Citrus Sinensis ID: 031225

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160---
Protein Sequence
MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKTKDEKRAKKAEVTSKSKTQSKGSMPKGAAPKGPKLGGGGGKR
Secondary Structure (PSIPRED)
cEEEEEEccccccccccccccEEEEEcccEEEEEcHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEEEEccccccccccEEEEEccHHHHHHccHHHHHHHHHcccccHcHHHHHHHHHccccccEccHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHcccccccccccc
Coil and Loop (DISEMBL)
mvlktelcrfsgakiypgkgirfirsDSQVFLFANSKckryfhnrlkpskltwTSMYRKQHKKDIAAEAVKKKrrstkkpysrsiVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKTKDEKRAKKAEVTsksktqskgsmpkgaapkgpklgggggkr
Flexible Loop (DISEMBL)
mvlktelcrfsgakiypgkgirfIRSDSQVFLFANskckryfhnrlkpskltwtsmyrkqHKKDIaaeavkkkrrstkkpysrsivgatleviqkrrtekpevrdaaREAALREIKerikktkdekrakkaevtsksktqskgsmpkgaapkgpklgggggkr
Low Complexity Region (SEG)
MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIkktkdekrakkaeVTSKSKTQSkgsmpkgaapkgpklgggggkR
Disordered region (IsUnstruct)
****TELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYR*********************************************************************************************************
Disordered Region (DISOPRED)
MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRK*********************YSRSIVGATLEVIQ*********************************************************************
Disordered Region (DISEMBL)
MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAA***************RSIVGATLEVIQKR***********REAALREIKERIK*******************************************
Disordered Region (DISPRO)
MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKTKDEKR*K**********************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAAxxxxxxxxxxxxxxxxxxxxxVTSKSKTQSKGSMPKGAAPKGPKLGGGGGKR
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	163	2.2.26 [Sep-21-2011]
Q9FUL4	186	60S ribosomal protein L24	N/A	no	0.969	0.849	0.911	8e-71
Q42347	164	60S ribosomal protein L24	yes	no	0.957	0.951	0.828	2e-64
O65743	164	60S ribosomal protein L24	N/A	no	0.914	0.908	0.873	2e-63
P50888	162	60S ribosomal protein L24	N/A	no	0.858	0.864	0.892	9e-61
P38666	163	60S ribosomal protein L24	no	no	0.914	0.914	0.826	9e-61
P38665	155	60S ribosomal protein L24	yes	no	0.901	0.948	0.431	3e-25
Q6BNC2	156	60S ribosomal protein L24	yes	no	0.656	0.685	0.5	3e-25
Q752U6	155	60S ribosomal protein L24	yes	no	0.644	0.677	0.509	1e-24
Q9DFQ7	157	60S ribosomal protein L24	N/A	no	0.950	0.987	0.416	2e-24
Q7SDU2	156	60S ribosomal protein L24	N/A	no	0.693	0.724	0.491	2e-24

>sp|Q9FUL4|RL24_PRUAV 60S ribosomal protein L24 OS=Prunus avium GN=RPL24 PE=2 SV=1

 Score =  265 bits (678), Expect = 8e-71,   Method: Compositional matrix adjust.
 Identities = 145/159 (91%), Positives = 151/159 (94%), Gaps = 1/159 (0%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWT+MYRKQ
Sbjct: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTAMYRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDIA EAVKK+RR+TKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDIAQEAVKKRRRTTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSKSKTQSKGSMPKGAA-PKGPKLGG 158
           KTKDEK+AKKAEVT   K+Q KGS+ KG A PKGPKLGG
Sbjct: 121 KTKDEKKAKKAEVTKSQKSQGKGSIAKGGAQPKGPKLGG 159

Prunus avium (taxid: 42229)

>sp|Q42347|RL241_ARATH 60S ribosomal protein L24-1 OS=Arabidopsis thaliana GN=RPL24A PE=1 SV=2

 Score =  244 bits (623), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 130/157 (82%), Positives = 142/157 (90%), Gaps = 1/157 (0%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSG KIYPG+GIRFIRSDSQVFLF NSKCKRYFHN+LKPSKL WT+MYRKQ
Sbjct: 1   MVLKTELCRFSGQKIYPGRGIRFIRSDSQVFLFLNSKCKRYFHNKLKPSKLCWTAMYRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKD A EAVK++RR+TKKPYSRSIVGATLEVIQK+R EKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDAAQEAVKRRRRATKKPYSRSIVGATLEVIQKKRAEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSK-SKTQSKGSMPKGAAPKGPKL 156
           KTKDEK+AKK E  SK  K+Q KG++PK AAPK  K+
Sbjct: 121 KTKDEKKAKKVEYASKQQKSQVKGNIPKSAAPKAAKM 157

Might have an extraribosomal function in reinitiation of translation.

