Citrus Sinensis ID: 031957

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150
Protein Sequence
MAAASSCATLALCSSLTSHCKISCQNPNPHPQLSLSKSKLCSFPSPKLYTRPTFSFTHKFSQTEPPPVSEPEVEPEAALEAEAEPTTEVVESAAKEEPKREEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVCNFCAFSPLQFLII
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHcccccEEEcccccccccccccccccccccccccccccccEEEEcccccccccccccccccccHHHHccccccHHHHHcccccccccccEEEEEEEccEEEEEEcccEEEEEEcccccccccEEEccccccccEEEc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHcccccEEEccccccccccccccccccccccccccEccccccccccccccccccccccccccccccccccccccEEEEccccccccccHEEEEEEEcccEEEEccccEEEEEEccccccccEEEEEEcccccEEEEc
Coil and Loop (DISEMBL)
MAAASSCATLALCSSLTshckiscqnpnphpqlslsksklcsfpspklytrptfsfthkfsqtepppvsepevepeaaleaeaepttEVVESaakeepkrEEIFAVVMIGsrqyivfpgrfiytqrlkganvndkvcnfcafsplqflii
Flexible Loop (DISEMBL)
MAAASSCATLALCSSLTSHCKISCQNPNPHPQLSLSKSKLCSFPSPKLYTRPTFSFTHKFSQTEPPPVSEPEVEPEAAleaeaepttevvesaakeepkreEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVCNFCAFSPLQFLII
Low Complexity Region (SEG)
MaaasscatlalcssltsHCKISCQNPNPHPQLSLSKSKLCSFPSPKLYTRPTFSFTHKFSQTepppvsepevepeaaleaeaepttevvesaaKEEPKREEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVCNFCAFSPLQFLII
Disordered region (IsUnstruct)
*******ATLALCSSLTSHCKIS******************************************************************************EIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVCNFCAFSPLQFLI*
Disordered Region (DISOPRED)
**********ALCSSLTSHC******************************RP************************************************EEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVCNFCAFSPLQFLII
Disordered Region (DISEMBL)
*********LALCSSLTSHCKISCQNPNPHPQLSLSKSKLCSFPSPKLYTRPTFSFTH****************************************KREEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVCNFCAFSPLQFLII
Disordered Region (DISPRO)
**********ALCSSLTSHCKISC*************************************************************TTEVVESAAKEEPKREEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVCNFCAFSPLQFLII
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAAASSCATLALCSSLTSHCKISCQNPNPHPQLSLSKSKLCSFPSPKLYTRPTFSFTHKFSQTEPPPVSEPEVEPEAALEAEAEPTTEVVESAAKEEPKREEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVCNFCAFSPLQFLII
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	150	2.2.26 [Sep-21-2011]
P51412	220	50S ribosomal protein L21	yes	no	0.833	0.568	0.436	2e-22
P24613	256	50S ribosomal protein L21	N/A	no	0.266	0.156	0.825	9e-14

>sp|P51412|RK21_ARATH 50S ribosomal protein L21, chloroplastic OS=Arabidopsis thaliana GN=RPL21 PE=2 SV=1

 Score =  104 bits (259), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 62/142 (43%), Positives = 88/142 (61%), Gaps = 17/142 (11%)

Query: 4   ASSCATLALCSSLTSHCKISCQNPNP------HPQLSLSKSKLCSFPSPKL--YTRPTFS 55
           ASS ATL+LCS+ ++HC ++ +  +        P L+L+K  L  F SP     +R  F+
Sbjct: 2   ASSSATLSLCSTFSAHCNVNSRRSSTILCSLSKPSLNLAK-PLTGFLSPSTASTSRTAFT 60

Query: 56  FTHKFSQTEPPPVSEPEVEPEAALEAEAEPTTEVVESAAKEEPKREEIFAVVMIGSRQYI 115
              KF++      S  E EPE   + EA   ++V E   +E+ KREEIFAV+M+G RQYI
Sbjct: 61  VAPKFAE------SVVEAEPETT-DIEAVVVSDVSE-VTEEKAKREEIFAVIMVGGRQYI 112

Query: 116 VFPGRFIYTQRLKGANVNDKVC 137
           VFPGR++YTQRLK ANV+D++ 
Sbjct: 113 VFPGRYLYTQRLKDANVDDQIV 134

This protein binds to 23S ribosomal RNA in the presence of protein L20.
Arabidopsis thaliana (taxid: 3702)

>sp|P24613|RK21_SPIOL 50S ribosomal protein L21, chloroplastic OS=Spinacia oleracea GN=RPL21 PE=1 SV=1

 Score = 75.9 bits (185), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 33/40 (82%), Positives = 36/40 (90%)

Query: 98  PKREEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC 137
           P REEIFAVV+IGSRQYIV PGR+IYTQRLKGA VNDK+ 
Sbjct: 118 PPREEIFAVVVIGSRQYIVIPGRWIYTQRLKGATVNDKIV 157

This protein binds to 23S ribosomal RNA in the presence of protein L20.

Spinacia oleracea (taxid: 3562)

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	150
118486114	225	unknown [Populus trichocarpa]	0.893	0.595	0.547	8e-28
224135915	227	predicted protein [Populus trichocarpa]	0.88	0.581	0.546	5e-26
255571748	214	50S ribosomal protein L21, putative [Ric	0.84	0.588	0.524	2e-25
224145182	206	predicted protein [Populus trichocarpa]	0.78	0.567	0.5	8e-25
15219695	220	50S ribosomal protein L21 [Arabidopsis t	0.833	0.568	0.436	2e-20
297846634	215	50S ribosomal protein L21, chloroplast [	0.833	0.581	0.443	2e-20
225454186	209	PREDICTED: 50S ribosomal protein L21, ch	0.806	0.578	0.489	4e-18
307136383	135	50S ribosomal protein l21 [Cucumis melo	0.806	0.896	0.404	2e-16
388510350	212	unknown [Medicago truncatula]	0.8	0.566	0.405	9e-15
449463382	206	PREDICTED: 50S ribosomal protein L21, ch	0.266	0.194	0.85	1e-13

>gi|118486114|gb|ABK94900.1| unknown [Populus trichocarpa]

 Score =  128 bits (321), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 81/148 (54%), Positives = 97/148 (65%), Gaps = 14/148 (9%)

Query: 1   MAAASSCATLALCSSLTSHCKIS-CQNPNPHPQLSLSKSKLCSFP-------SPKLYT-R 51
           MAA+SS A +ALCSSLT+ CKIS  QNP     L LSK    SF        SP +++ R
Sbjct: 1   MAASSSTALMALCSSLTTQCKISKSQNPPLSKTLCLSKPNFGSFSNTTKKLSSPLIFSKR 60

Query: 52  PTFSFTHKFSQTEPPPVSEPEVEPEAAL-EAEAEPT-TEVVESAAKEEPKREEIFAVVMI 109
           PTF    K S++E P V   E E E  + EA  EP  T++VE A +E  KREEIFAVVM+
Sbjct: 61  PTFFARPKVSESEAPVV---EAETEVPVSEANPEPAATQIVEVAKEEPTKREEIFAVVMV 117

Query: 110 GSRQYIVFPGRFIYTQRLKGANVNDKVC 137
           GSRQYIV PGR++Y QRLKGANVNDK+ 
Sbjct: 118 GSRQYIVIPGRWLYVQRLKGANVNDKIV 145

