39.13  Aligned_cols=40  Identities=25%  Similarity=0.306  Sum_probs=35.2

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEccC------CEEEEeceeeee
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRHN------STVMVKDINLKT  109 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k~------n~ViVegvN~~k  109 (143)
                      +++|=.|.|++|++.|+...|++++.+.      ++++|.|+....
T Consensus         5 ~kpGrVvivl~Gr~aGkkaVIvk~iD~gt~d~~y~~aLVaGIdryP   50 (144)
T 4a18_N            5 LKYGRVVILLQGRFAGKKAVIVKSSEDGTKDRKFGHVLVAGVERSP   50 (144)
T ss_dssp             CCTTEEEEECSSTTTTCEEEEEEEESSCCSSCCSCEEEEEEEEECC
T ss_pred             ccCCeEEEEecCCcCCCEEEEEEecCCCccCCccceEEEEecccCC
Confidence            6789899999999999999999999775      899999986443

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

Probab=92.13  E-value=0.072  Score=37.11  Aligned_cols=36  Identities=22%  Similarity=0.355  Sum_probs=31.7

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEecee
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDIN  106 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN  106 (143)
                      +..|-.|.+..|+|+|+...|+++..+ ++|+|.|-.
T Consensus         4 ~~~Grvv~~~~Gr~~Gk~~vIv~iiD~-~~vlV~g~~   39 (83)
T 3j21_5            4 IDVGRIAVVIAGRRAGQKVVVVDIIDK-NFVLVTGAG   39 (83)
T ss_dssp             CCTTEEEECSSSSSSCCCEEEEEECSS-SCEEEECCT
T ss_pred             cccCEEEEEeecCCCCCEEEEEEEcCC-CEEEEECCc
Confidence            678999999999999999999998765 688888864

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

Probab=89.70  E-value=0.37  Score=32.95  Aligned_cols=31  Identities=32%  Similarity=0.417  Sum_probs=25.4

Q ss_pred             eeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           71 KAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        71 kkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      ..|-+|.|..|++||..|.|..+...  .+-||
T Consensus        19 liGktV~I~kGpyKG~~GiVkd~t~~--~~RVE   49 (71)
T 2e70_A           19 LIGQTVRISQGPYKGYIGVVKDATES--TARVE   49 (71)
T ss_dssp             STTSEEEECSSTTTTCEEEEEEECSS--CEEEE
T ss_pred             cCCCEEEEeccCCCCeEEEEEECCCC--eEEEE
Confidence            35779999999999999999888665  55555

>1qp2_A Protein (PSAE protein); mainly beta, roll, pleckstrin topology, SH3-like, electron T; NMR {Nostoc SP} SCOP: b.34.4.2 PDB: 1qp3_A

Probab=84.97  E-value=0.77  Score=31.54  Aligned_cols=38  Identities=18%  Similarity=0.283  Sum_probs=31.8

Q ss_pred             eeeCCEEEEEecC--CCCeEeEEEEEEccC----CEEEEeceee
Q 032297           70 VKAGDTVKVIAGC--DKGKIGEITKVFRHN----STVMVKDINL  107 (143)
Q Consensus        70 IkkGD~V~VIsG~--dKGK~G~V~~V~~k~----n~ViVegvN~  107 (143)
                      |.+|+.|.|++=.  +-+.+|.|.+|+...    -.|..|++|-
T Consensus         2 i~rGs~VrIlr~eSywy~~vG~V~~Vd~~~~~ypV~VrFekvNy   45 (70)
T 1qp2_A            2 VQRGSKVRILRPESYWFQDVGTVASVDQSGIKYPVIVRFEKVNY   45 (70)
T ss_dssp             CCTTCEEEECCTTSTTTTCEEEEEEECCSSCSCSEEEECSSCCS
T ss_pred             cCCCCEEEEcCccceeecceeEEEEEeCCCcEeeEEEEeccccc
Confidence            6899999999986  679999999999875    3567778875

>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}

Probab=80.59  E-value=1.9  Score=35.97  Aligned_cols=41  Identities=27%  Similarity=0.467  Sum_probs=33.4