Arabidopsis thaliana (taxid: 3702)

>sp|O65743|RL24_CICAR 60S ribosomal protein L24 OS=Cicer arietinum GN=RPL24 PE=2 SV=1

 Score =  240 bits (613), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 131/150 (87%), Positives = 142/150 (94%), Gaps = 1/150 (0%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPG+GIRFIR DSQVFLF NSKCKRYFHNRLKPSKLTWT+M+RKQ
Sbjct: 1   MVLKTELCRFSGAKIYPGRGIRFIRGDSQVFLFVNSKCKRYFHNRLKPSKLTWTAMFRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKD A EAVKK+RR+TKKPYSRSIVGATLEVIQK+RTEKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDAAQEAVKKRRRATKKPYSRSIVGATLEVIQKKRTEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSKS-KTQSKGSMPKGA 149
           KTKDEK+AKKAEV SK+ K+Q KG++ KGA
Sbjct: 121 KTKDEKKAKKAEVASKAQKSQGKGNVQKGA 150

Cicer arietinum (taxid: 3827)

>sp|P50888|RL24_HORVU 60S ribosomal protein L24 OS=Hordeum vulgare GN=RPL24 PE=2 SV=1

 Score =  232 bits (591), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 125/140 (89%), Positives = 132/140 (94%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSG KIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKP+KL WT+MYRKQ
Sbjct: 1   MVLKTELCRFSGQKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPAKLCWTAMYRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDI AEA KK+RR+TKKPYSRSIVGATLEVIQK+R EKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDIHAEAAKKRRRTTKKPYSRSIVGATLEVIQKKRAEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSKSKTQ 140
           KTKDEK+AKKAEVT   K+Q
Sbjct: 121 KTKDEKKAKKAEVTKSQKSQ 140

Hordeum vulgare (taxid: 4513)

>sp|P38666|RL242_ARATH 60S ribosomal protein L24-2 OS=Arabidopsis thaliana GN=RPL24B PE=2 SV=2

 Score =  232 bits (591), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 124/150 (82%), Positives = 135/150 (90%), Gaps = 1/150 (0%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSG KIYPG+GIRFIRSDSQVFLF NSKCKRYFHN+LKPSKL WT+MYRKQ
Sbjct: 1   MVLKTELCRFSGQKIYPGRGIRFIRSDSQVFLFLNSKCKRYFHNKLKPSKLAWTAMYRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKD A EAVK++RR+TKKPYSRSIVGATLEVIQK+R EKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDAAQEAVKRRRRATKKPYSRSIVGATLEVIQKKRAEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSKSKTQSKGSMPKGAA 150
           KTKDEK+AKK E  SK + + K + PK AA
Sbjct: 121 KTKDEKKAKKVEFASKQQ-KVKANFPKAAA 149

Might have an extraribosomal function in reinitiation of translation of ETTIN and MONOPTEROS genes that are involved in the auxin-mediated gynoecium patterning.

Arabidopsis thaliana (taxid: 3702)

>sp|P38665|RL24_KLULA 60S ribosomal protein L24 OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=RPL24 PE=3 SV=1

 Score =  114 bits (284), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 66/153 (43%), Positives = 99/153 (64%), Gaps = 6/153 (3%)

Query: 3   LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
           +K E+  FSGAKIYPG+G  F+R DS++F F +SK    FH R  P ++ WT +YR+ HK
Sbjct: 1   MKVEIDSFSGAKIYPGRGTLFVRGDSKIFRFQSSKSASLFHQRKNPRRIAWTVLYRRHHK 60

Query: 63  KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKT 122
           K I  E  +K+ R + K   R++VGA+LE+I++RR+ KPEVR A R+   +  KE+ K  
Sbjct: 61  KGITEEVARKRTRKSVKA-QRAVVGASLELIKERRSLKPEVRKAQRDEKKKADKEKKKAD 119

Query: 123 KDEKRAKKAEVTSK-----SKTQSKGSMPKGAA 150
           K  ++++KA++ +      SK Q+KG+  K AA
Sbjct: 120 KAARKSEKAKLAAAQGSKVSKQQAKGAFQKVAA 152

Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (taxid: 284590)

>sp|Q6BNC2|RL24_DEBHA 60S ribosomal protein L24 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=RPL24 PE=3 SV=1

 Score =  114 bits (284), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 54/108 (50%), Positives = 77/108 (71%), Gaps = 1/108 (0%)

Query: 3   LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
           +K EL  FSG KIYPG+G  F+R DS++F F +SK    FH R  P +++WT +YR+QHK
Sbjct: 1   MKVELDSFSGTKIYPGRGTLFVRGDSKIFRFQSSKSASLFHQRKNPRRISWTVLYRRQHK 60

Query: 63  KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREA 110
           K I+ E+ K++ R T K   R+IVGA+LE+I++RR++KP  R AAR+ 
Sbjct: 61  KGISEESAKRRTRKTVKN-QRAIVGASLELIKERRSQKPSDRKAARDV 107

Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (taxid: 284592)

>sp|Q752U6|RL24_ASHGO 60S ribosomal protein L24 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=RPL24 PE=3 SV=1

 Score =  112 bits (279), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 54/106 (50%), Positives = 73/106 (68%), Gaps = 1/106 (0%)

Query: 3   LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
           +K E+  FSGAKIYPG+G  F+R DS+VF F +SK    FH R  P ++ WT +YR+ HK
Sbjct: 1   MKVEIDSFSGAKIYPGRGTLFVRGDSKVFRFHSSKSASLFHQRKNPRRIAWTVLYRRHHK 60

Query: 63  KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAR 108
           K I  E  KK+ R T K   R++VGA+LE+I++RR+ KPE+R A R
Sbjct: 61  KGITEEVAKKRSRKTVKA-QRAVVGASLELIKERRSLKPEIRKAKR 105

Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) (taxid: 284811)

>sp|Q9DFQ7|RL24_GILMI 60S ribosomal protein L24 OS=Gillichthys mirabilis GN=rpl24 PE=2 SV=2

 Score =  111 bits (278), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 65/156 (41%), Positives = 91/156 (58%), Gaps = 1/156 (0%)