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135915|ref|XP_002327335.1| predicted protein [Populus trichocarpa] gi|222835705|gb|EEE74140.1| predicted protein [Populus trichocarpa]

 Score =  122 bits (306), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 82/150 (54%), Positives = 95/150 (63%), Gaps = 18/150 (12%)

Query: 1   MAAASSCATLALCSSLTSHCKIS-CQNPNPHPQLSLSKSKLCSFP---------SPKLYT 50
           MA +SS   +ALCSSLT+ CKIS  QNP     L LSK    SF          S     
Sbjct: 1   MATSSSTTLVALCSSLTTQCKISNAQNPPLSKSLCLSKPNSGSFSKTTQNLSSSSLIFSK 60

Query: 51  RPTFSFTH--KFSQTEPPPVSEPEVEPEAAL-EAEAEPT-TEVVESAAKEEPKREEIFAV 106
           RPTF F +  KFS++E   V   E EPE  + EA  EP  T++VE A +E PKREEIFAV
Sbjct: 61  RPTF-FANPPKFSESEALVV---EAEPEVPVSEANPEPAATQMVEVAKEEPPKREEIFAV 116

Query: 107 VMIGSRQYIVFPGRFIYTQRLKGANVNDKV 136
           VM+GSRQYIV PGR++Y QRLKGANVNDKV
Sbjct: 117 VMVGSRQYIVIPGRWLYVQRLKGANVNDKV 146

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255571748|ref|XP_002526817.1| 50S ribosomal protein L21, putative [Ricinus communis] gi|223533821|gb|EEF35552.1| 50S ribosomal protein L21, putative [Ricinus communis]

 Score =  120 bits (300), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 74/141 (52%), Positives = 88/141 (62%), Gaps = 15/141 (10%)

Query: 4   ASSCATLALCSSLTSHCKISCQNPNPHPQLSLSKSKLCSFP-------SPKLYTRPTFSF 56
           A++C TL+LCSS T+ C IS    NP+    +SK+   S P       S KL TRP+F  
Sbjct: 2   ATTCTTLSLCSSFTAQCTISNHKQNPN---FISKTHFSSNPKIGPFTKSHKLTTRPSFLP 58

Query: 57  THKFSQTEPPPVSEPEVEPEAALEAEAEPTTEVVESAAKEEPKREEIFAVVMIGSRQYIV 116
             K S+++ P +   EVE   A E + EP   V    AKEE KREEIFAVVM+G RQYIV
Sbjct: 59  ILKSSESDAPVL---EVEDANAPELQPEPAPFV--EVAKEETKREEIFAVVMVGGRQYIV 113

Query: 117 FPGRFIYTQRLKGANVNDKVC 137
            PGRFIY QRLKGANVNDKV 
Sbjct: 114 IPGRFIYVQRLKGANVNDKVA 134

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224145182|ref|XP_002325555.1| predicted protein [Populus trichocarpa] gi|222862430|gb|EEE99936.1| predicted protein [Populus trichocarpa]

 Score =  118 bits (296), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 73/146 (50%), Positives = 88/146 (60%), Gaps = 29/146 (19%)

Query: 1   MAAASSCATLALCSSLTSHCKIS-CQNPNPHPQLSLSKSKLCSFP-------SPKLYT-R 51
           MAA+SS A +ALCSSLT+ CKIS  QNP     L LSK    SF        SP +++ R
Sbjct: 1   MAASSSTALMALCSSLTTQCKISKSQNPPLSKTLCLSKPNFGSFSNTTKKLSSPLIFSKR 60

Query: 52  PTFSFTHKFSQTEPPPVSEPEVEPEAALEAEAEPTTEVVESAAKEEPKREEIFAVVMIGS 111
           PTF              + P+  PE A        T++VE A +E  KREEIFAVVM+GS
Sbjct: 61  PTF-------------FARPKANPEPA-------ATQIVEVAKEEPTKREEIFAVVMVGS 100

Query: 112 RQYIVFPGRFIYTQRLKGANVNDKVC 137
           RQYIV PGR++Y QRLKGANVNDK+ 
Sbjct: 101 RQYIVIPGRWLYVQRLKGANVNDKIV 126

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15219695|ref|NP_174808.1| 50S ribosomal protein L21 [Arabidopsis thaliana] gi|1710424|sp|P51412.1|RK21_ARATH RecName: Full=50S ribosomal protein L21, chloroplastic; AltName: Full=CL21; Flags: Precursor gi|8778379|gb|AAF79387.1|AC007887_46 F15O4.7 [Arabidopsis thaliana] gi|16226899|gb|AAL16293.1|AF428363_1 At1g35680/F15O4_7 [Arabidopsis thaliana] gi|1149573|emb|CAA89887.1| chloroplast ribosomal large subunit protein L21 [Arabidopsis thaliana] gi|14456036|emb|CAB59360.2| chloroplast ribosomal protein L21 [Arabidopsis thaliana] gi|16648685|gb|AAL25535.1| At1g35680/F15O4_7 [Arabidopsis thaliana] gi|21436001|gb|AAM51578.1| At1g35680/F15O4_7 [Arabidopsis thaliana] gi|332193702|gb|AEE31823.1| 50S ribosomal protein L21 [Arabidopsis thaliana]

 Score =  104 bits (259), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 62/142 (43%), Positives = 88/142 (61%), Gaps = 17/142 (11%)

Query: 4   ASSCATLALCSSLTSHCKISCQNPNP------HPQLSLSKSKLCSFPSPKL--YTRPTFS 55
           ASS ATL+LCS+ ++HC ++ +  +        P L+L+K  L  F SP     +R  F+
Sbjct: 2   ASSSATLSLCSTFSAHCNVNSRRSSTILCSLSKPSLNLAK-PLTGFLSPSTASTSRTAFT 60

Query: 56  FTHKFSQTEPPPVSEPEVEPEAALEAEAEPTTEVVESAAKEEPKREEIFAVVMIGSRQYI 115
              KF++      S  E EPE   + EA   ++V E   +E+ KREEIFAV+M+G RQYI
Sbjct: 61  VAPKFAE------SVVEAEPETT-DIEAVVVSDVSE-VTEEKAKREEIFAVIMVGGRQYI 112

Query: 116 VFPGRFIYTQRLKGANVNDKVC 137
           VFPGR++YTQRLK ANV+D++ 
Sbjct: 113 VFPGRYLYTQRLKDANVDDQIV 134

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297846634|ref|XP_002891198.1| 50S ribosomal protein L21, chloroplast [Arabidopsis lyrata subsp. lyrata] gi|297337040|gb|EFH67457.1| 50S ribosomal protein L21, chloroplast [Arabidopsis lyrata subsp. lyrata]

 Score =  103 bits (258), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 63/142 (44%), Positives = 88/142 (61%), Gaps = 17/142 (11%)

Query: 4   ASSCATLALCSSLTSHCKISCQNPNP------HPQLSLSK--SKLCSFPSPKLYTRPTFS 55
           ASS ATL+LCS+ ++HC ++ +  +        P L+L+K  S   S PS    +R  F+
Sbjct: 2   ASSSATLSLCSTFSAHCNVTSRRSSTILCSLSKPSLNLAKPVSGFLS-PSTASTSRTAFT 60

Query: 56  FTHKFSQTEPPPVSEPEVEPEAALEAEAEPTTEVVESAAKEEPKREEIFAVVMIGSRQYI 115
              KF++      S  E EPE   + EA   ++V E   +E+ KREEIFAVVM+G RQYI
Sbjct: 61  VAPKFAE------SVVEAEPETT-DIEAVVVSDVSE-VTEEKAKREEIFAVVMVGGRQYI 112

