Citrus Sinensis ID: 031725

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150----
Protein Sequence
MATMATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE
Secondary Structure (PSIPRED)
ccccccccEEEEcccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccEEEEEEEccHHHHHccccHHHHHHHcccccccc
Secondary Structure Prediction (SSPRO)
ccEEEccccEEEcccEEccccccccccHHcccccccHHHHcHHHHHHcccEEEcccccccccccccccccccccEEEEEEEEcccccccccccccccccccHHcccccccccEEEEEccccEEEEEEcHHHHHHHHHccHHHHHHHHccccccc
Coil and Loop (DISEMBL)
matmatpggvllgntsnlpfrrprlspksmVKAVSSSEELGFVTSQLSGikisyslpdvatpissrpfapglqpivarrvcpftgkksnkankvsfsnhkttkrQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE
Flexible Loop (DISEMBL)
matmatpggvllgntsnlpfrrpRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVATPISsrpfapglqpIVARRVCpftgkksnkankvsfsnhkttkrqfvnlQYKKVWWEAGKRYVKLRLSTKalktiekngldavakkagidlrke
Low Complexity Region (SEG)
MATMATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE
Disordered region (IsUnstruct)
****************************************GFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPIVARRVCPFTG***************TTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAV***********
Disordered Region (DISOPRED)
********GV***N*************************************************************VARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGID****
Disordered Region (DISEMBL)
MATMATPGGVLLGNTSNLPFRRPRLS**********SEELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE
Disordered Region (DISPRO)
*ATMATPGGVLLGNTSNLPFRRPRLSPK*M*****S*EELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPIVARRVCPFTGKKS**************KRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLR**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MATMATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE
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	154	2.2.26 [Sep-21-2011]
O22795	143	50S ribosomal protein L28	yes	no	0.928	1.0	0.701	2e-53
P30956	151	50S ribosomal protein L28	N/A	no	0.759	0.774	0.762	7e-45
B8HUV7	78	50S ribosomal protein L28	yes	no	0.487	0.961	0.613	1e-20
Q8DG62	78	50S ribosomal protein L28	yes	no	0.487	0.961	0.613	2e-20
B7K8R0	78	50S ribosomal protein L28	yes	no	0.474	0.935	0.589	8e-20
B1XIH9	78	50S ribosomal protein L28	yes	no	0.487	0.961	0.6	1e-19
Q5N223	78	50S ribosomal protein L28	yes	no	0.487	0.961	0.56	2e-18
Q31S95	78	50S ribosomal protein L28	yes	no	0.487	0.961	0.56	2e-18
Q2JMK8	78	50S ribosomal protein L28	yes	no	0.487	0.961	0.565	4e-18
Q2JQF8	78	50S ribosomal protein L28	yes	no	0.487	0.961	0.565	4e-18

>sp|O22795|RK28_ARATH 50S ribosomal protein L28, chloroplastic OS=Arabidopsis thaliana GN=RPL28 PE=2 SV=2

 Score =  207 bits (528), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 108/154 (70%), Positives = 122/154 (79%), Gaps = 11/154 (7%)

Query: 1   MATMATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVA 60
           M TMAT G  L          R   S KSM K+  +S+ELGF+TSQLSG++ISY+  DV 
Sbjct: 1   MTTMATQGAWL----------RMTSSAKSMTKSTVTSKELGFLTSQLSGLRISYTPSDVI 50

Query: 61  TPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGK 120
             IS  P  PG+QPIVARR+CPFTGKK+N+ANKVSFSNHKT K QFVNLQYK+VWWEAGK
Sbjct: 51  NRIS-LPSFPGIQPIVARRICPFTGKKANRANKVSFSNHKTKKLQFVNLQYKRVWWEAGK 109

Query: 121 RYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           R+VKLRLSTKALKTIEKNGLDAVAKKAGIDLRK+
Sbjct: 110 RFVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKK 143

Arabidopsis thaliana (taxid: 3702)

>sp|P30956|RK28_TOBAC 50S ribosomal protein L28, chloroplastic OS=Nicotiana tabacum GN=RPL28 PE=1 SV=1

 Score =  179 bits (453), Expect = 7e-45,   Method: Compositional matrix adjust.
 Identities = 90/118 (76%), Positives = 100/118 (84%), Gaps = 1/118 (0%)

Query: 37  SEELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSF 96
           S EL FVTSQLSG+KIS +    ++   S PF P LQP VARR+CPFTGKKSN+ANKVS 
Sbjct: 35  SSELSFVTSQLSGLKISSTHFISSSAPLSVPFKPSLQP-VARRICPFTGKKSNRANKVSH 93

Query: 97  SNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           SNHKT K QFVNLQYK++WWEAGKRYVKLRLSTKA+KTIEKNGLDAVAKKAGIDL K+
Sbjct: 94  SNHKTKKLQFVNLQYKRIWWEAGKRYVKLRLSTKAIKTIEKNGLDAVAKKAGIDLSKK 151

Nicotiana tabacum (taxid: 4097)

>sp|B8HUV7|RL28_CYAP4 50S ribosomal protein L28 OS=Cyanothece sp. (strain PCC 7425 / ATCC 29141) GN=rpmB PE=3 SV=1

 Score = 99.0 bits (245), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 46/75 (61%), Positives = 59/75 (78%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           RVC  TGK++N A  VS S+ +T K Q VNLQ+K++WW  GKR+V+LRLSTKALKT+E  
Sbjct: 3   RVCQLTGKRANNAYAVSHSHRRTKKLQEVNLQWKRIWWPQGKRWVRLRLSTKALKTLEHK 62

Query: 139 GLDAVAKKAGIDLRK 153
           GLD+ A++AGIDL K
Sbjct: 63  GLDSFAREAGIDLNK 77

Cyanothece sp. (strain PCC 7425 / ATCC 29141) (taxid: 395961)

>sp|Q8DG62|RL28_THEEB 50S ribosomal protein L28 OS=Thermosynechococcus elongatus (strain BP-1) GN=rpmB PE=3 SV=2

 Score = 97.8 bits (242), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 46/75 (61%), Positives = 59/75 (78%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           RVC  TGKK+N A  +S S+ +T K Q VNLQ+K+VWW  GKR+V+LRLSTKA+KT+E+ 
Sbjct: 3   RVCQLTGKKANNAYAISHSHRRTKKLQQVNLQWKRVWWPEGKRWVRLRLSTKAIKTLERK 62

Query: 139 GLDAVAKKAGIDLRK 153
           GL A AK+AG+DL K
Sbjct: 63  GLSAFAKEAGLDLNK 77

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

>sp|B7K8R0|RL28_CYAP7 50S ribosomal protein L28 OS=Cyanothece sp. (strain PCC 7424) GN=rpmB PE=3 SV=1

 Score = 95.9 bits (237), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 43/73 (58%), Positives = 58/73 (79%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           R C  TGKK+N A  +S S+ +T + Q  NLQ+K++WWE GKR+VKLRLSTKA+KT+EK 
Sbjct: 3   RHCELTGKKANNAFSISHSHRRTKRLQHANLQWKRIWWEEGKRWVKLRLSTKAIKTLEKK 62

Query: 139 GLDAVAKKAGIDL 151
           GL ++AK+AGI+L
Sbjct: 63  GLASMAKEAGINL 75

Cyanothece sp. (strain PCC 7424) (taxid: 65393)

>sp|B1XIH9|RL28_SYNP2 50S ribosomal protein L28 OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=rpmB PE=3 SV=1

 Score = 95.5 bits (236), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 45/75 (60%), Positives = 59/75 (78%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           R C  TGKK+N A  VS S+ +T K Q VNLQ+K+VWW  G R+V+LRLSTKA+KT+EK 
Sbjct: 3   RKCQITGKKANNAMAVSHSHRRTKKLQEVNLQWKRVWWPEGNRFVRLRLSTKAIKTLEKK 62

Query: 139 GLDAVAKKAGIDLRK 153
           G+DA+A++AGI+L K
Sbjct: 63  GIDAMAREAGINLNK 77

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

>sp|Q5N223|RL28_SYNP6 50S ribosomal protein L28 OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=rpmB PE=3 SV=1

 Score = 91.3 bits (225), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 42/75 (56%), Positives = 57/75 (76%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           RVC  TGKK+N A  +S S+ +T + Q VNLQ K++WW  G R+VKLRLSTKA+KT++K 
Sbjct: 3   RVCQLTGKKANNAYAISHSHRRTKRLQNVNLQEKRIWWPEGNRFVKLRLSTKAIKTLQKK 62

Query: 139 GLDAVAKKAGIDLRK 153
           GL A A++ GIDL++
Sbjct: 63  GLSAYARELGIDLKR 77

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

>sp|Q31S95|RL28_SYNE7 50S ribosomal protein L28 OS=Synechococcus elongatus (strain PCC 7942) GN=rpmB PE=3 SV=1

 Score = 91.3 bits (225), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 42/75 (56%), Positives = 57/75 (76%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           RVC  TGKK+N A  +S S+ +T + Q VNLQ K++WW  G R+VKLRLSTKA+KT++K 
Sbjct: 3   RVCQLTGKKANNAYAISHSHRRTKRLQNVNLQEKRIWWPEGNRFVKLRLSTKAIKTLQKK 62

Query: 139 GLDAVAKKAGIDLRK 153
           GL A A++ GIDL++
Sbjct: 63  GLSAYARELGIDLKR 77

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

>sp|Q2JMK8|RL28_SYNJB 50S ribosomal protein L28 OS=Synechococcus sp. (strain JA-2-3B'a(2-13)) GN=rpmB PE=3 SV=1