Query: 3   LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
           +K ELC FSG KIYPG G R+ R D +VF F N+KC+  F  +  P ++ WT +YR++HK
Sbjct: 1   MKVELCSFSGYKIYPGHGRRYARIDGKVFQFLNAKCESAFLAKRNPRQINWTVLYRRKHK 60

Query: 63  KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKT 122
           K  + E  KK+ R   K + R+I GA+L  I  +R +KPEVR A RE A+R  KE  K  
Sbjct: 61  KGQSEEVTKKRTRRAVK-FQRAITGASLAEIMAKRNQKPEVRKAQREQAIRAAKESKKAK 119

Query: 123 KDEKRAKKAEVTSKSKTQSKGSMPKGAAPKGPKLGG 158
           +  K+   A   + +KT  K  + K      P++GG
Sbjct: 120 QATKKPAAASAKTSAKTAQKPKIAKPMKISAPRVGG 155

Gillichthys mirabilis (taxid: 8222)

>sp|Q7SDU2|RL24_NEUCR 60S ribosomal protein L24 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=rpl-24 PE=3 SV=1

 Score =  111 bits (277), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 56/114 (49%), Positives = 80/114 (70%), Gaps = 1/114 (0%)

Query: 10  FSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEA 69
           FSG +IYPGKG  ++R DS++F F N K +  F  R  P ++ WT +YR+QHKK I+ E 
Sbjct: 8   FSGQRIYPGKGKLYVRGDSKIFRFQNGKSESLFLQRKNPRRIAWTVLYRRQHKKGISEEV 67

Query: 70  VKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKTK 123
            KK+ R T K   R+IVGA+LEVI++RR+ +PE R AAR AA++E K + ++T+
Sbjct: 68  AKKRSRRTVKA-QRAIVGASLEVIKERRSMRPEARSAARLAAIKESKAKKQETQ 120

Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

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	163
224084006	155	predicted protein [Populus trichocarpa]	0.950	1.0	0.916	8e-77
224122388	163	predicted protein [Populus trichocarpa]	0.920	0.920	0.92	4e-74
357124341	161	PREDICTED: 60S ribosomal protein L24-lik	0.987	1.0	0.852	5e-73
52783264	186	RecName: Full=60S ribosomal protein L24	0.969	0.849	0.911	4e-69
388512319	162	unknown [Lotus japonicus]	0.877	0.882	0.895	2e-68
224134781	163	predicted protein [Populus trichocarpa]	0.920	0.920	0.906	4e-66
224077342	163	predicted protein [Populus trichocarpa]	0.920	0.920	0.9	2e-65
297741090	198	unnamed protein product [Vitis vinifera]	0.914	0.752	0.927	2e-65
359490349	163	PREDICTED: 60S ribosomal protein L24 [Vi	0.914	0.914	0.927	3e-65
359481954	198	PREDICTED: LOW QUALITY PROTEIN: 60S ribo	0.920	0.757	0.907	7e-65

>gi|224084006|ref|XP_002335364.1| predicted protein [Populus trichocarpa] gi|222833671|gb|EEE72148.1| predicted protein [Populus trichocarpa]

 Score =  291 bits (744), Expect = 8e-77,   Method: Compositional matrix adjust.
 Identities = 142/155 (91%), Positives = 151/155 (97%)

Query: 4   KTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKK 63
           +TELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWT+MYRKQHKK
Sbjct: 1   RTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTAMYRKQHKK 60

Query: 64  DIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKTK 123
           DIAAE +KK+RR+TKKPYSRSIVGATLEVIQK+RTEKPEVRDAAREAALREIKERIKKTK
Sbjct: 61  DIAAETIKKRRRATKKPYSRSIVGATLEVIQKKRTEKPEVRDAAREAALREIKERIKKTK 120

Query: 124 DEKRAKKAEVTSKSKTQSKGSMPKGAAPKGPKLGG 158
           DEKRAKKAEVT+K +  SKGS+PKGAAPKGPKLGG
Sbjct: 121 DEKRAKKAEVTAKVQKSSKGSVPKGAAPKGPKLGG 155

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122388|ref|XP_002318822.1| predicted protein [Populus trichocarpa] gi|224147380|ref|XP_002336467.1| predicted protein [Populus trichocarpa] gi|118481582|gb|ABK92733.1| unknown [Populus trichocarpa] gi|222835080|gb|EEE73529.1| predicted protein [Populus trichocarpa] gi|222859495|gb|EEE97042.1| predicted protein [Populus trichocarpa]

 Score =  281 bits (720), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 138/150 (92%), Positives = 146/150 (97%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWT+MYRKQ
Sbjct: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTAMYRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDIAAE +KK+RR+TKKPYSRSIVGATLEVIQK+RTEKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDIAAETIKKRRRATKKPYSRSIVGATLEVIQKKRTEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSKSKTQSKGSMPKGAA 150
           KTKDEKRAKKAEVT+K +  SKGS+PKGAA
Sbjct: 121 KTKDEKRAKKAEVTAKVQKSSKGSVPKGAA 150

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357124341|ref|XP_003563859.1| PREDICTED: 60S ribosomal protein L24-like [Brachypodium distachyon]