Q ss_pred             ccceeeeCCEEEEEecCCCCeEeEEEEEEccC---CEEEEecee
Q 032297           66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHN---STVMVKDIN  106 (143)
Q Consensus        66 ~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~---n~ViVegvN  106 (143)
                      .-.++..|-.|.|+.|.+-|++|+|..+.++.   +.|.|+|-+
T Consensus       171 d~ikfe~Gnl~mvtgG~n~GriG~I~~ie~~~gs~~iV~vkd~~  214 (265)
T 3iz6_D          171 DFIKFDVGNVVMVTGGRNTGRVGVIKNREKHKGSFETIHVEDAL  214 (265)
T ss_dssp             EEECCSTTCEEEECSSSSCSCEEEEEEEECCSSSCCEEEECCCS
T ss_pred             eEEEccCCCEEEEEcCCcceEEEEEEEEEEecCCCcEEEEEECC
Confidence            34567788899999999999999999999864   577887654

---

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	143
d2j01y1	101	b.34.5.1 (Y:2-102) Ribosomal proteins L24 (L24p) {	5e-16
d2zjrr1	110	b.34.5.1 (R:4-113) Ribosomal proteins L24 (L24p) {	6e-15
d1vqot1	119	b.34.5.1 (T:1-119) Ribosomal proteins L24 (L24p) {	7e-14
d2gycs1	99	b.34.5.1 (S:3-101) Ribosomal proteins L24 (L24p) {	1e-11

>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 = 66.7 bits (163), Expect = 5e-16
 Identities = 23/59 (38%), Positives = 36/59 (61%)

Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
           KMHVK GDTV V +G  KG++G++ +V      V+V+ +N+  K V+   +  QG  I+
Sbjct: 3   KMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFIE 61

>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 = 64.0 bits (156), Expect = 6e-15
 Identities = 21/62 (33%), Positives = 35/62 (56%)

Query: 67  KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKL 126
           K+H K GDTV V++G  KG+ G++      +  V+V+ +N+ TK+VK      QG   + 
Sbjct: 10  KLHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMTNPQGGQEQR 69

Query: 127 KC 128
           + 
Sbjct: 70  EL 71

>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 = 61.6 bits (150), Expect = 7e-14
 Identities = 19/89 (21%), Positives = 38/89 (42%), Gaps = 9/89 (10%)

Query: 44  LIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK 103
            +   L    R+E    +      + V AGDTV+V+ G   G+ GE+  V    + + V+
Sbjct: 22  QVRATLSADLREEYGQRN------VRVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVE 75

Query: 104 DINLKTKHVKKRE---EEEQGQIIKLKCD 129
           D+ L+    ++     +    ++  L  +
Sbjct: 76  DVTLEKTDGEEVPRPLDTSNVRVTDLDLE 104

>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 = 55.1 bits (133), Expect = 1e-11
 Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 70  VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKR-EEEEQGQIIK 125
           ++  D V V+ G DKGK G++  V      V+V+ INL  KH K      + G I++
Sbjct: 2   IRRDDEVIVLTGKDKGKRGKVKNVLSSG-KVIVEGINLVKKHQKPVPALNQPGGIVE 57

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	143
d2zjrr1	110	Ribosomal proteins L24 (L24p) {Deinococcus radiodu	99.93
d2j01y1	101	Ribosomal proteins L24 (L24p) {Thermus thermophilu	99.91
d2gycs1	99	Ribosomal proteins L24 (L24p) {Escherichia coli [T	99.9
d1vqot1	119	Ribosomal proteins L24 (L24p) {Archaeon Haloarcula	99.81
d1nppa2	58	N-utilization substance G protein NusG, C-terminal	98.01
d1nz9a_	58	N-utilization substance G protein NusG, C-terminal	97.95
d2do3a1	62	Transcription elongation factor SPT5 {Human (Homo	97.17
d2joya1	96	Ribosomal protein L14e {Sulfolobus solfataricus [T	91.89

>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=99.93  E-value=1.8e-27  Score=174.90  Aligned_cols=77  Identities=29%  Similarity=0.395  Sum_probs=72.8

Q ss_pred             ccccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCC
Q 032297           64 VLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        64 ~~~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      ...+|+|++||+|+||+|+||||+|+|++|++++++|+|||+|+.++|+||++++++|+|+++|+|||+|||..-.|
T Consensus         7 ~~~K~kikkGD~V~VisGkdKGk~G~Vl~V~~~~~~ViVeGvN~~kkh~Kp~~~~~~Ggiv~~E~PIhiSNV~lvdp   83 (110)
T d2zjrr1           7 HNDKLHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMTNPQGGQEQRELALHASKVALVDP   83 (110)
T ss_dssp             TTSCCSSCTTSEEECCSSSSTTCEEEEEEEETTTTEEEESSSCBCCCCCCTTSSSCCCCCCCBCCCBCSSSEECBSS
T ss_pred             ccceeeeeCCCEEEEeecCCCCcceEEEEEECCCCEEEEeCcEEEEEEecccccCCCCCeEeeeeeEEhhhEEEEcC
Confidence            44689999999999999999999999999999999999999999999999999999999999999999999987544