 Score = 90.5 bits (223), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 43/76 (56%), Positives = 59/76 (77%), Gaps = 1/76 (1%)

Query: 76  VARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTI 135
           +ARR C  T KK N A  +S S+ +T + Q VNLQ+K++WWE GKR+V+LRLSTKALKT+
Sbjct: 1   MARR-CQLTNKKRNNAFAISHSHRRTKRLQEVNLQWKRIWWEEGKRFVRLRLSTKALKTL 59

Query: 136 EKNGLDAVAKKAGIDL 151
           +  G+ A+A++AGIDL
Sbjct: 60  KAKGIGAMAREAGIDL 75

Synechococcus sp. (strain JA-2-3B'a(2-13)) (taxid: 321332)

>sp|Q2JQF8|RL28_SYNJA 50S ribosomal protein L28 OS=Synechococcus sp. (strain JA-3-3Ab) GN=rpmB PE=3 SV=1

 Score = 90.5 bits (223), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 43/76 (56%), Positives = 59/76 (77%), Gaps = 1/76 (1%)

Query: 76  VARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTI 135
           +ARR C  T KK N A  +S S+ +T + Q VNLQ+K++WWE GKR+V+LRLSTKALKT+
Sbjct: 1   MARR-CQLTNKKRNNAFAISHSHRRTKRLQEVNLQWKRIWWEEGKRFVRLRLSTKALKTL 59

Query: 136 EKNGLDAVAKKAGIDL 151
           +  G+ A+A++AGIDL
Sbjct: 60  KAKGIGAMAREAGIDL 75

Synechococcus sp. (strain JA-3-3Ab) (taxid: 321327)

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	154
18403278	143	50S ribosomal protein L28 [Arabidopsis t	0.928	1.0	0.701	9e-52
297823141	143	50S ribosomal protein L28, chloroplast [	0.928	1.0	0.694	2e-51
118487864	150	unknown [Populus trichocarpa]	0.967	0.993	0.696	7e-49
118489930	153	unknown [Populus trichocarpa x Populus d	0.870	0.875	0.719	1e-48
255575833	143	50S ribosomal protein L28, chloroplast p	0.837	0.902	0.737	1e-48
224110604	118	predicted protein [Populus trichocarpa]	0.766	1.0	0.778	6e-48
225433211	146	PREDICTED: 50S ribosomal protein L28, ch	0.948	1.0	0.662	3e-46
297848674	137	50S ribosomal protein L28, chloroplast [	0.889	1.0	0.662	2e-45
224102207	126	predicted protein [Populus trichocarpa]	0.746	0.912	0.764	2e-45
449527816	150	PREDICTED: 50S ribosomal protein L28, ch	0.889	0.913	0.655	8e-45

>gi|18403278|ref|NP_565765.1| 50S ribosomal protein L28 [Arabidopsis thaliana] gi|21542433|sp|O22795.2|RK28_ARATH RecName: Full=50S ribosomal protein L28, chloroplastic; AltName: Full=CL28; Flags: Precursor gi|18252877|gb|AAL62365.1| putative chloroplast 50S ribosomal protein L28 [Arabidopsis thaliana] gi|20196843|gb|AAB80662.2| putative chloroplast 50S ribosomal protein L28 [Arabidopsis thaliana] gi|21387067|gb|AAM47937.1| putative chloroplast 50S ribosomal protein L28 [Arabidopsis thaliana] gi|21592705|gb|AAM64654.1| putative chloroplast 50S ribosomal protein L28 [Arabidopsis thaliana] gi|330253742|gb|AEC08836.1| 50S ribosomal protein L28 [Arabidopsis thaliana]

 Score =  207 bits (528), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 108/154 (70%), Positives = 122/154 (79%), Gaps = 11/154 (7%)

Query: 1   MATMATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVA 60
           M TMAT G  L          R   S KSM K+  +S+ELGF+TSQLSG++ISY+  DV 
Sbjct: 1   MTTMATQGAWL----------RMTSSAKSMTKSTVTSKELGFLTSQLSGLRISYTPSDVI 50

Query: 61  TPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGK 120
             IS  P  PG+QPIVARR+CPFTGKK+N+ANKVSFSNHKT K QFVNLQYK+VWWEAGK
Sbjct: 51  NRIS-LPSFPGIQPIVARRICPFTGKKANRANKVSFSNHKTKKLQFVNLQYKRVWWEAGK 109

Query: 121 RYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           R+VKLRLSTKALKTIEKNGLDAVAKKAGIDLRK+
Sbjct: 110 RFVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKK 143

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297823141|ref|XP_002879453.1| 50S ribosomal protein L28, chloroplast [Arabidopsis lyrata subsp. lyrata] gi|297325292|gb|EFH55712.1| 50S ribosomal protein L28, chloroplast [Arabidopsis lyrata subsp. lyrata]

 Score =  206 bits (525), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 107/154 (69%), Positives = 123/154 (79%), Gaps = 11/154 (7%)

Query: 1   MATMATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVA 60
           M TMAT G  L          R   SPKS+ K+  +S+ELGF+TSQLSG++IS++  DV 
Sbjct: 1   MTTMATQGAWL----------RMTSSPKSVAKSTVTSKELGFLTSQLSGVRISHAPSDVI 50

Query: 61  TPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGK 120
             IS   F PG+QPIVARR+CPFTGKK+N+ANKVSFSNHKT K QFVNLQYK+VWWEAGK
Sbjct: 51  NRISVPSF-PGIQPIVARRICPFTGKKANRANKVSFSNHKTKKLQFVNLQYKRVWWEAGK 109

Query: 121 RYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           R+VKLRLSTKALKTIEKNGLDAVAKKAGIDLRK+
Sbjct: 110 RFVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKK 143

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118487864|gb|ABK95755.1| unknown [Populus trichocarpa]

 Score =  198 bits (503), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 108/155 (69%), Positives = 123/155 (79%), Gaps = 6/155 (3%)

Query: 1   MATMATPGGVLLGNTSN-LPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDV 59
           MAT A   GV      N + FR+ R    S    VS SE +GFVTSQLSGI+ISY+ P  
Sbjct: 1   MATTAIGVGVGGVLLGNSICFRKTRQLSISKTSLVSVSE-IGFVTSQLSGIRISYNPPK- 58

Query: 60  ATPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAG 119
             P+S+ PF+P LQP++ARR+CPFTGKK+N+ANKVSFSNHKT K QFVNLQYK+VWWEAG
Sbjct: 59  --PLSA-PFSPALQPVIARRICPFTGKKANRANKVSFSNHKTKKLQFVNLQYKRVWWEAG 115

Query: 120 KRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           KRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRK+
Sbjct: 116 KRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKK 150

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118489930|gb|ABK96762.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  197 bits (502), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 100/139 (71%), Positives = 119/139 (85%), Gaps = 5/139 (3%)

Query: 16  SNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPI 75
           +++ FR+ +    S    VS SE +GFVTSQLSGI+ISY+ P+   P+S+ PF+P LQP+
Sbjct: 20  NSICFRKTQQLSISKTSLVSVSE-IGFVTSQLSGIRISYNPPE---PLSA-PFSPALQPV 74

Query: 76  VARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTI 135
           +ARR+CPFTGKK+N+ANKVSFSNHKT K QFVNLQYK+VWWEAGKRYVKLRLSTKALKTI
Sbjct: 75  IARRICPFTGKKANRANKVSFSNHKTKKLQFVNLQYKRVWWEAGKRYVKLRLSTKALKTI 134

Query: 136 EKNGLDAVAKKAGIDLRKE 154
           EKNGLDAVAKKAGIDLRK+
Sbjct: 135 EKNGLDAVAKKAGIDLRKK 153

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255575833|ref|XP_002528814.1| 50S ribosomal protein L28, chloroplast precursor, putative [Ricinus communis] gi|223531726|gb|EEF33548.1| 50S ribosomal protein L28, chloroplast precursor, putative [Ricinus communis]

 Score =  197 bits (500), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 104/141 (73%), Positives = 115/141 (81%), Gaps = 12/141 (8%)

Query: 18  LPFRRP----RLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQ 73
           L FRRP    +L+  S   AVS   E+GFVTSQLSGIKISY+LP ++ P +     P LQ
Sbjct: 11  LCFRRPYLPTKLASSSKTSAVS---EIGFVTSQLSGIKISYNLPYLSNPTT-----PPLQ 62

Query: 74  PIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALK 133
            IVARRVCPFTGKK+N+ANKVSFSNHKT K QFVNLQYKK+WWEAGKRYVKLRLSTKALK
Sbjct: 63  SIVARRVCPFTGKKANRANKVSFSNHKTKKLQFVNLQYKKIWWEAGKRYVKLRLSTKALK 122

Query: 134 TIEKNGLDAVAKKAGIDLRKE 154
           TIEKNGLDAVAKKAGIDL K+
Sbjct: 123 TIEKNGLDAVAKKAGIDLSKK 143

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224110604|ref|XP_002315574.1| predicted protein [Populus trichocarpa] gi|222864614|gb|EEF01745.1| predicted protein [Populus trichocarpa]

 Score =  195 bits (495), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 95/122 (77%), Positives = 110/122 (90%), Gaps = 4/122 (3%)

Query: 33  AVSSSEELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPIVARRVCPFTGKKSNKAN 92
           ++ S  E+GFVTSQLSGI+ISY+ P    P+S+ PF+P LQP++ARR+CPFTGKK+N+AN
Sbjct: 1   SLVSVSEIGFVTSQLSGIRISYNPPK---PLSA-PFSPALQPVIARRICPFTGKKANRAN 56