 Score =  278 bits (711), Expect = 5e-73,   Method: Compositional matrix adjust.
 Identities = 139/163 (85%), Positives = 148/163 (90%), Gaps = 2/163 (1%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPGKGIRFIR+DSQVFLFANSKCKRYFHNRLKP+KLTWT+MYRKQ
Sbjct: 1   MVLKTELCRFSGAKIYPGKGIRFIRADSQVFLFANSKCKRYFHNRLKPAKLTWTAMYRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDI AEA KK+RR+TKKPYSRSIVGA+L+VIQK+R EKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDIHAEAAKKRRRTTKKPYSRSIVGASLDVIQKKRAEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSKSKTQSKGSMPKGAAPKGPKLGGGGGKR 163
           KTKDEKRAKK EVT   KT  KG+ PK    K PKLGGGGGKR
Sbjct: 121 KTKDEKRAKKVEVTKSHKTAGKGNAPKPG--KAPKLGGGGGKR 161

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|52783264|sp|Q9FUL4.1|RL24_PRUAV RecName: Full=60S ribosomal protein L24 gi|10180025|gb|AAG13986.1|AF298827_1 60S ribosomal protein L24 [Prunus avium]

 Score =  265 bits (678), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 145/159 (91%), Positives = 151/159 (94%), Gaps = 1/159 (0%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWT+MYRKQ
Sbjct: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTAMYRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDIA EAVKK+RR+TKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDIAQEAVKKRRRTTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSKSKTQSKGSMPKGAA-PKGPKLGG 158
           KTKDEK+AKKAEVT   K+Q KGS+ KG A PKGPKLGG
Sbjct: 121 KTKDEKKAKKAEVTKSQKSQGKGSIAKGGAQPKGPKLGG 159

Source: Prunus avium

Species: Prunus avium

Genus: Prunus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388512319|gb|AFK44221.1| unknown [Lotus japonicus]

 Score =  263 bits (671), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 129/144 (89%), Positives = 138/144 (95%), Gaps = 1/144 (0%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPG+GIRFIRSDSQVFLF NSKCKRYFHNRLKPS+LTWT+M+RKQ
Sbjct: 1   MVLKTELCRFSGAKIYPGRGIRFIRSDSQVFLFVNSKCKRYFHNRLKPSRLTWTAMFRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDIA EA +KKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKER+K
Sbjct: 61  HKKDIAQEAARKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERVK 120

Query: 121 KTKDEKRAKKAEVTSKS-KTQSKG 143
           KTKDEKRAKKAEV +K+ K+Q KG
Sbjct: 121 KTKDEKRAKKAEVQTKAQKSQGKG 144

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134781|ref|XP_002321904.1| predicted protein [Populus trichocarpa] gi|222868900|gb|EEF06031.1| predicted protein [Populus trichocarpa]

 Score =  255 bits (652), Expect = 4e-66,   Method: Compositional matrix adjust.
 Identities = 136/150 (90%), Positives = 146/150 (97%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWT+MYRKQ
Sbjct: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTAMYRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDIAAE +KK+RR+TKKPYSRSIVGATLEVIQK+RTEKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDIAAETIKKRRRTTKKPYSRSIVGATLEVIQKKRTEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSKSKTQSKGSMPKGAA 150
           KTKDEK+AKKAEV +K++  SKGS+PKGAA
Sbjct: 121 KTKDEKKAKKAEVMAKAQKSSKGSLPKGAA 150

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077342|ref|XP_002305219.1| predicted protein [Populus trichocarpa] gi|118487980|gb|ABK95811.1| unknown [Populus trichocarpa] gi|222848183|gb|EEE85730.1| predicted protein [Populus trichocarpa]

 Score =  253 bits (645), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 135/150 (90%), Positives = 145/150 (96%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPG+GIRFIRSDSQVFLFANSKCKRYFHN+LKPSKLTWT+MYRKQ
Sbjct: 1   MVLKTELCRFSGAKIYPGRGIRFIRSDSQVFLFANSKCKRYFHNKLKPSKLTWTAMYRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDIAAE VKK+RR+TKKPYSRSIVGATLEVIQK+R EKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDIAAETVKKRRRTTKKPYSRSIVGATLEVIQKKRAEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSKSKTQSKGSMPKGAA 150
           KTKDEK+AKKAEV SK++  SKGS+PKGAA
Sbjct: 121 KTKDEKKAKKAEVMSKAQKSSKGSLPKGAA 150

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297741090|emb|CBI31821.3| unnamed protein product [Vitis vinifera]

 Score =  253 bits (645), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 140/151 (92%), Positives = 147/151 (97%), Gaps = 2/151 (1%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPGKGIRF+RSDSQVFLFANSKCKRYFHNRLKPSKLTWT+MYRKQ
Sbjct: 36  MVLKTELCRFSGAKIYPGKGIRFVRSDSQVFLFANSKCKRYFHNRLKPSKLTWTAMYRKQ 95

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDIAAEAVKKKRR+ KKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK
Sbjct: 96  HKKDIAAEAVKKKRRTAKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 155

Query: 121 KTKDEKRAKKAEVTSKS-KTQSKGSMPKGAA 150
           KTKDEK+AKKAEV +K+ KTQSKG +PKGAA
Sbjct: 156 KTKDEKKAKKAEVMAKTQKTQSKG-VPKGAA 185

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490349|ref|XP_002279048.2| PREDICTED: 60S ribosomal protein L24 [Vitis vinifera]

 Score =  253 bits (645), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 140/151 (92%), Positives = 147/151 (97%), Gaps = 2/151 (1%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPGKGIRF+RSDSQVFLFANSKCKRYFHNRLKPSKLTWT+MYRKQ
Sbjct: 1   MVLKTELCRFSGAKIYPGKGIRFVRSDSQVFLFANSKCKRYFHNRLKPSKLTWTAMYRKQ 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDIAAEAVKKKRR+ KKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK
Sbjct: 61  HKKDIAAEAVKKKRRTAKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120