>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=99.91  E-value=2.8e-27  Score=171.58  Aligned_cols=75  Identities=32%  Similarity=0.467  Sum_probs=70.9

Q ss_pred             ccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEEEEeeceeecccccCCC
Q 032297           66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        66 ~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      -+|+|++||+|+||+|+|||++|+|++|++++|+|+|||+|+.++|+||++++++|+|+++|+|||+|||..--|
T Consensus         2 ~K~kIkkGD~V~VisGkdKGk~G~Vl~V~~~~~~ViVeGvN~~kkh~k~~~~~~~Ggi~~~E~pIh~SNV~lv~~   76 (101)
T d2j01y1           2 VKMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFIEKEAPLHASKVRPICP   76 (101)
T ss_dssp             CCCCSCCSSCEECCSSTTSSCCBSCCCCCCTTCBCCTTSCCCCCCCCCSCCCSSCCCSSCCCCCCBGGGCEECSS
T ss_pred             cccEEECCCEEEEeeCCCCCCeEEEEEEECCCCEEEEEcceEEEEeecCCCCCCccceEEEEccccHHHeEEEeC
Confidence            478999999999999999999999999999999999999999999999999889999999999999999975433

>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=99.90  E-value=2.8e-25  Score=160.58  Aligned_cols=71  Identities=28%  Similarity=0.436  Sum_probs=65.4

Q ss_pred             eeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCC-cccCCceEEEEeeceeecccccCCC
Q 032297           69 HVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKR-EEEEQGQIIKLKCDALLKRNGSSKP  140 (143)
Q Consensus        69 ~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~-~~~~~GgIi~~E~PIhiSnv~~~~~  140 (143)
                      +|++||+|+||+|+||||+|+|++|++ +++|+|||+|+.++|+||+ +.+++|+|+++|+|||+|||..--|
T Consensus         1 KikkGD~V~VisGkdKGK~G~V~~V~~-~~~viVeGvN~~kkh~Kp~~~~~~~Ggiv~~E~pIh~SNV~lvd~   72 (99)
T d2gycs1           1 KIRRDDEVIVLTGKDKGKRGKVKNVLS-SGKVIVEGINLVKKHQKPVPALNQPGGIVEKEAAIQVSNVAIFNA   72 (99)
T ss_dssp             CCCTTSEEECSSSTTTTCEEEEEEECT-TSEEEETTCCEECTTCCEECCCSCCCSSCCCSCCEETTTCCSSCS
T ss_pred             CccCCCEEEEeeCCCCCCceEEEEEEC-CCeEEEeCeEEEEEEeCCCCCcCCCCCEEEEEeeEEhhHEEEEcC
Confidence            479999999999999999999999987 5899999999999999996 4588999999999999999987544

>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=99.81  E-value=2.2e-21  Score=144.06  Aligned_cols=79  Identities=23%  Similarity=0.256  Sum_probs=70.7

Q ss_pred             eeeeeeeeeeeccCCCCCcccccceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecCCcccCCceEE
Q 032297           45 IVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII  124 (143)
Q Consensus        45 ~~~~~k~Werk~~kpn~lp~~~k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp~~~~~~GgIi  124 (143)
                      ....+.+|.|++|+.++++      |++||+|+||+|+|||++|+|++|++++++|+|||+|+.++|.++          
T Consensus        23 m~a~LskeLr~k~~~r~~~------IkkGD~V~Vi~Gk~KGk~GkV~~V~~k~~~V~Vegin~~k~~~k~----------   86 (119)
T d1vqot1          23 VRATLSADLREEYGQRNVR------VNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVEDVTLEKTDGEE----------   86 (119)
T ss_dssp             GEEEECHHHHHHHTCSEEE------CCTTCEEEECSSTTTTCEEEEEEEETTTTEEEETTCEEECTTSCE----------
T ss_pred             eeCccChhhHHHhCCcccc------eeCCCEEEEeecCCCCCcceEEEEECCCCEEEEeCcEEEecCCce----------
Confidence            4467888999999977655      899999999999999999999999999999999999999888763          