Query: 116 VFPGRFIYTQRLKGANVNDKVC 137
           VFPGR++YTQRLK ANV+D++ 
Sbjct: 113 VFPGRYLYTQRLKDANVDDQIV 134

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225454186|ref|XP_002272295.1| PREDICTED: 50S ribosomal protein L21, chloroplastic [Vitis vinifera] gi|297745266|emb|CBI40346.3| unnamed protein product [Vitis vinifera]

 Score = 96.3 bits (238), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 68/139 (48%), Positives = 80/139 (57%), Gaps = 18/139 (12%)

Query: 6   SCATLAL-CSSLTSHCKISCQNPNPHPQLSLSKSKLCSFPSPKLYTRPTFSFTHKFSQTE 64
           + ATLA   SSLT    +S ++ +  P+ +LS S    F SP   T          S   
Sbjct: 2   ASATLAFFSSSLTPTATLSLKHKSSAPKKTLSFSNF-GFLSPHSLT---------LSSRR 51

Query: 65  PP---PVSEPEVEPEAALEAEAEPTTE---VVESAAKEEPKREEIFAVVMIGSRQYIVFP 118
           PP   P S  E EP       +EP +E   VVE    E PKREEIFAVVMIGSRQYIVFP
Sbjct: 52  PPSPLPKSS-EFEPSVIEVESSEPNSEALQVVEEPPPELPKREEIFAVVMIGSRQYIVFP 110

Query: 119 GRFIYTQRLKGANVNDKVC 137
           GR+IYTQRLKGA+VNDK+ 
Sbjct: 111 GRYIYTQRLKGADVNDKII 129

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307136383|gb|ADN34194.1| 50S ribosomal protein l21 [Cucumis melo subsp. melo]

 Score = 90.5 bits (223), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 57/141 (40%), Positives = 79/141 (56%), Gaps = 20/141 (14%)

Query: 9   TLALCSSLTSHCKISCQNPNPHPQLSLSKSKLCSFPSPKLYTRP-------TFSFTHKFS 61
           TL+LC++ +  C++S  +  P      S S    FP     +          FSF    S
Sbjct: 5   TLSLCANFSLQCRLSTNHSLPLSTPFPSSSSNHHFPLSTSSSSLKLSSSRSAFSFLLNSS 64

Query: 62  QTEPPPVSEPEVEPEAALEAEAEPTTEVVESAAKEEPKREEIFAVVMIGSRQYIVFPGRF 121
            +E   +   + +P+A         ++ +E  +++ P REEIFAVVMIGSRQYIVFPGR+
Sbjct: 65  DSETAVI---DSDPDA---------SQALEIPSQQTPNREEIFAVVMIGSRQYIVFPGRY 112

Query: 122 IYTQRLKGANVNDKVC-NFCA 141
           I+TQRLKGANVNDKV   +CA
Sbjct: 113 IHTQRLKGANVNDKVALTYCA 133

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388510350|gb|AFK43241.1| unknown [Medicago truncatula]

 Score = 85.1 bits (209), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 58/143 (40%), Positives = 78/143 (54%), Gaps = 23/143 (16%)

Query: 1   MAAASSCATLALCSSLTSHCKISCQNPNPHPQLSLSKSKLCS-FPSPKLYTRPTFSFTHK 59
           MA+A++     LCSS T+HC I        P  S+S     S FPS  L      SF   
Sbjct: 1   MASATASTLSTLCSSFTTHCSIK-------PHFSISHQPFSSRFPSRNL------SFQST 47

Query: 60  FSQTEP----PPVSEPEVEP-EAALEAEAEPTTEVVESAAKEEPKREEIFAVVMIGSRQY 114
           FSQ  P    P  +E  V P ++  +     ++++V+S + E+     +FAVVMIG RQY
Sbjct: 48  FSQRLPLLPAPKSTESSVAPVDSDSQVSESESSQIVQSPSWEK----GLFAVVMIGGRQY 103

Query: 115 IVFPGRFIYTQRLKGANVNDKVC 137
           IV PGR++  QRLKGANVNDK+ 
Sbjct: 104 IVHPGRWLVVQRLKGANVNDKIA 126

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463382|ref|XP_004149413.1| PREDICTED: 50S ribosomal protein L21, chloroplastic-like [Cucumis sativus] gi|449496845|ref|XP_004160241.1| PREDICTED: 50S ribosomal protein L21, chloroplastic-like [Cucumis sativus]

 Score = 81.3 bits (199), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 34/40 (85%), Positives = 38/40 (95%)

Query: 98  PKREEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC 137
           P REEIFAVVMIGSRQYIVFPGR+I+TQRLKGA+VNDK+ 
Sbjct: 87  PNREEIFAVVMIGSRQYIVFPGRYIHTQRLKGADVNDKIT 126

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	150
TAIR|locus:2014711	220	RPL21C "chloroplast ribosomal	0.773	0.527	0.344	5.6e-13

TAIR|locus:2014711 RPL21C "chloroplast ribosomal protein L21" [Arabidopsis thaliana (taxid:3702)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 41/119 (34%), Positives = 60/119 (50%)

Query:    19 HCKISCQNPNPHPQLSLSKSKLCSFPSPKL-YTRPTFSFTHKFSQTXXXXXXXXXXXXXX 77
             HC ++ +  +     SLSK  L +   P   +  P+ + T + + T              
Sbjct:    17 HCNVNSRRSSTI-LCSLSKPSL-NLAKPLTGFLSPSTASTSRTAFTVAPKFAESVVEAEP 74

Query:    78 XXXXXXXXXXXXXXXXXKEEPKREEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKV 136
                              +E+ KREEIFAV+M+G RQYIVFPGR++YTQRLK ANV+D++
Sbjct:    75 ETTDIEAVVVSDVSEVTEEKAKREEIFAVIMVGGRQYIVFPGRYLYTQRLKDANVDDQI 133


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.326   0.138   0.436    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      150       102   0.00091  102 3  11 22  0.49    29
                                                     29  0.48    31


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  530 (56 KB)
  Total size of DFA:  116 KB (2077 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  10.40u 0.11s 10.51t   Elapsed:  00:00:01
  Total cpu time:  10.40u 0.11s 10.51t   Elapsed:  00:00:01
  Start:  Fri May 10 08:40:22 2013   End:  Fri May 10 08:40:23 2013

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005840 "ribosome" evidence=ISS

GO:0006412 "translation" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0009409 "response to cold" evidence=IEP;RCA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009658 "chloroplast organization" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP

GO:0010027 "thylakoid membrane organization" evidence=RCA;IMP

GO:0006364 "rRNA processing" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0042742 "defense response to bacterium" evidence=RCA

GO:0042793 "transcription from plastid promoter" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	150
pfam00829	96	pfam00829, Ribosomal_L21p, Ribosomal prokaryotic L	5e-07
PRK05573	103	PRK05573, rplU, 50S ribosomal protein L21; Validat	1e-04

>gnl|CDD|201461 pfam00829, Ribosomal_L21p, Ribosomal prokaryotic L21 protein

 Score = 44.8 bits (107), Expect = 5e-07
 Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 1/33 (3%)

Query: 104 FAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKV 136
           +A++  G +QY V  G  I+ ++L  A V DK+
Sbjct: 2   YAIIETGGKQYKVEEGDVIFVEKL-DAEVGDKI 33