Query: 121 KTKDEKRAKKAEVTSKS-KTQSKGSMPKGAA 150
           KTKDEK+AKKAEV +K+ KTQSKG +PKGAA
Sbjct: 121 KTKDEKKAKKAEVMAKTQKTQSKG-VPKGAA 150

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359481954|ref|XP_002283947.2| PREDICTED: LOW QUALITY PROTEIN: 60S ribosomal protein L24 [Vitis vinifera]

 Score =  251 bits (641), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 137/151 (90%), Positives = 145/151 (96%), Gaps = 1/151 (0%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSGAKIYPGKGIRF+RSDSQVFLFANSKCKRYFHNRLKPSKLTWT+MYRKQ
Sbjct: 34  MVLKTELCRFSGAKIYPGKGIRFVRSDSQVFLFANSKCKRYFHNRLKPSKLTWTAMYRKQ 93

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
           HKKDIA EAVKK+RR+TKKPYSRSIVGATLEVIQKRRTEK EVRDAAREAALREIKERIK
Sbjct: 94  HKKDIAQEAVKKRRRATKKPYSRSIVGATLEVIQKRRTEKAEVRDAAREAALREIKERIK 153

Query: 121 KTKDEKRAKKAEVTSK-SKTQSKGSMPKGAA 150
           KTKDEK+AKKAEV +K  KTQ KG++PKGAA
Sbjct: 154 KTKDEKKAKKAEVMAKVQKTQGKGNVPKGAA 184

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	163
TAIR|locus:2085246	163	STV1 "SHORT VALVE1" [Arabidops	0.730	0.730	0.890	1.5e-53
TAIR|locus:2040555	164	RPL24A "ribosomal protein L24"	0.730	0.725	0.890	1.9e-53
POMBASE|SPAC6G9.09c	149	rpl2401 "60S ribosomal protein	0.705	0.771	0.491	5.7e-27
POMBASE|SPCC330.14c	149	rpl2402 "60S ribosomal protein	0.705	0.771	0.491	5.7e-27
CGD|CAF0006998	155	RPL24A [Candida albicans (taxi	0.699	0.735	0.486	8.4e-26
DICTYBASE|DDB_G0280229	127	rpl24 "S60 ribosomal protein L	0.705	0.905	0.482	8.4e-26
SGD|S000002999	155	RPL24A "Ribosomal 60S subunit	0.705	0.741	0.491	2.9e-25
SGD|S000003380	155	RPL24B "Ribosomal 60S subunit	0.705	0.741	0.491	3.6e-25
ASPGD|ASPL0000074183	160	AN8704 [Emericella nidulans (t	0.662	0.675	0.486	5.9e-25
UNIPROTKB|E1C8F7	157	RPL24 "Uncharacterized protein	0.699	0.726	0.478	7.6e-25

TAIR|locus:2085246 STV1 "SHORT VALVE1" [Arabidopsis thaliana (taxid:3702)]

 Score = 554 (200.1 bits), Expect = 1.5e-53, P = 1.5e-53
 Identities = 106/119 (89%), Positives = 113/119 (94%)

Query:     1 MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
             MVLKTELCRFSG KIYPG+GIRFIRSDSQVFLF NSKCKRYFHN+LKPSKL WT+MYRKQ
Sbjct:     1 MVLKTELCRFSGQKIYPGRGIRFIRSDSQVFLFLNSKCKRYFHNKLKPSKLAWTAMYRKQ 60

Query:    61 HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERI 119
             HKKD A EAVK++RR+TKKPYSRSIVGATLEVIQK+R EKPEVRDAAREAALREIKERI
Sbjct:    61 HKKDAAQEAVKRRRRATKKPYSRSIVGATLEVIQKKRAEKPEVRDAAREAALREIKERI 119

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

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0005730 "nucleolus" evidence=IDA

GO:0009734 "auxin mediated signaling pathway" evidence=IMP

GO:0048467 "gynoecium development" evidence=IMP

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

GO:0005829 "cytosol" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

TAIR|locus:2040555 RPL24A "ribosomal protein L24" [Arabidopsis thaliana (taxid:3702)]

 Score = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 106/119 (89%), Positives = 113/119 (94%)

Query:     1 MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
             MVLKTELCRFSG KIYPG+GIRFIRSDSQVFLF NSKCKRYFHN+LKPSKL WT+MYRKQ
Sbjct:     1 MVLKTELCRFSGQKIYPGRGIRFIRSDSQVFLFLNSKCKRYFHNKLKPSKLCWTAMYRKQ 60

Query:    61 HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERI 119
             HKKD A EAVK++RR+TKKPYSRSIVGATLEVIQK+R EKPEVRDAAREAALREIKERI
Sbjct:    61 HKKDAAQEAVKRRRRATKKPYSRSIVGATLEVIQKKRAEKPEVRDAAREAALREIKERI 119

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

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0009507 "chloroplast" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0016020 "membrane" evidence=IDA

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

GO:0005829 "cytosol" evidence=IDA

GO:0001510 "RNA methylation" evidence=RCA

POMBASE|SPAC6G9.09c rpl2401 "60S ribosomal protein L24 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 303 (111.7 bits), Expect = 5.7e-27, P = 5.7e-27
 Identities = 57/116 (49%), Positives = 82/116 (70%)