Query: 93  KVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLR 152
           KVSFSNHKT K QFVNLQYK+VWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLR
Sbjct: 57  KVSFSNHKTKKLQFVNLQYKRVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLR 116

Query: 153 KE 154
           K+
Sbjct: 117 KK 118

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225433211|ref|XP_002285387.1| PREDICTED: 50S ribosomal protein L28, chloroplastic [Vitis vinifera]

 Score =  189 bits (480), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 102/154 (66%), Positives = 114/154 (74%), Gaps = 8/154 (5%)

Query: 1   MATMATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVA 60
           MA     GG+++ N+S+   R P L    M      + +L FVTSQ  GIKIS +   + 
Sbjct: 1   MAAAVAGGGLVVCNSSH-KLRLPSLKKAKM------ASDLAFVTSQFGGIKISCTHLQLP 53

Query: 61  TPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGK 120
            PI S P    L+P VARRVCPFTGKK+NKANKVSFSNHKT K QFVNLQYKK+WWEAGK
Sbjct: 54  NPIPSAPLTLPLRP-VARRVCPFTGKKANKANKVSFSNHKTKKLQFVNLQYKKIWWEAGK 112

Query: 121 RYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           RYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE
Sbjct: 113 RYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 146

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297848674|ref|XP_002892218.1| 50S ribosomal protein L28, chloroplast [Arabidopsis lyrata subsp. lyrata] gi|297338060|gb|EFH68477.1| 50S ribosomal protein L28, chloroplast [Arabidopsis lyrata subsp. lyrata]

 Score =  187 bits (474), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 102/154 (66%), Positives = 114/154 (74%), Gaps = 17/154 (11%)

Query: 1   MATMATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVA 60
           MATMAT G  L         R   +SP       + S ELG +TSQLSG++IS+   D  
Sbjct: 1   MATMATQGPWL---------RVVSVSP-------TKSTELGSLTSQLSGVRISHGYSDAI 44

Query: 61  TPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGK 120
             I+  P  P LQPIVARR+CPFTGKK+N+ANKVSFSNHKT K QFVNLQYKKVWWEAGK
Sbjct: 45  NRIT-LPSVPSLQPIVARRICPFTGKKANRANKVSFSNHKTKKLQFVNLQYKKVWWEAGK 103

Query: 121 RYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           R+VKLRLSTKALKTIEKNGLDAVAKKAGIDL K+
Sbjct: 104 RFVKLRLSTKALKTIEKNGLDAVAKKAGIDLSKK 137

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224102207|ref|XP_002312590.1| predicted protein [Populus trichocarpa] gi|222852410|gb|EEE89957.1| predicted protein [Populus trichocarpa]

 Score =  187 bits (474), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 91/119 (76%), Positives = 105/119 (88%), Gaps = 4/119 (3%)

Query: 36  SSEELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVS 95
           S  E+GF+TSQL GI+ISY+ P    P+++ PF P +QP+VARR+CPFTGKK+N+ANKVS
Sbjct: 12  SVSEIGFLTSQLGGIRISYNPPK---PLTA-PFTPAIQPLVARRICPFTGKKANRANKVS 67

Query: 96  FSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           FSNHKT K QFVNLQYK+VWWEAGKRYVKLRLSTKALKT +KNGLDAVAKKAGIDLRKE
Sbjct: 68  FSNHKTKKLQFVNLQYKRVWWEAGKRYVKLRLSTKALKTKQKNGLDAVAKKAGIDLRKE 126

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449527816|ref|XP_004170905.1| PREDICTED: 50S ribosomal protein L28, chloroplastic-like [Cucumis sativus]

 Score =  184 bits (468), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 99/151 (65%), Positives = 114/151 (75%), Gaps = 14/151 (9%)

Query: 5   ATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVA-TPI 63
           AT  GV+  +++ L FR               S +LGF+TSQLSGI+IS +   ++ + I
Sbjct: 13  ATCSGVMTTSSTKLHFR------------TKPSSDLGFLTSQLSGIRISSNHSLISPSSI 60

Query: 64  SSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYV 123
           S+ P  P LQP VARR+CPFTGKK+NK N VSFSNHKT K QFVNLQYKKVWWEAGKR+V
Sbjct: 61  STAPLRPSLQP-VARRICPFTGKKANKKNLVSFSNHKTKKLQFVNLQYKKVWWEAGKRFV 119

Query: 124 KLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           KLRLSTKALKTIEKNGLDAVAKKAGIDLRKE
Sbjct: 120 KLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 150

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	154
TAIR|locus:2051023	143	PRPL28 "plastid ribosomal prot	0.928	1.0	0.701	5.2e-49
UNIPROTKB|Q9KVC8	78	rpmB "50S ribosomal protein L2	0.422	0.833	0.446	4.1e-10
TIGR_CMR|VC_0218	78	VC_0218 "ribosomal protein L28	0.422	0.833	0.446	4.1e-10
TIGR_CMR|CBU_0291	79	CBU_0291 "ribosomal protein L2	0.441	0.860	0.397	8.4e-10
TIGR_CMR|SO_4247	78	SO_4247 "ribosomal protein L28	0.422	0.833	0.430	1.4e-09
GENEDB_PFALCIPARUM|PFE0145w	262	PFE0145w "50S ribosomal subuni	0.493	0.290	0.389	1.4e-08
UNIPROTKB|C0H4C3	262	PFE0145w "Organelle ribosomal	0.493	0.290	0.389	1.4e-08
UNIPROTKB|P0A7M2	78	rpmB "50S ribosomal subunit pr	0.422	0.833	0.4	2.6e-08
TIGR_CMR|CPS_0209	78	CPS_0209 "ribosomal protein L2	0.422	0.833	0.384	3.3e-08
TIGR_CMR|SPO_0974	95	SPO_0974 "ribosomal protein L2	0.461	0.747	0.410	1e-06

TAIR|locus:2051023 PRPL28 "plastid ribosomal protein L28" [Arabidopsis thaliana (taxid:3702)]

 Score = 511 (184.9 bits), Expect = 5.2e-49, P = 5.2e-49
 Identities = 108/154 (70%), Positives = 122/154 (79%)

Query:     1 MATMATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVA 60
             M TMAT G  L          R   S KSM K+  +S+ELGF+TSQLSG++ISY+  DV 
Sbjct:     1 MTTMATQGAWL----------RMTSSAKSMTKSTVTSKELGFLTSQLSGLRISYTPSDVI 50

Query:    61 TPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGK 120
               IS   F PG+QPIVARR+CPFTGKK+N+ANKVSFSNHKT K QFVNLQYK+VWWEAGK
Sbjct:    51 NRISLPSF-PGIQPIVARRICPFTGKKANRANKVSFSNHKTKKLQFVNLQYKRVWWEAGK 109

Query:   121 RYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
             R+VKLRLSTKALKTIEKNGLDAVAKKAGIDLRK+
Sbjct:   110 RFVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKK 143

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016020 "membrane" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0019243 "methylglyoxal catabolic process to D-lactate" evidence=RCA

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

UNIPROTKB|Q9KVC8 rpmB "50S ribosomal protein L28" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 144 (55.7 bits), Expect = 4.1e-10, P = 4.1e-10
 Identities = 29/65 (44%), Positives = 41/65 (63%)

Query:    79 RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
             RVC  TGK+    N  S + + T +R   NLQ  + W E+ KR+VKLRL+ K ++ I+K 
Sbjct:     3 RVCQVTGKRPAVGNNRSHAKNATKRRFLPNLQTHRFWVESEKRFVKLRLTAKGMRIIDKK 62

Query:   139 GLDAV 143
             G+DAV
Sbjct:    63 GIDAV 67

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_0218 VC_0218 "ribosomal protein L28" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 144 (55.7 bits), Expect = 4.1e-10, P = 4.1e-10
 Identities = 29/65 (44%), Positives = 41/65 (63%)

Query:    79 RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
             RVC  TGK+    N  S + + T +R   NLQ  + W E+ KR+VKLRL+ K ++ I+K 
Sbjct:     3 RVCQVTGKRPAVGNNRSHAKNATKRRFLPNLQTHRFWVESEKRFVKLRLTAKGMRIIDKK 62

Query:   139 GLDAV 143
             G+DAV
Sbjct:    63 GIDAV 67

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CBU_0291 CBU_0291 "ribosomal protein L28" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 141 (54.7 bits), Expect = 8.4e-10, P = 8.4e-10
 Identities = 27/68 (39%), Positives = 42/68 (61%)

Query:    79 RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
             +VC  TGK+    N VS +N KT +R   NL+ ++ W    KR++ L +ST  ++ I+K 
Sbjct:     3 KVCQVTGKRPQSGNNVSHANKKTNRRFLPNLKKRRFWLPDEKRFITLTVSTHGMRIIDKL 62

Query:   139 GLDAVAKK 146
             G++AV KK
Sbjct:    63 GINAVLKK 70

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|SO_4247 SO_4247 "ribosomal protein L28" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 139 (54.0 bits), Expect = 1.4e-09, P = 1.4e-09
 Identities = 28/65 (43%), Positives = 40/65 (61%)

Query:    79 RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
             RVC  TGKK    N  S + + T +R   NLQ  + W E  KR+V+LR+STK ++ I+K 
Sbjct:     3 RVCQVTGKKPMVGNNRSHAKNATRRRFLPNLQNHRFWLEEEKRFVQLRVSTKGIRLIDKK 62