Q ss_pred             EEeeceeecccccCCC
Q 032297          125 KLKCDALLKRNGSSKP  140 (143)
Q Consensus       125 ~~E~PIhiSnv~~~~~  140 (143)
                       .|+|||+|||.+-.|
T Consensus        87 -~~~pIh~SNv~i~~~  101 (119)
T d1vqot1          87 -VPRPLDTSNVRVTDL  101 (119)
T ss_dssp             -EECCBCGGGEEEEEC
T ss_pred             -eeccCchHHEEEEeC
Confidence             689999999987655

>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=98.01  E-value=2.7e-06  Score=54.39  Aligned_cols=37  Identities=27%  Similarity=0.383  Sum_probs=33.3

Q ss_pred             cceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        67 k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      |..+.+||+|.|++|+++|-+|+|.+++.++.++.|.
T Consensus         2 kvdf~~Gd~V~I~~GpF~g~~g~V~~i~~~~~rv~V~   38 (58)
T d1nppa2           2 KVEFEKGDQVRVIEGPFMNFTGTVEEVHPEKRKLTVM   38 (58)
T ss_dssp             SCSCCTTCEEEECSSTTTTCEEEEEEEEGGGTEEEEE
T ss_pred             cccccCCCEEEEcccCCCCCEEEEEEEcCCCCEEEEE
Confidence            3457899999999999999999999999998888775

>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=97.95  E-value=3.5e-06  Score=53.95  Aligned_cols=37  Identities=24%  Similarity=0.384  Sum_probs=33.4

Q ss_pred             cceeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEe
Q 032297           67 KMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK  103 (143)
Q Consensus        67 k~~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVe  103 (143)
                      +..+++||+|.|+.|++.|-+|+|.+++.++.+|.|.
T Consensus         2 ~v~F~~Gd~V~I~~GpF~g~~g~V~~i~~~k~rv~V~   38 (58)
T d1nz9a_           2 QVAFREGDQVRVVSGPFADFTGTVTEINPERGKVKVM   38 (58)
T ss_dssp             CCSCCTTCEEEECSGGGTTCEEEEEEEETTTTEEEEE
T ss_pred             cccccCCCEEEEeccCCCCCEEEEEEEcCCCCEEEEE
Confidence            3457999999999999999999999999999888775

>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=97.17  E-value=0.00036  Score=45.51  Aligned_cols=45  Identities=36%  Similarity=0.471  Sum_probs=34.5

Q ss_pred             eeeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEeceeeeeeeecC
Q 032297           69 HVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKK  114 (143)
Q Consensus        69 ~IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVegvN~~kkhvKp  114 (143)
                      +++.||-|+||.|++.|..|-|++|.. +.-+++-|.++..-.+-+
T Consensus        10 ~F~~GDhVkVi~G~~~g~tGlVV~v~~-~~v~~~SD~t~~Ei~V~~   54 (62)
T d2do3a1          10 YFKMGDHVKVIAGRFEGDTGLIVRVEE-NFVILFSDLTMHELKVLP   54 (62)
T ss_dssp             SCCTTCEEEESSSTTTTCEEEEEEECS-SCEEEEESSSCSEEEECT
T ss_pred             ccCCCCeEEEeccEEcCccEEEEEEeC-CEEEEEeCCCCCEEEEeh
Confidence            479999999999999999999999943 345566676655544444

>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=91.89  E-value=0.041  Score=37.82  Aligned_cols=34  Identities=18%  Similarity=0.335  Sum_probs=30.9

Q ss_pred             eeeCCEEEEEecCCCCeEeEEEEEEccCCEEEEec
Q 032297           70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKD  104 (143)
Q Consensus        70 IkkGD~V~VIsG~dKGK~G~V~~V~~k~n~ViVeg  104 (143)
                      |..|=.|.|+.|+|+||...|+++..+ |+++|+|
T Consensus         4 VevGrV~ii~~G~~~GK~~vIvdiid~-~rvLVdG   37 (96)
T d2joya1           4 IEVGRICVKVKGREAGSKCVIVDIIDD-NFVLVTG   37 (96)
T ss_dssp             SSTTEEEECSSSSTTCCEEEEEEECSS-SCEEEEC
T ss_pred             eeccEEEEEeecCCCCCEEEEEEEecC-CeEEEec
Confidence            577888999999999999999999875 7999998