Query:     3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
             +K E+C FSG+K+YPG G  F+R D++VF F N K +  F  R  P +L+WT +YR+ HK
Sbjct:     1 MKVEVCSFSGSKVYPGAGRLFVRGDNKVFRFVNKKSESLFLQRKNPRRLSWTVLYRRMHK 60

Query:    63 KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKER 118
             K I+ E  KK+ R T K + R IVGA L+VI+++R ++PEVR AAR AAL++ K++
Sbjct:    61 KGISEEHAKKRTRRTVK-HQRGIVGANLDVIKEKRNQRPEVRAAARAAALKQRKDK 115

GO:0002181 "cytoplasmic translation" evidence=ISO

GO:0003723 "RNA binding" evidence=ISO

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

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

POMBASE|SPCC330.14c rpl2402 "60S ribosomal protein L24 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 303 (111.7 bits), Expect = 5.7e-27, P = 5.7e-27
 Identities = 57/116 (49%), Positives = 82/116 (70%)

Query:     3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
             +K E+C FSG+K+YPG G  F+R D++VF F N K +  F  R  P +L+WT +YR+ HK
Sbjct:     1 MKVEVCSFSGSKVYPGAGRLFVRGDNKVFRFVNKKSESLFLQRKNPRRLSWTVLYRRMHK 60

Query:    63 KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKER 118
             K I+ E  KK+ R T K + R IVGA L+VI+++R ++PEVR AAR AAL++ K++
Sbjct:    61 KGISEEHAKKRTRRTVK-HQRGIVGANLDVIKEKRNQRPEVRAAARAAALKQRKDK 115

GO:0002181 "cytoplasmic translation" evidence=ISO

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

GO:0005829 "cytosol" evidence=IDA

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

CGD|CAF0006998 RPL24A [Candida albicans (taxid:5476)]

 Score = 292 (107.8 bits), Expect = 8.4e-26, P = 8.4e-26
 Identities = 56/115 (48%), Positives = 82/115 (71%)

Query:     3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
             +K E+  FSG+KIYPG+G  F+R DS++F F +SK    F  R  P +++WT +YR+ HK
Sbjct:     1 MKIEVDSFSGSKIYPGRGTLFVRGDSKIFRFQSSKSASLFQQRKNPRRISWTVLYRRHHK 60

Query:    63 KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKE 117
             K I+ EA KK+ R T K + R+IVGA+LE+I++RR++KP  R AAR++ L + KE
Sbjct:    61 KGISEEAAKKRTRKTVK-HQRAIVGASLELIKERRSQKPSDRKAARDSKLAKDKE 114

GO:0005829 "cytosol" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

DICTYBASE|DDB_G0280229 rpl24 "S60 ribosomal protein L24" [Dictyostelium discoideum (taxid:44689)]

 Score = 292 (107.8 bits), Expect = 8.4e-26, P = 8.4e-26
 Identities = 56/116 (48%), Positives = 80/116 (68%)

Query:     3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
             +KT LC +S  KIYP +G++F+R DS+VF F N+K +  F  ++ P  + W+ +YR+ +K
Sbjct:     1 MKTSLCNYSEFKIYPARGMKFVRGDSKVFHFINTKVESLFFRKINPRDIRWSMVYRRIYK 60

Query:    63 KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKER 118
                   + KKK R TKK   R+IVGA+LEVIQ++R +KPEV+ AA E A REIKE+
Sbjct:    61 NTTTDVSAKKKARKTKK-VERNIVGASLEVIQQKRAQKPEVKQAAAEQAKREIKEK 115

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

SGD|S000002999 RPL24A "Ribosomal 60S subunit protein L24A" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 287 (106.1 bits), Expect = 2.9e-25, P = 2.9e-25
 Identities = 57/116 (49%), Positives = 76/116 (65%)

Query:     3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
             +K E+  FSGAKIYPG+G  F+R DS++F F NSK    F  R  P ++ WT ++RK HK
Sbjct:     1 MKVEIDSFSGAKIYPGRGTLFVRGDSKIFRFQNSKSASLFKQRKNPRRIAWTVLFRKHHK 60

Query:    63 KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKER 118
             K I  E  KK+ R T K   R I GA+L++I++RR+ KPEVR A RE  L+  KE+
Sbjct:    61 KGITEEVAKKRSRKTVKA-QRPITGASLDLIKERRSLKPEVRKANREEKLKANKEK 115

GO:0003723 "RNA binding" evidence=IDA

GO:0005737 "cytoplasm" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0002181 "cytoplasmic translation" evidence=TAS

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

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

SGD|S000003380 RPL24B "Ribosomal 60S subunit protein L24B" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 286 (105.7 bits), Expect = 3.6e-25, P = 3.6e-25
 Identities = 57/116 (49%), Positives = 76/116 (65%)

Query:     3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
             +K E+  FSGAKIYPG+G  F+R DS++F F NSK    F  R  P ++ WT ++RK HK
Sbjct:     1 MKVEVDSFSGAKIYPGRGTLFVRGDSKIFRFQNSKSASLFKQRKNPRRIAWTVLFRKHHK 60

Query:    63 KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKER 118
             K I  E  KK+ R T K   R I GA+L++I++RR+ KPEVR A RE  L+  KE+
Sbjct:    61 KGITEEVAKKRSRKTVKA-QRPITGASLDLIKERRSLKPEVRKANREEKLKANKEK 115

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0005840 "ribosome" evidence=IEA

GO:0002181 "cytoplasmic translation" evidence=TAS

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0003723 "RNA binding" evidence=IDA

ASPGD|ASPL0000074183 AN8704 [Emericella nidulans (taxid:162425)]