Query:   139 GLDAV 143
             G++ V
Sbjct:    63 GIEVV 67

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

GO:0006412 "translation" evidence=ISS

GENEDB_PFALCIPARUM|PFE0145w PFE0145w "50S ribosomal subunit protein L28, putative" [Plasmodium falciparum (taxid:5833)]

 Score = 133 (51.9 bits), Expect = 1.4e-08, P = 1.4e-08
 Identities = 30/77 (38%), Positives = 46/77 (59%)

Query:    79 RVCPFTGKKSN-KANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEK 137
             R C   GK  N  A K+S S  +T + Q +NL  K++++E   R++K+++S K LKTI+K
Sbjct:   128 RRCAILGKMDNWNARKISKSGVRTHRIQRLNLINKRIFFEEENRFIKMKVSAKGLKTIKK 187

Query:   138 NGLDAVAKKAGIDLRKE 154
              GL    KK  +D  K+
Sbjct:   188 YGLAYCIKKFNLDFSKK 204

GO:0020011 "apicoplast" evidence=IDA

GO:0015934 "large ribosomal subunit" evidence=ISS

UNIPROTKB|C0H4C3 PFE0145w "Organelle ribosomal protein L28, putative" [Plasmodium falciparum 3D7 (taxid:36329)]

 Score = 133 (51.9 bits), Expect = 1.4e-08, P = 1.4e-08
 Identities = 30/77 (38%), Positives = 46/77 (59%)

Query:    79 RVCPFTGKKSN-KANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEK 137
             R C   GK  N  A K+S S  +T + Q +NL  K++++E   R++K+++S K LKTI+K
Sbjct:   128 RRCAILGKMDNWNARKISKSGVRTHRIQRLNLINKRIFFEEENRFIKMKVSAKGLKTIKK 187

Query:   138 NGLDAVAKKAGIDLRKE 154
              GL    KK  +D  K+
Sbjct:   188 YGLAYCIKKFNLDFSKK 204

GO:0015934 "large ribosomal subunit" evidence=ISS

GO:0020011 "apicoplast" evidence=IDA

UNIPROTKB|P0A7M2 rpmB "50S ribosomal subunit protein L28" [Escherichia coli K-12 (taxid:83333)]

 Score = 127 (49.8 bits), Expect = 2.6e-08, P = 2.6e-08
 Identities = 26/65 (40%), Positives = 38/65 (58%)

Query:    79 RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
             RVC  TGK+    N  S + + T +R   NL   + W E+ KR+V LR+S K ++ I+K 
Sbjct:     3 RVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDKK 62

Query:   139 GLDAV 143
             G+D V
Sbjct:    63 GIDTV 67

GO:0006412 "translation" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

TIGR_CMR|CPS_0209 CPS_0209 "ribosomal protein L28" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 126 (49.4 bits), Expect = 3.3e-08, P = 3.3e-08
 Identities = 25/65 (38%), Positives = 38/65 (58%)

Query:    79 RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
             ++C  TGK     N  S + + T +R   NLQ  + W E+  R+VKLRL+ K ++ I+K 
Sbjct:     3 KICQVTGKVPMVGNNRSHARNATRRRFLPNLQSHRFWVESENRFVKLRLTPKGMRIIDKK 62

Query:   139 GLDAV 143
             G+D V
Sbjct:    63 GIDVV 67

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|SPO_0974 SPO_0974 "ribosomal protein L28" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 112 (44.5 bits), Expect = 1.0e-06, P = 1.0e-06
 Identities = 30/73 (41%), Positives = 42/73 (57%)

Query:    76 VARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTI 135
             ++RR C  TGK     N VS +N+KT +R   NL    +  E   R VKLR+S  AL+++
Sbjct:     1 MSRR-CELTGKGPMTGNNVSHANNKTRRRFLPNLNDVTLQSETLGRGVKLRISAAALRSV 59

Query:   136 E-KNGLDAVAKKA 147
             + + GLDA   KA
Sbjct:    60 DHRGGLDAFLAKA 72

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

GO:0006412 "translation" evidence=ISS

GO:0042255 "ribosome assembly" 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)
P30956	RK28_TOBAC	No assigned EC number	0.7627	0.7597	0.7748	N/A	no
O22795	RK28_ARATH	No assigned EC number	0.7012	0.9285	1.0	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	154
PRK00359	76	PRK00359, rpmB, 50S ribosomal protein L28; Reviewe	1e-25
pfam00830	61	pfam00830, Ribosomal_L28, Ribosomal L28 family	3e-24
COG0227	77	COG0227, RpmB, Ribosomal protein L28 [Translation,	8e-18
CHL00112	63	CHL00112, rpl28, ribosomal protein L28; Provisiona	1e-16
TIGR00009	56	TIGR00009, L28, ribosomal protein L28	5e-14

>gnl|CDD|234736 PRK00359, rpmB, 50S ribosomal protein L28; Reviewed

 Score = 92.6 bits (231), Expect = 1e-25
 Identities = 37/73 (50%), Positives = 46/73 (63%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           RVC  TGK     N VS SN+KT +R   NLQ  + W E   R+V+LR+S +AL+TI+K 
Sbjct: 3   RVCEITGKGPMVGNNVSHSNNKTKRRFLPNLQKVRFWVEEEGRFVRLRVSARALRTIDKK 62

Query: 139 GLDAVAKKAGIDL 151
           GLDAV KKA    
Sbjct: 63  GLDAVLKKARARG 75

Length = 76

>gnl|CDD|201462 pfam00830, Ribosomal_L28, Ribosomal L28 family

 Score = 88.3 bits (220), Expect = 3e-24
 Identities = 31/61 (50%), Positives = 42/61 (68%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           R C  TGK     N VS SN+KT +R   NLQ K++W E+  R+V+L++STKAL+TI+K 
Sbjct: 1   RRCQLTGKGPMFGNNVSHSNNKTKRRWKPNLQKKRLWSESLGRWVRLKVSTKALRTIDKK 60

Query: 139 G 139
           G
Sbjct: 61  G 61

The ribosomal 28 family includes L28 proteins from bacteria and chloroplasts. The L24 protein from yeast also contains a region of similarity to prokaryotic L28 proteins. L24 from yeast is also found in the large ribosomal subunit. Length = 61

>gnl|CDD|223305 COG0227, RpmB, Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]

 Score = 72.7 bits (179), Expect = 8e-18
 Identities = 32/72 (44%), Positives = 43/72 (59%), Gaps = 1/72 (1%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           R C  TGK     N VS S++KT +R   NLQ  + W  +  R+ +LR+S KAL+TI+K 
Sbjct: 3   RRCQLTGKGPMSGNNVSHSHNKTKRRFLPNLQKVRFWSLSDGRFKRLRVSAKALRTIDKK 62

Query: 139 G-LDAVAKKAGI 149
           G +DAV  KA  
Sbjct: 63  GKIDAVLAKARA 74

Length = 77

>gnl|CDD|177037 CHL00112, rpl28, ribosomal protein L28; Provisional

 Score = 69.2 bits (169), Expect = 1e-16
 Identities = 30/59 (50%), Positives = 41/59 (69%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEK 137
           + C  TGKK+N    VS S+ +T K Q VNLQ KK+W     R+VKL++STKA+KT++K
Sbjct: 3   KKCQLTGKKANNGYTVSHSHKRTKKLQKVNLQTKKIWSNTQNRWVKLKISTKAIKTLKK 61

Length = 63

>gnl|CDD|199985 TIGR00009, L28, ribosomal protein L28

 Score = 62.3 bits (152), Expect = 5e-14
 Identities = 25/56 (44%), Positives = 33/56 (58%), Gaps = 2/56 (3%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKT 134
           R C  TGK     N VS S+ KT +R   NLQ K+VW +   R+ +LR+S K L+T
Sbjct: 3   RKCQLTGKGPLSGNNVSHSHRKTKRRFKPNLQKKRVWVD--GRFKRLRVSAKCLRT 56

This model describes bacterial and chloroplast forms of the 50S ribosomal protein L28, a polypeptide about 60 amino acids in length. Mitochondrial homologs differ substantially in architecture and are not included [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 56

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	154
PRK00359	76	rpmB 50S ribosomal protein L28; Reviewed	99.98
COG0227	77	RpmB Ribosomal protein L28 [Translation, ribosomal	99.97
CHL00112	63	rpl28 ribosomal protein L28; Provisional	99.95
PF00830	61	Ribosomal_L28: Ribosomal L28 family; InterPro: IPR	99.94
TIGR00009	56	L28 ribosomal protein L28. This model describes ba	99.93
KOG3278	215	consensus Mitochondrial/chloroplast ribosomal prot	99.67
KOG3279	283	consensus Uncharacterized conserved protein (melan	96.3

>PRK00359 rpmB 50S ribosomal protein L28; Reviewed

Probab=99.98  E-value=5.6e-33  Score=197.77  Aligned_cols=75  Identities=49%  Similarity=0.688  Sum_probs=73.0