Length = 96

>gnl|CDD|235510 PRK05573, rplU, 50S ribosomal protein L21; Validated

 Score = 38.9 bits (92), Expect = 1e-04
 Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 1/33 (3%)

Query: 104 FAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKV 136
           +A++  G +QY V  G  I  ++L  A V D V
Sbjct: 2   YAIIKTGGKQYKVEEGDVIKVEKLD-AEVGDTV 33

Length = 103

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	150
CHL00075	108	rpl21 ribosomal protein L21	99.45
PF00829	96	Ribosomal_L21p: Ribosomal prokaryotic L21 protein;	99.41
PRK05573	103	rplU 50S ribosomal protein L21; Validated	99.41
COG0261	103	RplU Ribosomal protein L21 [Translation, ribosomal	99.39
TIGR00061	101	L21 ribosomal protein L21. Eubacterial and chlorop	99.27
KOG1686	151	consensus Mitochondrial/chloroplast ribosomal L21	98.89
PF02311	136	AraC_binding: AraC-like ligand binding domain; Int	87.22
COG0662	127	{ManC} Mannose-6-phosphate isomerase [Carbohydrate	84.97
PF11356	87	Pilus_PilP: Type IV pilus biogenesis; InterPro: IP	84.35
PF07883	71	Cupin_2: Cupin domain; InterPro: IPR013096 This fa	80.81

>CHL00075 rpl21 ribosomal protein L21

Probab=99.45  E-value=1.5e-13  Score=103.14  Aligned_cols=39  Identities=26%  Similarity=0.382  Sum_probs=35.9

Q ss_pred             CceEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eee
Q 031957          101 EEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFC  140 (150)
Q Consensus       101 ~~MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~  140 (150)
                      ++|||||++|||||||++||+|.||+|+ +++||+|+ +.+
T Consensus         1 ~~myAIi~~gGkQykV~~Gd~i~vekl~-~~~G~~i~l~~V   40 (108)
T CHL00075          1 MMTYAIIEAGGKQLWVEPGRFYDINHFP-LEPGTKILLNRV   40 (108)
T ss_pred             CcEEEEEEECCEEEEEeCCCEEEEEEcC-CCCCCEEEEEEE
Confidence            3699999999999999999999999996 89999999 555

>PF00829 Ribosomal_L21p: Ribosomal prokaryotic L21 protein; InterPro: IPR001787 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.41  E-value=3.2e-13  Score=98.62  Aligned_cols=37  Identities=38%  Similarity=0.608  Sum_probs=33.7

Q ss_pred             eEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eee
Q 031957          103 IFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFC  140 (150)
Q Consensus       103 MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~  140 (150)
                      |||||++|||||||++||+|+||+| ++++||+|+ +.+
T Consensus         1 myAIi~~ggkQykV~~gd~i~v~~l-~~~~G~~i~l~~V   38 (96)
T PF00829_consen    1 MYAIIEIGGKQYKVEEGDVIDVERL-DAEVGDKIELDKV   38 (96)
T ss_dssp             -EEEEESSSEEEEESSSEEEEEEST-SSSTTSEEEETTE
T ss_pred             CEEEEEECCEEEEEeCCCEEEECCc-CcCCCCEEEEEEE
Confidence            9999999999999999999999999 599999999 444

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 [, ]. Ribosomal protein L21 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L21 is known to bind to the 23S rRNA in the presence of L20. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities, groups: Bacterial L21. Marchantia polymorpha chloroplast L21. Cyanelle L21. Plant chloroplast L21 (nuclear-encoded). Bacterial L21 is a protein of about 100 amino-acid residues, the mature form of the spinach chloroplast L21 has 200 residues.; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XG0_V 2X9S_V 2XG2_V 3UZ1_2 2Y19_V 2WDL_V 3V23_V 2WRO_V 2WRL_V 2Y11_V ....

>PRK05573 rplU 50S ribosomal protein L21; Validated

Probab=99.41  E-value=3.7e-13  Score=99.76  Aligned_cols=37  Identities=32%  Similarity=0.533  Sum_probs=34.9

Q ss_pred             eEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eee
Q 031957          103 IFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFC  140 (150)
Q Consensus       103 MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~  140 (150)
                      |||||++|||||||++||+|+||+|+ +++||+|+ +.+
T Consensus         1 MyAIi~~gGkQykV~~Gd~i~v~~l~-~~~G~~i~l~~V   38 (103)
T PRK05573          1 MYAIIKTGGKQYKVEEGDVIKVEKLD-AEVGDTVEFDEV   38 (103)
T ss_pred             CEEEEEECCEEEEEeCCCEEEEcccC-CCCCCEEEEeEE
Confidence            99999999999999999999999996 89999999 555

>COG0261 RplU Ribosomal protein L21 [Translation, ribosomal structure and biogenesis]

Probab=99.39  E-value=5.6e-13  Score=100.53  Aligned_cols=38  Identities=32%  Similarity=0.490  Sum_probs=35.5

Q ss_pred             eEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eeec
Q 031957          103 IFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFCA  141 (150)
Q Consensus       103 MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~~  141 (150)
                      |||||++|||||||++||+|+||+|+ +++||+|+ +.++
T Consensus         1 mYAii~tGGKQykV~~G~~i~vEkl~-~e~g~~v~f~~VL   39 (103)
T COG0261           1 MYAIIKTGGKQYKVEEGDVIKVEKLD-AEPGDKVEFDEVL   39 (103)
T ss_pred             CeEEEEECCEEEEEecCCEEEEEEcC-CCCCCEEEEEEEE
Confidence            99999999999999999999999996 89999999 6653

>TIGR00061 L21 ribosomal protein L21

Probab=99.27  E-value=6.8e-12  Score=93.15  Aligned_cols=36  Identities=33%  Similarity=0.495  Sum_probs=33.9

Q ss_pred             EEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eee
Q 031957          104 FAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFC  140 (150)
Q Consensus       104 YAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~  140 (150)
                      ||||++|||||||++||+|.||+|+ +++||.|+ +.+
T Consensus         1 yAIi~~gGkQykV~~Gd~i~Ve~l~-~~~G~~i~l~~V   37 (101)
T TIGR00061         1 YAIVEIGGKQYKVEEGQTVRIEKLD-AAPGDTVEFDKV   37 (101)
T ss_pred             CEEEEECCEEEEEeCCCEEEEcccC-CCCCCEEEEEEE
Confidence            8999999999999999999999996 89999999 555

Eubacterial and chloroplast.