 Score = 284 (105.0 bits), Expect = 5.9e-25, P = 5.9e-25
 Identities = 53/109 (48%), Positives = 77/109 (70%)

Query:    10 FSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEA 69
             FSG KIYPGKG  ++R DS++F F N K +  F  R  P ++ WT +YR+QHKK I+ E 
Sbjct:     8 FSGQKIYPGKGKLYVRGDSKIFRFQNGKSESLFLQRKNPRRIAWTVLYRRQHKKGISEEV 67

Query:    70 VKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKER 118
              KK+ R   K   R+IVGA+L+VI++RR+++PE R AAR+ A+++ KE+
Sbjct:    68 AKKRTRRVVKS-QRAIVGASLDVIKERRSQRPEARAAARQQAIKDAKEK 115

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|E1C8F7 RPL24 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 283 (104.7 bits), Expect = 7.6e-25, P = 7.6e-25
 Identities = 55/115 (47%), Positives = 76/115 (66%)

Query:     3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
             +K ELC FSG KIYPG G R+ R+D +VF F N+KC+  F ++  P ++ WT +YR++HK
Sbjct:     1 MKVELCSFSGYKIYPGHGRRYARTDGKVFQFLNAKCESAFLSKRNPRQINWTVLYRRKHK 60

Query:    63 KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKE 117
             K  + E  KK+ R   K + R+I GA+L  I  +R +KPEVR A RE A+R  KE
Sbjct:    61 KGQSEEIQKKRTRRAVK-FQRAITGASLAEIMAKRNQKPEVRKAQREQAIRAAKE 114

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q42347	RL241_ARATH	No assigned EC number	0.8280	0.9570	0.9512	yes	no
Q6FXY9	RL24_CANGA	No assigned EC number	0.5188	0.6441	0.6774	yes	no
Q9FUL4	RL24_PRUAV	No assigned EC number	0.9119	0.9693	0.8494	N/A	no
O65743	RL24_CICAR	No assigned EC number	0.8733	0.9141	0.9085	N/A	no
P50888	RL24_HORVU	No assigned EC number	0.8928	0.8588	0.8641	N/A	no
Q752U6	RL24_ASHGO	No assigned EC number	0.5094	0.6441	0.6774	yes	no
Q8JGR4	RL24_DANRE	No assigned EC number	0.4038	0.9509	0.9872	yes	no
P38665	RL24_KLULA	No assigned EC number	0.4313	0.9018	0.9483	yes	no
P38666	RL242_ARATH	No assigned EC number	0.8266	0.9141	0.9141	no	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	gw1.4064.4.1	hypothetical protein (155 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	estExt_fgenesh4_pg.C_LG_VIII0532	SubName- Full=Putative uncharacterized protein; (112 aa)			•	•					0.474
	estExt_fgenesh4_pm.C_LG_X0765	SubName- Full=Putative uncharacterized protein; (113 aa)			•	•					0.455
	estExt_fgenesh4_kg.C_LG_VIII0028	SubName- Full=Putative uncharacterized protein; (113 aa)			•	•					0.452
	estExt_Genewise1_v1.C_LG_X2037	hypothetical protein (112 aa)			•	•					0.449
	eugene3.00150266	hypothetical protein (316 aa)			•						0.426
	gw1.155.177.1	hypothetical protein (132 aa)			•						0.423
	eugene3.53030001	hypothetical protein (183 aa)			•						0.404

---

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	163
pfam01246	71	pfam01246, Ribosomal_L24e, Ribosomal protein L24e	5e-30
cd00472	54	cd00472, Ribosomal_L24e_L24, Ribosomal protein L24	2e-18
COG2075	66	COG2075, RPL24A, Ribosomal protein L24E [Translati	5e-16
PTZ00033	125	PTZ00033, PTZ00033, 60S ribosomal protein L24; Pro	2e-11
PRK00807	52	PRK00807, PRK00807, 50S ribosomal protein L24e; Va	7e-07
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	1e-06

>gnl|CDD|110260 pfam01246, Ribosomal_L24e, Ribosomal protein L24e

 Score =  103 bits (259), Expect = 5e-30
 Identities = 43/71 (60%), Positives = 52/71 (73%)

Query: 3  LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
          +K ELC FSG KIYPG GI F+R DS+VF F +SKC++ FH +  P KL WT +YRKQHK
Sbjct: 1  MKVELCSFSGYKIYPGHGIMFVRKDSKVFRFCSSKCEKNFHMKRNPRKLAWTKLYRKQHK 60

Query: 63 KDIAAEAVKKK 73
          K  A EA KK+
Sbjct: 61 KGEAEEAAKKR 71

Length = 71

>gnl|CDD|100103 cd00472, Ribosomal_L24e_L24, Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24)

 Score = 73.8 bits (182), Expect = 2e-18
 Identities = 26/52 (50%), Positives = 35/52 (67%)

Query: 3  LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWT 54
          +KTE C F G KIYPG G  ++R+D +VF F +SKC++ F  +  P KL WT
Sbjct: 1  MKTEKCSFCGYKIYPGHGKMYVRNDGKVFRFCSSKCEKNFLRKRNPRKLKWT 52