Q ss_pred             ccccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhcccccCHHHHHHHccccc
Q 031725           77 ARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDL  151 (154)
Q Consensus        77 MSR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~Gld~yl~k~~~~l  151 (154)
                      ||++|++|||++.+||+||||+++|+|+|+||||++++|++++|++++|+|||+|||+|+|.|+|+|+++++++.
T Consensus         1 Msr~C~i~GK~~~~Gn~vShs~~kTkR~~~pNlq~~~~~~~~~g~~v~~~vst~~Lrti~k~Gl~~~~~~~~~~~   75 (76)
T PRK00359          1 MSRVCEITGKGPMVGNNVSHSNNKTKRRFLPNLQKVRFWVEEEGRFVRLRVSARALRTIDKKGLDAVLKKARARG   75 (76)
T ss_pred             CCCccccCCCCCccCCeeeecCCccCceecccceEEEEEEccCCEEEEEEEEchheeeehhhhHHHHHHhhhhcc
Confidence            899999999999999999999999999999999999999999999999999999999999999999999998764

>COG0227 RpmB Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]

Probab=99.97  E-value=2.6e-31  Score=190.73  Aligned_cols=75  Identities=43%  Similarity=0.602  Sum_probs=72.1

Q ss_pred             ccccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhcccccC-HHHHHHHccccc
Q 031725           77 ARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNG-LDAVAKKAGIDL  151 (154)
Q Consensus        77 MSR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~G-ld~yl~k~~~~l  151 (154)
                      |||+|+||||++++||+||||+++|||+|.||||++++|++++|++++|+|||+|||+|||.| +|+|+.+++..+
T Consensus         1 Msr~C~lTGk~~~~GnnvShs~~kTkRr~~pNlq~~~~~~~~~g~~~~l~Vsa~~Lrtidk~G~~~~~~~~~~~~~   76 (77)
T COG0227           1 MSRRCQLTGKGPMSGNNVSHSHNKTKRRFLPNLQKVRFWSLSDGRFKRLRVSAKALRTIDKKGKIDAVLAKARARG   76 (77)
T ss_pred             CCceeeeccccccccccccccccccceeecCccEEEEEEEccCCcEEEEEEEhHHhhccccccchhhhhhhhcccc
Confidence            899999999999999999999999999999999999999999999999999999999999996 999999987544

>CHL00112 rpl28 ribosomal protein L28; Provisional

Probab=99.95  E-value=3.1e-29  Score=173.66  Aligned_cols=62  Identities=48%  Similarity=0.723  Sum_probs=60.6

Q ss_pred             ccccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhccccc
Q 031725           77 ARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN  138 (154)
Q Consensus        77 MSR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~  138 (154)
                      |||+|++|||++.+||+||||+++|+|+|+||||++++|+++++++++|+|||+|||+|+|.
T Consensus         1 Msr~C~i~GK~~~~Gn~vSHs~~kTkR~f~pNLq~vr~~~~~~~~~~kl~Vstr~Lrt~~k~   62 (63)
T CHL00112          1 MSKKCQLTGKKANNGYTVSHSHKRTKKLQKVNLQTKKIWSNTQNRWVKLKISTKAIKTLKKK   62 (63)
T ss_pred             CCCeeccCCCcCccCceeEccCcccCceecccccEEEEEECCCCeEEEEEEEHHHhhhcccc
Confidence            89999999999999999999999999999999999999999999999999999999999985

>PF00830 Ribosomal_L28: Ribosomal L28 family; InterPro: IPR001383 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.94  E-value=1.8e-27  Score=162.84  Aligned_cols=61  Identities=48%  Similarity=0.666  Sum_probs=57.1

Q ss_pred             ccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhcccccC
Q 031725           79 RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNG  139 (154)
Q Consensus        79 R~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~G  139 (154)
                      |+|+||||++++||+||||+++|+|+|+||||++++|++++|++++|+|||+|||+|+|.|
T Consensus         1 r~c~~~GK~~~~Gn~vshs~~ktkR~~~pNlq~~~~~~~~lg~~~~v~vst~~Lrti~k~G   61 (61)
T PF00830_consen    1 RRCLITGKKPMFGNNVSHSNNKTKRRWKPNLQKKRLWSEILGKKIRVRVSTRALRTIDKKG   61 (61)
T ss_dssp             -S-TTT-CTTCEECEEEEECEEEEEEEBTTEEEEEEEESTTSSEEEEEEEHCHHHHHHCHT
T ss_pred             CEeecCCCeecccceEeecCCcCCcEEcCcCEEEEEEEcCCCeEEEEEEEhHHeeeeccCC
Confidence            5899999999999999999999999999999999999999999999999999999999987

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 ribosomal L28 protein family include proteins from bacteria and chloroplasts. The L24 protein from yeast, found in the large subunit of the mitochodrial ribosome, contains a region similar to the bacterial L28 protein.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2ZJP_U 3CF5_U 2ZJR_U 3PIP_U 3PIO_U 2ZJQ_U 3DLL_U 2Y15_1 3KIY_1 3V2D_1 ....

>TIGR00009 L28 ribosomal protein L28

Probab=99.93  E-value=1.3e-26  Score=156.73  Aligned_cols=56  Identities=45%  Similarity=0.668  Sum_probs=54.3

Q ss_pred             ccccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhc
Q 031725           77 ARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKT  134 (154)
Q Consensus        77 MSR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRT  134 (154)
                      ||++|++|||++++||+||||+++|+|+|+||||+++||++  |++++|+|||+|||+
T Consensus         1 Ms~~C~i~GK~~~~Gn~vshs~~ktkR~~~pNlq~~ri~~~--~~~~~~~vst~~Lkt   56 (56)
T TIGR00009         1 MSRKCQLTGKGPLSGNNVSHSHRKTKRRFKPNLQKKRVWVD--GRFKRLRVSAKCLRT   56 (56)
T ss_pred             CCCEeeeCCCcCccCCeeeecCCccCceecccceEEEEEEC--CEEEEEEEEcHHhcC
Confidence            89999999999999999999999999999999999999997  499999999999996

This model describes bacterial and chloroplast forms of the 50S ribosomal protein L28, a polypeptide about 60 amino acids in length. Mitochondrial homologs differ substantially in architecture and are not included.

>KOG3278 consensus Mitochondrial/chloroplast ribosomal protein L28 [Translation, ribosomal structure and biogenesis]

Probab=99.67  E-value=5.1e-18  Score=139.77  Aligned_cols=77  Identities=21%  Similarity=0.232  Sum_probs=71.9

Q ss_pred             CCcccccccccccCcccccccc-cccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhccccc-CHHHHHHHcc
Q 031725           72 LQPIVARRVCPFTGKKSNKANK-VSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN-GLDAVAKKAG  148 (154)
Q Consensus        72 ~~~~~MSR~C~ltGKk~~~GNn-VShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~-Gld~yl~k~~  148 (154)
                      ..-|..+++++|.|..++|||| ++.+.+||||.|.||+|.+++|++.+++.|+|+|+|++||||+|. |||+||.+..
T Consensus        37 ~~vf~q~~~gLYgGs~iq~GNn~i~~~g~KTRr~W~PNv~~K~L~S~il~~ki~vkvTt~vLrtIdKeGGiDeYL~K~~  115 (215)
T KOG3278|consen   37 KVVFGQAKRGLYGGSHIQYGNNVIEDGGNKTRRCWKPNVQEKRLFSYILDSKIKVKVTTHVLRTIDKEGGIDEYLLKTP  115 (215)
T ss_pred             HHHHhhcccccccccceecCcccccccCcccceeecCcchhhHHHHHHHhhheeeeeehHHHhhhccccChhHHHhcCc
Confidence            4455688899999999999999 788899999999999999999999999999999999999999999 8999999875

>KOG3279 consensus Uncharacterized conserved protein (melanoma antigen P15) [Function unknown]

Probab=96.30  E-value=0.00013  Score=62.61  Aligned_cols=75  Identities=19%  Similarity=0.175  Sum_probs=63.5

Q ss_pred             ccccccccCcccccccccccc-cCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhccccc-CHHHHHHHcc-ccc
Q 031725           77 ARRVCPFTGKKSNKANKVSFS-NHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN-GLDAVAKKAG-IDL  151 (154)
Q Consensus        77 MSR~C~ltGKk~~~GNnVShS-~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~-Gld~yl~k~~-~~l  151 (154)
                      -+..+...|-....|-.-+.- .+|--|-|-|||.+.-++++.++.++++-|+-++|+.||.. |+|-|+++.. +||
T Consensus        81 e~~~g~wgge~vikg~~~~~~tk~~~p~~wvp~l~~~v~~s~ild~y~~v~vteRtl~LIDE~~GLD~YILk~~~~DL  158 (283)
T KOG3279|consen   81 ESHRGIWGGEAVIKGFQKREQTKRRVPHFWVPNLRRSVVHSHVLDCYMSVVVTERTLELIDECHGLDHYILKNRACDL  158 (283)
T ss_pred             cccccccccHHHHHHHHHHHHHhhcCCcccccchhhHHHHHHHHhhhheeeehHHHHHHHHHhcCcceeeecCcchhH
Confidence            455688888888777664442 45778899999999999999999999999999999999999 9999998876 555

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	154
3bbo_Y	151	Homology Model For The Spinach Chloroplast 50s Subu		6e-46
2qov_Z	78	Crystal Structure Of The Bacterial Ribosome From Es		7e-08
2i2t_X	77	Crystal Structure Of Ribosome With Messenger Rna An		8e-08

>pdb|3BBO|Y Chain Y, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 151

Iteration: 1
 Score =  179 bits (453), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 90/118 (76%), Positives = 100/118 (84%), Gaps = 1/118 (0%)
Query: 37  SEELGFVTSQLSGIKISYSLPDVATPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSF 96
           S EL FVTSQLSG+KIS +    ++   S PF P LQP VARR+CPFTGKKSN+ANKVS 
Sbjct: 35  SSELSFVTSQLSGLKISSTHFISSSAPLSVPFKPSLQP-VARRICPFTGKKSNRANKVSH 93
Query: 97  SNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           SNHKT K QFVNLQYK++WWEAGKRYVKLRLSTKA+KTIEKNGLDAVAKKAGIDL K+
Sbjct: 94  SNHKTKKLQFVNLQYKRIWWEAGKRYVKLRLSTKAIKTIEKNGLDAVAKKAGIDLSKK 151