>KOG1686 consensus Mitochondrial/chloroplast ribosomal L21 protein [Translation, ribosomal structure and biogenesis]

Probab=98.89  E-value=2.3e-09  Score=85.66  Aligned_cols=54  Identities=39%  Similarity=0.331  Sum_probs=48.8

Q ss_pred             cCCCCCceEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eee--ccCCcceec
Q 031957           96 EEPKREEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFC--AFSPLQFLI  149 (150)
Q Consensus        96 ~~~~r~~MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~--~~~~~~~~~  149 (150)
                      ...+|+..||||.+||+||||..||.||.++++.+++||++. +++  .|+-.|++|
T Consensus        19 ~~~kr~~~favv~v~srq~kvs~gd~iy~eg~~p~nv~d~i~l~kVlLvg~~~~T~~   75 (151)
T KOG1686|consen   19 HSIKRPSGFAVVSVGSRQRKVSSGDTIYTEGLKPKNVLDSIPLPKVLLVGPVEETRI   75 (151)
T ss_pred             hccccCCccEEEEEcceeEEecCCCeeeecCccccccccccccceEEEecCcceeEe
Confidence            568899999999999999999999999999999999999999 776  677777765

>PF02311 AraC_binding: AraC-like ligand binding domain; InterPro: IPR003313 This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC

Probab=87.22  E-value=1  Score=30.35  Aligned_cols=21  Identities=19%  Similarity=0.453  Sum_probs=16.3

Q ss_pred             EEEEeCCEEEEEcCCCEEEec
Q 031957          105 AVVMIGSRQYIVFPGRFIYTQ  125 (150)
Q Consensus       105 AIVeiGGKQYKVe~GdvI~Ve  125 (150)
                      +.+.++|++|.|.+||++.+.
T Consensus        34 ~~~~~~~~~~~l~~g~~~li~   54 (136)
T PF02311_consen   34 GTLHIDGQEYPLKPGDLFLIP   54 (136)
T ss_dssp             EEEEETTEEEEE-TT-EEEE-
T ss_pred             EEEEECCEEEEEECCEEEEec
Confidence            457899999999999999976

The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1XJA_B 2ARA_A 2AAC_B 2ARC_A.

>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]

Probab=84.97  E-value=1.4  Score=32.53  Aligned_cols=21  Identities=29%  Similarity=0.396  Sum_probs=19.5

Q ss_pred             EEEEeCCEEEEEcCCCEEEec
Q 031957          105 AVVMIGSRQYIVFPGRFIYTQ  125 (150)
Q Consensus       105 AIVeiGGKQYKVe~GdvI~Ve  125 (150)
                      |+|.+||+++-|.+||.++|+
T Consensus        68 g~v~~~~~~~~v~~gd~~~iP   88 (127)
T COG0662          68 GKVTIGGEEVEVKAGDSVYIP   88 (127)
T ss_pred             EEEEECCEEEEecCCCEEEEC
Confidence            567899999999999999997

>PF11356 Pilus_PilP: Type IV pilus biogenesis; InterPro: IPR022753 Type IV pili are required for auto-agglutination, twitching motility, biofilm formation, adherence and DNA uptake during transformation []

Probab=84.35  E-value=1.2  Score=30.44  Aligned_cols=25  Identities=20%  Similarity=0.064  Sum_probs=19.5

Q ss_pred             CCCceEEEEE-eCCEEEEEcCCCEEE
Q 031957           99 KREEIFAVVM-IGSRQYIVFPGRFIY  123 (150)
Q Consensus        99 ~r~~MYAIVe-iGGKQYKVe~GdvI~  123 (150)
                      .....+|||+ .+|+|+.+..||.|.
T Consensus        37 ~~~~~~Aii~~~~~~~~~~~~Gd~i~   62 (87)
T PF11356_consen   37 GGGRSSAIIRPSGGEQRTYRVGDTIP   62 (87)
T ss_dssp             CSSS-EEEEE-CTTEEEEE-TTEE-S
T ss_pred             CCCceEEEEEeCCCcEEEEECcCEeC
Confidence            4556899999 999999999999987

PilP is an inner membrane protein, required for pilus expression and transformation []. PilP interacts with PilQ which suggests that the two proteins may have coordinated activity in functions such as pilus extrusion/retraction []. ; PDB: 3OSS_C 2LNV_A.

>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel)

Probab=80.81  E-value=2.9  Score=26.35  Aligned_cols=22  Identities=18%  Similarity=0.359  Sum_probs=18.8

Q ss_pred             EEEEeCCEEEEEcCCCEEEecc
Q 031957          105 AVVMIGSRQYIVFPGRFIYTQR  126 (150)
Q Consensus       105 AIVeiGGKQYKVe~GdvI~Ver  126 (150)
                      +.+.++|+.|.+++||.++++.
T Consensus        30 ~~~~~~~~~~~l~~Gd~~~i~~   51 (71)
T PF07883_consen   30 GTLTVDGERVELKPGDAIYIPP   51 (71)
T ss_dssp             EEEEETTEEEEEETTEEEEEET
T ss_pred             EEEEEccEEeEccCCEEEEECC
Confidence            3456999999999999999874

; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	150
3bbo_T	257	Homology Model For The Spinach Chloroplast 50s Subu		3e-13

>pdb|3BBO|T Chain T, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 257

Iteration: 1
 Score = 70.5 bits (171), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 31/40 (77%), Positives = 35/40 (87%)
Query: 98  PKREEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC 137
           P+ E IFAVV+IGSRQYIV PGR+IYTQRLKGA VNDK+ 
Sbjct: 119 PREEIIFAVVVIGSRQYIVIPGRWIYTQRLKGATVNDKIV 158

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	150
3bbo_T	257	Ribosomal protein L21; large ribosomal subunit, sp	1e-13

>3bbo_T Ribosomal protein L21; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 257

 Score = 65.1 bits (158), Expect = 1e-13
 Identities = 50/156 (32%), Positives = 63/156 (40%), Gaps = 24/156 (15%)

Query: 5   SSCATLALCSSLTSHCKISC-QNPNPHPQLSLSKSKLCSFPSPKLY---------TRPTF 54
           +S      CSSL +  K+    NP       LSK        P L           R  F
Sbjct: 2   ASATLAFSCSSLCATLKLPQNLNPLLLNVPPLSKPFSGVVSPPSLSRLSLLPVAAKRRRF 61

Query: 55  SFTHKFSQTEPPPVSEPEVE--------------PEAALEAEAEPTTEVVESAAKEEPKR 100
               +  + E      P  +              PE       +   + +       P+ 
Sbjct: 62  QEIPEELKAEFEEFQRPPNQKPQLSDVLPDDFQAPEPGTPEYNDIINQFLPKKGPPPPRE 121

Query: 101 EEIFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKV 136
           E IFAVV+IGSRQYIV PGR+IYTQRLKGA VNDK+
Sbjct: 122 EIIFAVVVIGSRQYIVIPGRWIYTQRLKGATVNDKI 157

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	150
3bbo_T	257	Ribosomal protein L21; large ribosomal subunit, sp	99.95
3v2d_V	101	50S ribosomal protein L21; ribosome associated inh	99.45
3r8s_R	103	50S ribosomal protein L21; protein biosynthesis, R	99.44
2zjr_O	100	50S ribosomal protein L21; ribosome, large ribosom	99.33
2ozj_A	114	Cupin 2, conserved barrel; cupin superfamily prote	83.08
4i4a_A	128	Similar to unknown protein; structural genomics, P	81.84
2ivw_A	113	PILP pilot protein; lipoprotein, pilus biogenesis,	81.67
1v70_A	105	Probable antibiotics synthesis protein; structural	80.79
3lwc_A	119	Uncharacterized protein; structural genomics, unkn	80.12

>3bbo_T Ribosomal protein L21; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=99.95  E-value=9.7e-31  Score=219.20  Aligned_cols=132  Identities=40%  Similarity=0.504  Sum_probs=35.7

Q ss_pred             HHHHH-hhhcccceeecCC-CCCCCCCCccCCCCCCCC-CCC-C-------cccCCCcccccccC-----CCCC------
Q 031957            8 ATLAL-CSSLTSHCKISCQ-NPNPHPQLSLSKSKLCSF-PSP-K-------LYTRPTFSFTHKFS-----QTEP------   65 (150)
Q Consensus         8 ~~~~l-Css~~~~c~is~~-~p~~~~~~~ls~~~~~~~-~~t-~-------~~~r~~~~~~~~~s-----~se~------   65 (150)
                      +||+| ||||++||+|+++ ||+++..+.||+|++|.+ |++ .       ..+|++|+..|+++     +|++      
T Consensus         4 ~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~s~p~~~~~~~~~~~~~s~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~   83 (257)
T 3bbo_T            4 ATLAFSCSSLCATLKLPQNLNPLLLNVPPLSKPFSGVVSPPSLSRLSLLPVAAKRRRFQEIPEELKAEFEEFQRPPNQKP   83 (257)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             eEEEeeeccceeeeeccCCCCCccccccccCCccccccCCCcccccccccccccCcccccchhhhhhchhhhccccccCc
Confidence            35888 9999999999999 898888888999999988 655 3       23499999999999     8887      


Q ss_pred             CCCCCCCCchhhhhhcccCCchHHHhh---hhccCCCCCc-eEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eee
Q 031957           66 PPVSEPEVEPEAALEAEAEPTTEVVES---AAKEEPKREE-IFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFC  140 (150)
Q Consensus        66 ~~v~~~~~~~e~~~epe~~~~~~i~e~---v~~~~~~r~~-MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~  140 (150)
                      +++|.+. ..+++|||....+.+|.-+   +..+..++.. |||||++|||||||++||+|+||||+++++||+|+ +.+
T Consensus        84 ~~~~~~p-~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~~~~MYAIIetGGKQYKV~~GD~I~VEKL~~aevGd~V~LdkV  162 (257)
T 3bbo_T           84 QLSDVLP-DDFQAPEPGTPEYNDIINQFLPKKGPPPPREEIIFAVVVIGSRQYIVIPGRWIYTQRLKGATVNDKIVLNKV  162 (257)
T ss_dssp             -----------------------------------------CCCCCCSSSCCCCCCTTCCCCCCCCTTSCTTCEEECTTC
T ss_pred             ceeecCC-CccCCcccccccccccccccccccccCCCcCCCeEEEEEECCEEEEEeCCCEEEEeCCCCCCCCCEEEEEEE
Confidence            4443221 1223333331113333211   2223344544 99999999999999999999999998789999999 555

>3v2d_V 50S ribosomal protein L21; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_P 2hgj_U 2hgq_U 2hgu_U 1vsa_P 2j03_V 2jl6_V 2jl8_V 2v47_V 2v49_V 2wdi_V 2wdj_V 2wdl_V 2wdn_V 2wh2_V 2wh4_V 2wrj_V 2wrl_V 2wro_V 2wrr_V ...

Probab=99.45  E-value=8.6e-14  Score=102.43  Aligned_cols=37  Identities=32%  Similarity=0.472  Sum_probs=34.9

Q ss_pred             eEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eeec
Q 031957          103 IFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFCA  141 (150)
Q Consensus       103 MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~~  141 (150)
                      |||||++|||||||++||+|+||+|+ +++||+|+ + ++
T Consensus         1 MyAIi~~gGkQykV~~Gd~i~vekl~-~~~G~~v~~~-VL   38 (101)
T 3v2d_V            1 MFAIVKTGGKQYRVEPGLKLRVEKLD-AEPGATVELP-VL   38 (101)
T ss_dssp             CEEEEEETTEEEEECTTCEEEESCCS-CCTTCEEEEC-EE
T ss_pred             CEEEEEeCCEEEEEeCCCEEEECCcC-CCCCCEEEEE-EE
Confidence            99999999999999999999999997 89999999 6 53

>3r8s_R 50S ribosomal protein L21; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1vs8_R 1vs6_R 2aw4_R 2awb_R 1vt2_R 2i2v_R 2j28_R 2i2t_R* 2qao_R* 2qba_R* 2qbc_R* 2qbe_R 2qbg_R 2qbi_R* 2qbk_R* 2qov_R 2qox_R 2qoz_R* 2qp1_R* 2rdo_R ...

Probab=99.44  E-value=7e-14  Score=102.94  Aligned_cols=37  Identities=22%  Similarity=0.287  Sum_probs=34.8

Q ss_pred             eEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eee
Q 031957          103 IFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFC  140 (150)
Q Consensus       103 MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~  140 (150)
                      |||||++|||||||++||+|+||+|+ +++||+|+ +.+
T Consensus         1 MyAIi~~gGkQykV~~Gd~i~vekl~-~~~G~~v~~~~V   38 (103)
T 3r8s_R            1 MYAVFQSGGKQHRVSEGQTVRLEKLD-IATGETVEFAEV   38 (103)
T ss_dssp             CEEEEECSSSEEEEETTCEEEESCCC-SCTTCEEEECCE
T ss_pred             CEEEEEECCEEEEEeCCCEEEECCcC-CCCCCEEEEeEE
Confidence            99999999999999999999999997 89999999 544

>2zjr_O 50S ribosomal protein L21; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.155.1.1 PDB: 1nwx_P* 1nwy_P* 1pnu_P 1pny_P 1sm1_P* 1vor_S 1vou_S 1vow_S 1voy_S 1vp0_S 1xbp_P* 1yl3_2 2b66_V 2b9n_V 2b9p_V 2zjp_O* 2zjq_O 1nkw_P 3cf5_O* 3dll_O* ...

Probab=99.33  E-value=8.4e-14  Score=102.08  Aligned_cols=36  Identities=33%  Similarity=0.570  Sum_probs=30.7

Q ss_pred             eEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eee
Q 031957          103 IFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFC  140 (150)
Q Consensus       103 MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~  140 (150)
                      |||||++|||||||++||+|+||+|+ +++||+|+ + +
T Consensus         1 myAIi~~gGkQykV~~Gd~i~vekl~-~~~G~~v~~~-V   37 (100)
T 2zjr_O            1 MFAIIQTGGKQYRVSEGDVIRVESLQ-GEAGDKVELK-A   37 (100)
T ss_dssp             ----CCSSCCSCCSCCEEEEECCSCC-SSCCEEEECC-S
T ss_pred             CEEEEEECCEEEEEeCCCEEEEcccC-CCCCCEEEEE-E
Confidence            99999999999999999999999997 89999999 6 6

>2ozj_A Cupin 2, conserved barrel; cupin superfamily protein, struct genomics, joint center for structural genomics, JCSG; HET: MSE; 1.60A {Desulfitobacterium hafniense}

Probab=83.08  E-value=1.4  Score=29.18  Aligned_cols=22  Identities=14%  Similarity=0.285  Sum_probs=19.2

Q ss_pred             EEEEeCCEEEEEcCCCEEEecc
Q 031957          105 AVVMIGSRQYIVFPGRFIYTQR  126 (150)
Q Consensus       105 AIVeiGGKQYKVe~GdvI~Ver  126 (150)
                      +.+.++|+.|.+.+||.|+++.
T Consensus        69 ~~~~i~~~~~~l~~Gd~i~i~~   90 (114)
T 2ozj_A           69 AVITFDDQKIDLVPEDVLMVPA   90 (114)
T ss_dssp             EEEEETTEEEEECTTCEEEECT
T ss_pred             EEEEECCEEEEecCCCEEEECC
Confidence            4578999999999999999864

>4i4a_A Similar to unknown protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: MSE; 1.35A {Photorhabdus luminescens subsp}

Probab=81.84  E-value=1.7  Score=29.25  Aligned_cols=22  Identities=23%  Similarity=0.377  Sum_probs=19.4