>pdb|2QOV|Z Chain Z, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With Spectinomycin. This File Contains The 50s Subunit Of The First 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. Length = 78

Iteration: 1
 Score = 53.1 bits (126), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 26/65 (40%), Positives = 38/65 (58%)
Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           RVC  TGK+    N  S + + T +R   NL   + W E+ KR+V LR+S K ++ I+K 
Sbjct: 3   RVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDKK 62
Query: 139 GLDAV 143
           G+D V
Sbjct: 63  GIDTV 67

>pdb|2I2T|X Chain X, Crystal Structure Of Ribosome With Messenger Rna And The Anticodon Stem-Loop Of P-Site Trna. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 77

Iteration: 1
 Score = 52.8 bits (125), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 26/65 (40%), Positives = 38/65 (58%)
Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           RVC  TGK+    N  S + + T +R   NL   + W E+ KR+V LR+S K ++ I+K 
Sbjct: 2   RVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDKK 61
Query: 139 GLDAV 143
           G+D V
Sbjct: 62  GIDTV 66
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	154
3bbo_Y	151	Ribosomal protein L28; large ribosomal subunit, sp	1e-36
3r8s_X	77	50S ribosomal protein L28; protein biosynthesis, R	4e-29
2jz6_A	77	50S ribosomal protein L28; structure, NESG, ribonu	7e-16
2zjr_U	81	50S ribosomal protein L28; ribosome, large ribosom	2e-09
3v2d_1	98	50S ribosomal protein L28; ribosome associated inh	4e-08
2jl6_1	89	50S ribosomal protein L28, 50S ribosomal protein L	7e-08

>3bbo_Y Ribosomal protein L28; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 151

 Score =  122 bits (307), Expect = 1e-36
 Identities = 94/154 (61%), Positives = 110/154 (71%), Gaps = 3/154 (1%)

Query: 1   MATMATPGGVLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLPDVA 60
           MATM    G+ L        R   ++ ++ +     S EL FVTSQLSG+KIS +    +
Sbjct: 1   MATMV--AGISLRGPVMSSHRTFSVTKRASLPQSKLSSELSFVTSQLSGLKISSTHFISS 58

Query: 61  TPISSRPFAPGLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGK 120
           +   S PF P LQP+  R  CPFTGKKSN+ANKVS SNHKT K QFVNLQYK++WWEAGK
Sbjct: 59  SAPLSVPFKPSLQPVARRI-CPFTGKKSNRANKVSHSNHKTKKLQFVNLQYKRIWWEAGK 117

Query: 121 RYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE 154
           RYVKLRLSTKA+KTIEKNGLDAVAKKAGIDL K+
Sbjct: 118 RYVKLRLSTKAIKTIEKNGLDAVAKKAGIDLSKK 151

>3r8s_X 50S ribosomal protein L28; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2i2v_X 2wwq_0* 3fik_X 3j01_X 3j0t_Z* 3j0w_Z* 3j0y_Z* 3j11_Z* 3j12_Z* 3j14_Z* 3oas_X 3oat_X* 2i2t_X* 3ofd_X 3ofc_X 3ofr_X* 3ofz_X* 3og0_X 3ofq_X 3r8t_X ... Length = 77

 Score =  100 bits (252), Expect = 4e-29
 Identities = 27/75 (36%), Positives = 40/75 (53%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           RVC  TGK+    N  S + + T +R   NL   + W E+ KR+V LR+S K ++ I+K 
Sbjct: 2   RVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDKK 61

Query: 139 GLDAVAKKAGIDLRK 153
           G+D V  +      K
Sbjct: 62  GIDTVLAELRARGEK 76

>2jz6_A 50S ribosomal protein L28; structure, NESG, ribonucleoprotein, structural genomics, PSI-2, protein structure initiative; NMR {Thermotoga maritima MSB8} SCOP: d.325.1.1 Length = 77

 Score = 67.0 bits (164), Expect = 7e-16
 Identities = 18/70 (25%), Positives = 29/70 (41%), Gaps = 1/70 (1%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           + C   GK     N VS S+ K+ +    NLQ  +V    G    ++R+ T  LK+ +  
Sbjct: 8   KRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPDG-TIKRMRVCTSCLKSGKVK 66

Query: 139 GLDAVAKKAG 148
                  + G
Sbjct: 67  KYVGQVSEVG 76

>2zjr_U 50S ribosomal protein L28; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.325.1.1 PDB: 2zjp_U 2zjq_U 3cf5_U* 3dll_U* 3pio_U* 3pip_U* Length = 81

 Score = 50.7 bits (121), Expect = 2e-09
 Identities = 19/80 (23%), Positives = 27/80 (33%), Gaps = 15/80 (18%)

Query: 79  RVCPFTGKKSNKANKVSFS-------------NHKTTKRQFVNLQYKKVWWEAGKRYVKL 125
           R C  TGKK+   N V                   T + Q  NL  K +      +   +
Sbjct: 3   RECYLTGKKNLVVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIR--ENGQVKTV 60

Query: 126 RLSTKALKTIEKNGLDAVAK 145
            LS  AL+T+ K     +  
Sbjct: 61  WLSANALRTLSKGPYKGIEL 80

>3v2d_1 50S ribosomal protein L28; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2j03_1 2v47_1 2v49_1 2wdi_1 2wdj_1 2wdl_1 2wdn_1 2wh2_1 2wh4_1 2wrj_1 2wrl_1 2wro_1 2wrr_1 2x9s_1 2x9u_1 2xqe_1 2xtg_1 2xux_1 2y0v_1 2y0x_1 ... Length = 98

 Score = 47.3 bits (112), Expect = 4e-08
 Identities = 16/89 (17%), Positives = 32/89 (35%), Gaps = 16/89 (17%)

Query: 79  RVCPFTGKKSNKANKVSFSN------------HKTTKRQF-VNLQYKKVWWEAGKRYVKL 125
           +VC  +GK+   AN +                   +KR+   NLQ  +V      + +  
Sbjct: 3   KVCEISGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVR--VAGQEITF 60

Query: 126 RLSTKALKTI-EKNGLDAVAKKAGIDLRK 153
           R++   +  + E        K  G+  ++
Sbjct: 61  RVAASHIPKVYELVERAKGLKLEGLSPKE 89

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	154
3bbo_Y	151	Ribosomal protein L28; large ribosomal subunit, sp	100.0
3r8s_X	77	50S ribosomal protein L28; protein biosynthesis, R	99.98
2jz6_A	77	50S ribosomal protein L28; structure, NESG, ribonu	99.95
2zjr_U	81	50S ribosomal protein L28; ribosome, large ribosom	99.94
2jl6_1	89	50S ribosomal protein L28, 50S ribosomal protein L	99.93
3v2d_1	98	50S ribosomal protein L28; ribosome associated inh	99.92

>3bbo_Y Ribosomal protein L28; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=100.00  E-value=2e-46  Score=295.52  Aligned_cols=148  Identities=65%  Similarity=0.902  Sum_probs=74.8

Q ss_pred             CcccccCCc--eEeeccCCCCcccCcCCCccccccccCCcceeeeeeeecceEEEecCC-CCCCCccCCCCCCCCCcccc
Q 031725            1 MATMATPGG--VLLGNTSNLPFRRPRLSPKSMVKAVSSSEELGFVTSQLSGIKISYSLP-DVATPISSRPFAPGLQPIVA   77 (154)
Q Consensus         1 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~g~~l~~~~~-~~~~~~~~~~~~~~~~~~~M   77 (154)
                      ||||+++|+  +++|.+. ...+.+..+..++   .--+++|||+||||+|++|+++.+ ..+++ ..+|..+++++ +|
T Consensus         1 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~ts~~~g~~~~~~~~~~~~~~-~~~p~~~~~~~-mM   74 (151)
T 3bbo_Y            1 MATMVAGISLRGPVMSSH-RTFSVTKRASLPQ---SKLSSELSFVTSQLSGLKISSTHFISSSAP-LSVPFKPSLQP-VA   74 (151)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             Cceeeeccccccceeecc-ccccccccccccc---ccccchhhhhhhhccCcccccccccccccc-cccCCCCcccc-ch
Confidence            899999876  5555322 2222232222221   112789999999999999999986 22233 35677788888 79


Q ss_pred             cccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhcccccCHHHHHHHcccccccC
Q 031725           78 RRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRKE  154 (154)
Q Consensus        78 SR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~Gld~yl~k~~~~l~k~  154 (154)
                      +|+|+||||++++||+||||++||||+|+||||++++|+++++++++|||||+|||+|++.|||+||+++|+||+||
T Consensus        75 sR~C~itGK~p~~GNnVSHS~~KTKRrw~PNLQkvri~~~~g~r~vrlrVsTr~LRTikk~GlD~~l~~~g~~l~k~  151 (151)
T 3bbo_Y           75 RRICPFTGKKSNRANKVSHSNHKTKKLQFVNLQYKRIWWEAGKRYVKLRLSTKAIKTIEKNGLDAVAKKAGIDLSKK  151 (151)
T ss_dssp             -CCCCCSCCTTCCCCCCEECCSSSCCEECCCCCCCCBCCCTTSSCCCBCCCSSSTTTTTTSTTTCSCCSSSSCSSCC
T ss_pred             hceeeccCcccccCCeeeecCCccCceeccccEEEEEEECCCCEEEEEEEEchheeehhhhhHHHHHHHhchhhcCC
Confidence            99999999999999999999999999999999999999998889999999999999999999999999999999987

>3r8s_X 50S ribosomal protein L28; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2i2v_X 2wwq_0* 3fik_X 3j01_X 3j0t_Z* 3j0w_Z* 3j0y_Z* 3j11_Z* 3j12_Z* 3j14_Z* 3j19_X 3oas_X 3oat_X* 2i2t_X* 3ofd_X 3ofc_X 3ofr_X* 3ofz_X* 3og0_X 3ofq_X ...