Q ss_pred             EEEEeCCEEEEEcCCCEEEecc
Q 031957          105 AVVMIGSRQYIVFPGRFIYTQR  126 (150)
Q Consensus       105 AIVeiGGKQYKVe~GdvI~Ver  126 (150)
                      +.+.++|+.|.+.+||.++++.
T Consensus        65 ~~~~i~~~~~~l~~Gd~~~i~~   86 (128)
T 4i4a_A           65 AIIRINDEDFPVTKGDLIIIPL   86 (128)
T ss_dssp             EEEEETTEEEEEETTCEEEECT
T ss_pred             EEEEECCEEEEECCCcEEEECC
Confidence            4577899999999999999874

>2ivw_A PILP pilot protein; lipoprotein, pilus biogenesis, secretin; NMR {Neisseria meningitidis}

Probab=81.67  E-value=1.5  Score=32.48  Aligned_cols=23  Identities=13%  Similarity=0.260  Sum_probs=20.6

Q ss_pred             CCceEEEEEeCCEEEEEcCCCEE
Q 031957          100 REEIFAVVMIGSRQYIVFPGRFI  122 (150)
Q Consensus       100 r~~MYAIVeiGGKQYKVe~GdvI  122 (150)
                      ....+|+|+..|+=|+|.+|++|
T Consensus        36 ~~~~~ALV~~dG~vyrVk~G~yi   58 (113)
T 2ivw_A           36 GQKVSGFIEAEGYVYTVGVGNYL   58 (113)
T ss_dssp             SSSEEEEEEETTEEEEECSSEEE
T ss_pred             CCeEEEEEEeCCcEEEEccCCEe
Confidence            34589999999999999999987

>1v70_A Probable antibiotics synthesis protein; structural genomics, thermus thermophilus HB8, riken structu genomics/proteomics initiative, RSGI; 1.30A {Thermus thermophilus} SCOP: b.82.1.9 PDB: 2dct_A

Probab=80.79  E-value=2.1  Score=26.80  Aligned_cols=22  Identities=23%  Similarity=0.480  Sum_probs=18.9

Q ss_pred             EEEEeCCEEEEEcCCCEEEecc
Q 031957          105 AVVMIGSRQYIVFPGRFIYTQR  126 (150)
Q Consensus       105 AIVeiGGKQYKVe~GdvI~Ver  126 (150)
                      +.+.++|+.|.+.+||.++++.
T Consensus        60 ~~~~~~~~~~~l~~Gd~~~ip~   81 (105)
T 1v70_A           60 VVVRVGEEEALLAPGMAAFAPA   81 (105)
T ss_dssp             EEEEETTEEEEECTTCEEEECT
T ss_pred             EEEEECCEEEEeCCCCEEEECC
Confidence            3478899999999999999874

>3lwc_A Uncharacterized protein; structural genomics, unknown function, joint center for STRU genomics, JCSG, protein structure initiative; HET: MSE; 1.40A {Rhizobium leguminosarum}

Probab=80.12  E-value=2  Score=30.24  Aligned_cols=22  Identities=18%  Similarity=0.330  Sum_probs=19.4

Q ss_pred             EEEEeCCEEEEEcCCCEEEecc
Q 031957          105 AVVMIGSRQYIVFPGRFIYTQR  126 (150)
Q Consensus       105 AIVeiGGKQYKVe~GdvI~Ver  126 (150)
                      +.+.++|+.|.+.+||.|++..
T Consensus        70 ~~~~~~g~~~~l~~GD~v~ip~   91 (119)
T 3lwc_A           70 LSVSTDGETVTAGPGEIVYMPK   91 (119)
T ss_dssp             EEEEETTEEEEECTTCEEEECT
T ss_pred             EEEEECCEEEEECCCCEEEECC
Confidence            4578899999999999999874

---

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	150
d2j01v1	101	b.155.1.1 (V:1-101) Ribosomal protein L21p {Thermu	1e-05
d2qamr1	103	b.155.1.1 (R:1-103) Ribosomal protein L21p {Escher	8e-05

>d2j01v1 b.155.1.1 (V:1-101) Ribosomal protein L21p {Thermus thermophilus [TaxId: 274]} Length = 101

class: All beta proteins
fold: L21p-like
superfamily: L21p-like
family: Ribosomal protein L21p
domain: Ribosomal protein L21p
species: Thermus thermophilus [TaxId: 274]

 Score = 39.8 bits (93), Expect = 1e-05
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 104 FAVVMIGSRQYIVFPGRFIYTQRLKG 129
           FA+V  G +QY V PG  +  ++L  
Sbjct: 2   FAIVKTGGKQYRVEPGLKLRVEKLDA 27

>d2qamr1 b.155.1.1 (R:1-103) Ribosomal protein L21p {Escherichia coli [TaxId: 562]} Length = 103

class: All beta proteins
fold: L21p-like
superfamily: L21p-like
family: Ribosomal protein L21p
domain: Ribosomal protein L21p
species: Escherichia coli [TaxId: 562]

 Score = 37.5 bits (87), Expect = 8e-05
 Identities = 8/27 (29%), Positives = 15/27 (55%)

Query: 104 FAVVMIGSRQYIVFPGRFIYTQRLKGA 130
           +AV   G +Q+ V  G+ +  ++L  A
Sbjct: 2   YAVFQSGGKQHRVSEGQTVRLEKLDIA 28

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	150
d2j01v1	101	Ribosomal protein L21p {Thermus thermophilus [TaxI	99.32
d2qamr1	103	Ribosomal protein L21p {Escherichia coli [TaxId: 5	99.3
d2zjro1	94	Ribosomal protein L21p {Deinococcus radiodurans [T	98.68
d2b8ma1	108	Hypothetical protein MJ0764 {Archaeon Methanococcu	87.91
d1y9qa2	99	Probable transcriptional regulator VC1968, C-termi	82.61
d2arca_	161	Regulatory protein AraC {Escherichia coli [TaxId:	82.21
d1v70a_	105	Hypothetical protein TTHA0104 {Thermus thermophilu	80.99

>d2j01v1 b.155.1.1 (V:1-101) Ribosomal protein L21p {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: L21p-like
superfamily: L21p-like
family: Ribosomal protein L21p
domain: Ribosomal protein L21p
species: Thermus thermophilus [TaxId: 274]

Probab=99.32  E-value=1.3e-13  Score=99.08  Aligned_cols=38  Identities=32%  Similarity=0.447  Sum_probs=34.9

Q ss_pred             eEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eeec
Q 031957          103 IFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFCA  141 (150)
Q Consensus       103 MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~~  141 (150)
                      |||||++|||||||++||+|.||+++ +++|+.|+ +.++
T Consensus         1 MyAVi~~gGkQykV~~Gd~l~v~~l~-~~~g~~v~~~~ll   39 (101)
T d2j01v1           1 MFAIVKTGGKQYRVEPGLKLRVEKLD-AEPGATVELPVLL   39 (101)
T ss_dssp             CCCEEEETTEEEECCSSCCCCCCCCS-CCSSSCCBCCCCS
T ss_pred             CEEEEEECCEEEEEcCCCEEEEeccc-CCCCccEEEEEEE
Confidence            99999999999999999999999996 89999998 5443

>d2qamr1 b.155.1.1 (R:1-103) Ribosomal protein L21p {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: L21p-like
superfamily: L21p-like
family: Ribosomal protein L21p
domain: Ribosomal protein L21p
species: Escherichia coli [TaxId: 562]

Probab=99.30  E-value=9.1e-14  Score=100.34  Aligned_cols=38  Identities=21%  Similarity=0.269  Sum_probs=35.2

Q ss_pred             eEEEEEeCCEEEEEcCCCEEEecccCCCCCCCeEE-eeec
Q 031957          103 IFAVVMIGSRQYIVFPGRFIYTQRLKGANVNDKVC-NFCA  141 (150)
Q Consensus       103 MYAIVeiGGKQYKVe~GdvI~VerLkgaEvGD~V~-~~~~  141 (150)
                      |||||++|||||||++||+|.||+|+ +++||+|+ +.++
T Consensus         1 MyAIi~~gGkQykV~~Gd~i~v~~l~-~~~G~~i~~~~VL   39 (103)
T d2qamr1           1 MYAVFQSGGKQHRVSEGQTVRLEKLD-IATGETVEFAEVL   39 (103)
T ss_dssp             CCCCCCSSSSCCCCCSSCCEEESCCC-CCTTCEEEECCCS
T ss_pred             CEEEEEECCEEEEEcCCCEEEEeccC-CCCCCcEEehhhe
Confidence            99999999999999999999999996 89999999 5553

>d2zjro1 b.155.1.1 (O:5-98) Ribosomal protein L21p {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: L21p-like
superfamily: L21p-like
family: Ribosomal protein L21p
domain: Ribosomal protein L21p
species: Deinococcus radiodurans [TaxId: 1299]

Probab=98.68  E-value=6.9e-10  Score=78.45  Aligned_cols=30  Identities=33%  Similarity=0.503  Sum_probs=28.6

Q ss_pred             EEeCCEEEEEcCCCEEEecccCCCCCCCeEE
Q 031957          107 VMIGSRQYIVFPGRFIYTQRLKGANVNDKVC  137 (150)
Q Consensus       107 VeiGGKQYKVe~GdvI~VerLkgaEvGD~V~  137 (150)
                      |++|||||||++||+|.||+|. +++||+|+
T Consensus         1 I~tGGKQykV~~Gd~i~vekl~-~~~G~~i~   30 (94)
T d2zjro1           1 IQTGGKQYRVSEGDVIRVESLQ-GEAGDKVE   30 (94)
T ss_dssp             CCSSCCSCCSCCEEEEECCSCC-SSCCEEEE
T ss_pred             CccCCEEEEEcCCCEEEEeccc-CccCCceE
Confidence            6899999999999999999996 79999999

>d2b8ma1 b.82.1.18 (A:1-108) Hypothetical protein MJ0764 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: RmlC-like cupins
family: MJ0764-like
domain: Hypothetical protein MJ0764
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=87.91  E-value=0.33  Score=32.10  Aligned_cols=41  Identities=15%  Similarity=0.174  Sum_probs=28.2

Q ss_pred             EEEEeCCE-EEEEcCCCEEEecccC---CCCCCCeEE-eeeccCCc
Q 031957          105 AVVMIGSR-QYIVFPGRFIYTQRLK---GANVNDKVC-NFCAFSPL  145 (150)
Q Consensus       105 AIVeiGGK-QYKVe~GdvI~VerLk---gaEvGD~V~-~~~~~~~~  145 (150)
                      +.+.++|+ .|.|.+||.++++.-.   -.+.|++.. ..|..+|.
T Consensus        57 ~~~~v~~~e~~~v~~Gd~i~ip~~~~H~~~n~~~e~l~~l~v~~P~  102 (108)
T d2b8ma1          57 MTLTLEDQEPHNYKEGNIVYVPFNVKMLIQNINSDILEFFVVKAPH  102 (108)
T ss_dssp             EEEEETTSCCEEEETTCEEEECTTCEEEEECCSSSEEEEEEEECSC
T ss_pred             EEEEEecccEEEeecceEeeccCCceEEEEcCCCCcEEEEEEECCC
Confidence            56778997 5999999999987421   124566555 66666653

>d1y9qa2 b.82.1.15 (A:83-181) Probable transcriptional regulator VC1968, C-terminal domain {Vibrio cholerae [TaxId: 666]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: RmlC-like cupins
family: Probable transcriptional regulator VC1968, C-terminal domain
domain: Probable transcriptional regulator VC1968, C-terminal domain
species: Vibrio cholerae [TaxId: 666]

Probab=82.61  E-value=0.69  Score=29.71  Aligned_cols=33  Identities=18%  Similarity=0.067  Sum_probs=23.7

Q ss_pred             EEEEeCCEEEEEcCCCEEEecccC---CCCCCCeEE
Q 031957          105 AVVMIGSRQYIVFPGRFIYTQRLK---GANVNDKVC  137 (150)
Q Consensus       105 AIVeiGGKQYKVe~GdvI~VerLk---gaEvGD~V~  137 (150)
                      +.|.+||+.|.+++||.++++.-.   -.+.||+-.
T Consensus        55 ~~~~~~~~~~~l~~GD~~~~~~~~~H~~~n~~~~~~   90 (99)
T d1y9qa2          55 MKVFFDEQWHELQQGEHIRFFSDQPHGYAAVTEKAV   90 (99)
T ss_dssp             EEEEETTEEEEECTTCEEEEECSSSEEEEESSSCEE
T ss_pred             eEEEecceEEEecCCCEEEECCCCeEEEEeCCccCE
Confidence            457889999999999999987321   124566544

>d2arca_ b.82.4.1 (A:) Regulatory protein AraC {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: Regulatory protein AraC
family: Regulatory protein AraC
domain: Regulatory protein AraC
species: Escherichia coli [TaxId: 562]

Probab=82.21  E-value=0.69  Score=31.07  Aligned_cols=22  Identities=23%  Similarity=0.430  Sum_probs=19.6

Q ss_pred             EEEEeCCEEEEEcCCCEEEecc
Q 031957          105 AVVMIGSRQYIVFPGRFIYTQR  126 (150)
Q Consensus       105 AIVeiGGKQYKVe~GdvI~Ver  126 (150)
                      +.++++|++|-|++||.+.+..
T Consensus        49 G~~~i~~~~y~l~~Gdl~li~P   70 (161)
T d2arca_          49 GVVKNQGREFVCRPGDILLFPP   70 (161)
T ss_dssp             EEEEETTEEEEECTTCEEEECT
T ss_pred             EEEEECCEEEEecCCeEEEEcC
Confidence            5678999999999999999874

>d1v70a_ b.82.1.9 (A:) Hypothetical protein TTHA0104 {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: RmlC-like cupins
family: TM1287-like
domain: Hypothetical protein TTHA0104
species: Thermus thermophilus [TaxId: 274]

Probab=80.99  E-value=0.91  Score=28.40  Aligned_cols=22  Identities=23%  Similarity=0.480  Sum_probs=18.9

Q ss_pred             EEEEeCCEEEEEcCCCEEEecc
Q 031957          105 AVVMIGSRQYIVFPGRFIYTQR  126 (150)
Q Consensus       105 AIVeiGGKQYKVe~GdvI~Ver  126 (150)
                      +.+.++|+.+.+++||.++++.
T Consensus        60 ~~~~~~~~~~~l~~Gd~~~~p~   81 (105)
T d1v70a_          60 VVVRVGEEEALLAPGMAAFAPA   81 (105)
T ss_dssp             EEEEETTEEEEECTTCEEEECT
T ss_pred             EEEEEeeeEEEecceEEEEeCC
Confidence            4467899999999999999874