Probab=99.98  E-value=9.1e-34  Score=201.53  Aligned_cols=76  Identities=36%  Similarity=0.587  Sum_probs=72.3

Q ss_pred             cccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhcccccCHHHHHHHccccccc
Q 031725           78 RRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRK  153 (154)
Q Consensus        78 SR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~Gld~yl~k~~~~l~k  153 (154)
                      ||+|++|||++++||+||||+++|+|+|+||||++++|+++++++++|+|||+|||||||.|||+||+++...+.+
T Consensus         1 sr~C~itGK~~~~Gn~VShs~~kTkR~~~PNlq~~r~~~~~~~r~~rlrVst~~LRti~k~Gld~~l~~~~~~g~~   76 (77)
T 3r8s_X            1 SRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDKKGIDTVLAELRARGEK   76 (77)
T ss_dssp             CCCCTTTCCCCEEEEEECSSCCEEEEEECCCEEEEEEEEGGGTEEEEEEEEHHHHHHHHHHCHHHHHHHHHHTTCC
T ss_pred             CCEeeeCCCccccCceEeccCCccCceecCccEEEEEEECCCCEEEEEEEEcceEeeecccCHHHHHHHHHHccCc
Confidence            6899999999999999999999999999999999999999999999999999999999999999999988776543

>2jz6_A 50S ribosomal protein L28; structure, NESG, ribonucleoprotein, structural genomics, PSI-2, protein structure initiative; NMR {Thermotoga maritima MSB8} SCOP: d.325.1.1

Probab=99.95  E-value=1.5e-28  Score=175.27  Aligned_cols=64  Identities=25%  Similarity=0.326  Sum_probs=60.2

Q ss_pred             cccccccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhccccc
Q 031725           74 PIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN  138 (154)
Q Consensus        74 ~~~MSR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~  138 (154)
                      .++|||+|+||||++++||+||||+++|||+|+||||++++|+|+ |++++|+|||+|||+++..
T Consensus         3 ~~~Msr~C~itGK~~~~Gn~VSHS~~kTkR~~~PNLq~vr~~~~~-g~~~rl~Vst~~LRtgkv~   66 (77)
T 2jz6_A            3 HMIMAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKSGKVK   66 (77)
T ss_dssp             CCCCCCCCTTTCCCCCCCCCCCCSCCCCSSSCBTTEEEEEEEETT-TEEEEEEEEHHHHHHCCSC
T ss_pred             CCceeeeeeecCCccccCCeEeecCCccCcccccceEEEEEEecC-CcEEEEEEEhHHeeeccEE
Confidence            356999999999999999999999999999999999999999976 8999999999999998754

>2zjr_U 50S ribosomal protein L28; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.325.1.1 PDB: 2zjp_U 2zjq_U 3cf5_U* 3dll_U* 3pio_U* 3pip_U*

Probab=99.94  E-value=6.6e-30  Score=183.57  Aligned_cols=67  Identities=30%  Similarity=0.273  Sum_probs=56.6

Q ss_pred             ccccccccCccccccccccc-------------ccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhcccccCHHHH
Q 031725           77 ARRVCPFTGKKSNKANKVSF-------------SNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAV  143 (154)
Q Consensus        77 MSR~C~ltGKk~~~GNnVSh-------------S~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~Gld~y  143 (154)
                      |||+|++|||++.+||+|||             |+++|||+|+||||++++|+  +|++++|+|||+|||+||| |||++
T Consensus         1 Msr~C~itGK~~~~Gn~vshrGkak~~Gg~~s~s~~kTkR~~~PNlq~vr~~~--~g~~~~l~Vst~~LRti~k-Gld~~   77 (81)
T 2zjr_U            1 MSRECYLTGKKNLVVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIRE--NGQVKTVWLSANALRTLSK-GPYKG   77 (81)
T ss_dssp             -------CCSSSCCCCCCCCCCEESCCCTTTCSCCEECCCCCCCCCCCCCCCC--SSSCCCCCCCHHHHHHHHS-SCCSS
T ss_pred             CCCEeecCCCccccCCeeeeccccccccccchhhCCccCceecccceEEEEEE--CCEEEEEEEEcceeeeech-hHHHH
Confidence            89999999999999999999             99999999999999999995  5899999999999999999 99988


Q ss_pred             HHH
Q 031725          144 AKK  146 (154)
Q Consensus       144 l~k  146 (154)
                      +..
T Consensus        78 ~~~   80 (81)
T 2zjr_U           78 IEL   80 (81)
T ss_dssp             CC-
T ss_pred             Hhh
Confidence            754

>3v2d_1 50S ribosomal protein L28; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2j03_1 2v47_1 2v49_1 2wdi_1 2wdj_1 2wdl_1 2wdn_1 2wh2_1 2wh4_1 2wrj_1 2wrl_1 2wro_1 2wrr_1 2x9s_1 2x9u_1 2xqe_1 2xtg_1 2xux_1 2y0v_1 2y0x_1 ...

Probab=99.92  E-value=9.9e-26  Score=167.10  Aligned_cols=69  Identities=23%  Similarity=0.448  Sum_probs=60.3

Q ss_pred             ccccccccCcccccccccccccC-------------cccccccCceeEEEEEEcCCCeEEEEEeeehhhhcccccCHHHH
Q 031725           77 ARRVCPFTGKKSNKANKVSFSNH-------------KTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAV  143 (154)
Q Consensus        77 MSR~C~ltGKk~~~GNnVShS~~-------------KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~Gld~y  143 (154)
                      |||+|++|||++.+||+||||++             +|||+|+||||++++|++  |++++++|||+|||||++     .
T Consensus         1 Msr~C~itGK~p~~Gn~VShs~~Ak~~GGvG~k~t~kTkR~f~PNLqkvr~~~~--G~~~rlrVst~~LRtI~~-----~   73 (98)
T 3v2d_1            1 MSKVCEISGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVRVA--GQEITFRVAASHIPKVYE-----L   73 (98)
T ss_dssp             -CCCCTTTCCCCEEEEEEEEEEECGGGTSSEEEEEEEEEEEECCCEEEEEEEET--TEEEEEEEEGGGHHHHHH-----H
T ss_pred             CCCeeecCCCccccCccEeccCccccccccccccCCcccceeccceEEEEEEEC--CEEEEEEEEchhheehhh-----h
Confidence            89999999999999999999995             999999999999999994  899999999999999974     2


Q ss_pred             HHHc-ccccc
Q 031725          144 AKKA-GIDLR  152 (154)
Q Consensus       144 l~k~-~~~l~  152 (154)
                      +.++ |+||+
T Consensus        74 verakg~~~~   83 (98)
T 3v2d_1           74 VERAKGLKLE   83 (98)
T ss_dssp             HHHGGGSCCS
T ss_pred             hhhhhccccc
Confidence            3344 56654

---

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	154
d2qamz1	77	d.325.1.1 (Z:2-78) Ribosomal protein L28 (L28p) {E	3e-25
d2jz6a1	70	d.325.1.1 (A:6-75) Ribosomal protein L28 (L28p) {T	5e-17
d2zjru1	72	d.325.1.1 (U:8-79) Ribosomal protein L28 (L28p) {D	7e-15
d2j0111	89	d.325.1.1 (1:8-96) Ribosomal protein L28 (L28p) {T	1e-10

>d2qamz1 d.325.1.1 (Z:2-78) Ribosomal protein L28 (L28p) {Escherichia coli [TaxId: 562]} Length = 77

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Escherichia coli [TaxId: 562]

 Score = 89.7 bits (223), Expect = 3e-25
 Identities = 26/69 (37%), Positives = 39/69 (56%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           RVC  TGK+    N  S + + T +R   NL   + W E+ KR+V LR+S K ++ I+K 
Sbjct: 2   RVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDKK 61

Query: 139 GLDAVAKKA 147
           G+D V  + 
Sbjct: 62  GIDTVLAEL 70

>d2jz6a1 d.325.1.1 (A:6-75) Ribosomal protein L28 (L28p) {Thermotoga maritima [TaxId: 2336]} Length = 70

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Thermotoga maritima [TaxId: 2336]

 Score = 68.5 bits (168), Expect = 5e-17
 Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 4/69 (5%)

Query: 79  RVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN 138
           + C   GK     N VS S+ K+ +    NLQ  +V    G    ++R+ T  LK+    
Sbjct: 3   KRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPDG-TIKRMRVCTSCLKS---G 58

Query: 139 GLDAVAKKA 147
            +     + 
Sbjct: 59  KVKKYVGQV 67

>d2zjru1 d.325.1.1 (U:8-79) Ribosomal protein L28 (L28p) {Deinococcus radiodurans [TaxId: 1299]} Length = 72

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Deinococcus radiodurans [TaxId: 1299]

 Score = 63.2 bits (154), Expect = 7e-15
 Identities = 15/73 (20%), Positives = 25/73 (34%), Gaps = 3/73 (4%)

Query: 71  GLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTK 130
           G + +V        GK          +   T + Q  NL  K +      +   + LS  
Sbjct: 2   GKKNLVVNS-VIRRGKARADGGVGRKTTGITKRVQRANLHKKAIREN--GQVKTVWLSAN 58

Query: 131 ALKTIEKNGLDAV 143
           AL+T+ K     +
Sbjct: 59  ALRTLSKGPYKGI 71

>d2j0111 d.325.1.1 (1:8-96) Ribosomal protein L28 (L28p) {Thermus thermophilus [TaxId: 274]} Length = 89

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Thermus thermophilus [TaxId: 274]

 Score = 52.5 bits (126), Expect = 1e-10
 Identities = 16/84 (19%), Positives = 34/84 (40%), Gaps = 4/84 (4%)

Query: 71  GLQPIVARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTK 130
           G +PIVA  +    GK   +      +   + +RQ+ NLQ  +V      + +  R++  
Sbjct: 2   GKRPIVANSI-QRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVR--VAGQEITFRVAAS 58

Query: 131 ALKTIEK-NGLDAVAKKAGIDLRK 153
            +  + +        K  G+  ++
Sbjct: 59  HIPKVYELVERAKGLKLEGLSPKE 82

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	154
d2qamz1	77	Ribosomal protein L28 (L28p) {Escherichia coli [Ta	99.97
d2jz6a1	70	Ribosomal protein L28 (L28p) {Thermotoga maritima	99.95
d2zjru1	72	Ribosomal protein L28 (L28p) {Deinococcus radiodur	99.86
d2j0111	89	Ribosomal protein L28 (L28p) {Thermus thermophilus	99.84
d2j0111	89	Ribosomal protein L28 (L28p) {Thermus thermophilus	89.69

>d2qamz1 d.325.1.1 (Z:2-78) Ribosomal protein L28 (L28p) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Escherichia coli [TaxId: 562]

Probab=99.97  E-value=1.7e-33  Score=198.74  Aligned_cols=76  Identities=36%  Similarity=0.587  Sum_probs=72.8

Q ss_pred             cccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhcccccCHHHHHHHccccccc
Q 031725           78 RRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKKAGIDLRK  153 (154)
Q Consensus        78 SR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~Gld~yl~k~~~~l~k  153 (154)
                      ||+|++|||++++||+||||+++|+|+|+||||++++|+|++|++|+|+|||+|||||+|.|||+||+++...+.|
T Consensus         1 Sr~C~itGK~~~~Gn~vShs~~kTkR~~~pNlq~kr~~~~~~~~~v~lkvstk~LRtI~K~Gld~~l~k~~~~g~k   76 (77)
T d2qamz1           1 SRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDKKGIDTVLAELRARGEK   76 (77)
T ss_dssp             CCCCSSSCCCCCCCBCCBGGGBCCBCCCCCCCCCEECCCSTTCCCCEECCCTTHHHHHTTSCHHHHHHTTTTTTCC
T ss_pred             CCCcccCCCccccCceeeecccccCceeccceEEEEEEEcCCCEEEEEEEEhhheeeehhCCHHHHHHHHHHccCC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999998876554

>d2jz6a1 d.325.1.1 (A:6-75) Ribosomal protein L28 (L28p) {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Thermotoga maritima [TaxId: 2336]

Probab=99.95  E-value=2.1e-29  Score=174.78  Aligned_cols=66  Identities=24%  Similarity=0.318  Sum_probs=60.0

Q ss_pred             ccccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhcccccCHHHHHHH
Q 031725           77 ARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNGLDAVAKK  146 (154)
Q Consensus        77 MSR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~Gld~yl~k  146 (154)
                      |||+|++|||++++||+||||+++|||+|+||||++++|+++ |++++|+|||+|||+   -|+|.|+.+
T Consensus         1 Mar~C~itGK~~~~Gn~vShs~~kTkR~f~PNlq~~r~~~~~-g~~v~~kvst~~lrt---g~v~k~~~~   66 (70)
T d2jz6a1           1 MAKRCEVCGKAPRSGNTVSHSDKKSERWFRPNLQKVRVVLPD-GTIKRMRVCTSCLKS---GKVKKYVGQ   66 (70)
T ss_dssp             CCCCCTTTCCCCCCCCCCCCSCCCCSSSCBTTEEEEEEEETT-TEEEEEEEEHHHHHH---CCSCCCCCC
T ss_pred             CCcEeeecCCccccCCeEEecCcccCceecCCeEEEEEEecC-CCEEEEEEEHHHhhh---cCHHHHhHh
Confidence            899999999999999999999999999999999999999986 899999999999999   445555433

>d2zjru1 d.325.1.1 (U:8-79) Ribosomal protein L28 (L28p) {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.86  E-value=2.9e-24  Score=149.73  Aligned_cols=62  Identities=21%  Similarity=0.144  Sum_probs=59.2

Q ss_pred             cccccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhcccccC
Q 031725           76 VARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKNG  139 (154)
Q Consensus        76 ~MSR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~G  139 (154)
                      +|++.|.+.||.+.+||+|||++++|||+|+||||++++|++  +++++|+|||+|||+|+|..
T Consensus         6 ~~~~~~~~~GK~~~~Gn~vsh~~~~TkR~f~PNLq~~ri~~~--g~~~klkVst~~lRtI~K~~   67 (72)
T d2zjru1           6 LVVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIREN--GQVKTVWLSANALRTLSKGP   67 (72)
T ss_dssp             CCCCCCCCCCEESCCCTTTCSCCEECCCCCCCCCCCCCCCCS--SSCCCCCCCHHHHHHHHSSC
T ss_pred             eecCEEEEeccccccCCceeecCCccCceeccccEEEEEEEC--CEeEEEEEEhHheeeecccc
Confidence            799999999999999999999999999999999999999997  58899999999999999973

>d2j0111 d.325.1.1 (1:8-96) Ribosomal protein L28 (L28p) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Thermus thermophilus [TaxId: 274]

Probab=99.84  E-value=1.7e-23  Score=151.04  Aligned_cols=74  Identities=15%  Similarity=0.159  Sum_probs=69.3

Q ss_pred             cccccccccCcccccccccccccCcccccccCceeEEEEEEcCCCeEEEEEeeehhhhccccc-CHHHHHHHccccc
Q 031725           76 VARRVCPFTGKKSNKANKVSFSNHKTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN-GLDAVAKKAGIDL  151 (154)
Q Consensus        76 ~MSR~C~ltGKk~~~GNnVShS~~KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~-Gld~yl~k~~~~l  151 (154)
                      ++...|...||.+..||++||++++|||+|+||||++++|++  |++++|||||+|||||+|. |+|+||++++++.
T Consensus         6 ~~Gn~v~~~Gk~~~~G~~vshs~~kTkRrf~PNLq~vr~~v~--g~~~~lrVst~alRti~k~~g~~~~lk~~~l~~   80 (89)
T d2j0111           6 IVANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVRVA--GQEITFRVAASHIPKVYELVERAKGLKLEGLSP   80 (89)
T ss_dssp             SCCCCCCCCCEECSCCSSSSCCCEEECCCCCCCCCCCCEEET--TTTEEECCCSSSHHHHHHHHSCCCCCCCCSCCH
T ss_pred             ccCceEEecCcccccCCceeeccccccceecCCceEEEEEEC--CEEEEEEEEHHHHHhHHhhhhHHHHHHHcCCCH
Confidence            677889999999999999999999999999999999999986  6899999999999999998 9999998888764

>d2j0111 d.325.1.1 (1:8-96) Ribosomal protein L28 (L28p) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: L28p-like
superfamily: L28p-like
family: Ribosomal protein L28
domain: Ribosomal protein L28 (L28p)
species: Thermus thermophilus [TaxId: 274]

Probab=89.69  E-value=0.036  Score=38.37  Aligned_cols=65  Identities=14%  Similarity=0.111  Sum_probs=42.4

Q ss_pred             cCcccccccccccccC---cccccccCceeEEEEEEcCCCeEEEEEeeehhhhccccc--CHHHHHHHcccc
Q 031725           84 TGKKSNKANKVSFSNH---KTTKRQFVNLQYKKVWWEAGKRYVKLRLSTKALKTIEKN--GLDAVAKKAGID  150 (154)
Q Consensus        84 tGKk~~~GNnVShS~~---KTKR~wkPNLQkkri~~~~lgr~vkLrVSTkaLRTI~K~--Gld~yl~k~~~~  150 (154)
                      |||++.+||+|+|+++   .-...-..+-..+|-|.|.+. .+++.|--..+ ++.=.  .|-..-++.|+|
T Consensus         1 TGKkp~~Gn~v~~~Gk~~~~G~~vshs~~kTkRrf~PNLq-~vr~~v~g~~~-~lrVst~alRti~k~~g~~   70 (89)
T d2j0111           1 SGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQ-KVRVRVAGQEI-TFRVAASHIPKVYELVERA   70 (89)
T ss_dssp             CCCSSSCCCCCCCCCEECSCCSSSSCCCEEECCCCCCCCC-CCCEEETTTTE-EECCCSSSHHHHHHHHSCC
T ss_pred             CCCCcccCceEEecCcccccCCceeeccccccceecCCce-EEEEEECCEEE-EEEEEHHHHHhHHhhhhHH
Confidence            7999999999999964   223333445578888999885 57787764333 23322  566655655554