L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor binding site. L24e/L24 appears to play a role in the kinetics of peptide synthesis, and may be involved in interactions between the large and small subunits, either directly or through other factors. In mouse, a deletion mutation in L24 has been identified as the cause for the belly spot and tail (Bst) mutation that results in disrupted pigmentation, somitogenesis and retinal cell fate determination. L24 may be an important protein in eukaryotic reproduction: in shrimp, L24 expression is elevated in the ovary, suggesting a role in oogenesis, and in Arabidopsis, L24 has been proposed to have a specific function in gynoecium development. No protein with sequence or structural homology to L24e/L24 has been identified in bacteria, but a functionally equivalent protein may exist. Bacterial L19 forms an interprotein beta sheet with L14 that is similar to the L24e/L14 interprotein beta sheet observed in the archaeal L24e structures. Some eukaryotic L24 proteins were initially identified as L30, and this alignment model contains several sequences called L30. Length = 54

>gnl|CDD|224986 COG2075, RPL24A, Ribosomal protein L24E [Translation, ribosomal structure and biogenesis]

 Score = 67.8 bits (166), Expect = 5e-16
 Identities = 31/65 (47%), Positives = 40/65 (61%)

Query: 4  KTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKK 63
          K  +C F G KI PG GI ++R+D +V  F +SKC++ F     P KL WT  YRK HKK
Sbjct: 2  KVRVCSFCGKKIEPGTGIMYVRNDGKVLRFCSSKCEKLFKLGRNPRKLKWTKKYRKMHKK 61

Query: 64 DIAAE 68
          +I  E
Sbjct: 62 EIKEE 66

Length = 66

>gnl|CDD|140068 PTZ00033, PTZ00033, 60S ribosomal protein L24; Provisional

 Score = 57.3 bits (138), Expect = 2e-11
 Identities = 38/126 (30%), Positives = 60/126 (47%), Gaps = 5/126 (3%)

Query: 3   LKTELCRFSGAKIYPGKGIRFI----RSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYR 58
           ++T  C FS   ++PG G R++     S   V  F   KC   +  +  P  L WT  YR
Sbjct: 1   MRTIACEFSHFAVHPGHGRRYVPFAFLSTKPVLTFLRPKCFALYMRKKNPRFLPWTRTYR 60

Query: 59  KQHKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKER 118
           + ++K    + V+++R +      R+IVGA L  IQ+ R    +V  +A+  A+R  K  
Sbjct: 61  RINRK-TTTDRVQRRRAARTVKVQRAIVGADLSYIQEVRAYVQKVDRSAKAKAVRAEKAE 119

Query: 119 IKKTKD 124
            K  K 
Sbjct: 120 RKAAKK 125

Length = 125

>gnl|CDD|179131 PRK00807, PRK00807, 50S ribosomal protein L24e; Validated

 Score = 43.8 bits (104), Expect = 7e-07
 Identities = 17/47 (36%), Positives = 26/47 (55%)

Query: 8  CRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWT 54
          C F G +I PG G  +++ D  +  F +SKC++ +     P KL WT
Sbjct: 4  CSFCGKEIEPGTGKMYVKKDGTILYFCSSKCEKNYKLGRVPRKLKWT 50

Length = 52

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 44.9 bits (106), Expect = 1e-06
 Identities = 26/70 (37%), Positives = 33/70 (47%), Gaps = 3/70 (4%)

Query: 1  MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKC-KRYFHNRLKPSKLTWTSMYRK 59
          MV     C ++G +I PG G  F+R D  V  F +SKC K Y   R +   L WT   R 
Sbjct: 1  MVETRT-CDYTGEEIEPGTGTMFVRKDGTVLHFVDSKCEKNYDLGR-EARDLEWTEAGRA 58

Query: 60 QHKKDIAAEA 69
          +     AA A
Sbjct: 59 EKGPAAAATA 68

Length = 131

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	163
KOG1722	155	consensus 60s ribosomal protein L24 [Translation,	100.0
PTZ00033	125	60S ribosomal protein L24; Provisional	100.0
PF01246	71	Ribosomal_L24e: Ribosomal protein L24e; InterPro:	100.0
PRK14891	131	50S ribosomal protein L24e/unknown domain fusion p	100.0
COG2075	66	RPL24A Ribosomal protein L24E [Translation, riboso	100.0
cd00472	54	Ribosomal_L24e_L24 Ribosomal protein L24e/L24 is a	99.98
KOG1723	162	consensus 60s ribosomal protein L30 isolog [Transl	99.96
PRK00807	52	50S ribosomal protein L24e; Validated	99.95
smart00746	39	TRASH metallochaperone-like domain.	98.57
PF08394	37	Arc_trans_TRASH: Archaeal TRASH domain; InterPro:	97.14
PF04945	47	YHS: YHS domain; InterPro: IPR007029 This short pr	97.01
PF06467	43	zf-FCS: MYM-type Zinc finger with FCS sequence mot	96.34
PF05573	149	NosL: NosL; InterPro: IPR008719 NosL is one of the	94.76
PF09889	59	DUF2116: Uncharacterized protein containing a Zn-r	94.05
COG3350	53	Uncharacterized conserved protein [Function unknow	93.83
PF09943	101	DUF2175: Uncharacterized protein conserved in arch	89.49
cd01057	465	AAMH_A Aromatic and Alkene Monooxygenase Hydroxyla	85.97
COG4314	176	NosL Predicted lipoprotein involved in nitrous oxi	83.34

>KOG1722 consensus 60s ribosomal protein L24 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.1e-61  Score=382.38  Aligned_cols=154  Identities=53%  Similarity=0.857  Sum_probs=143.1

Q ss_pred             eeeccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHHHHHhhchhhhHHHHHHHhhcCCCccc
Q 031225            3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEAVKKKRRSTKKPYS   82 (163)
Q Consensus         3 mk~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yRr~~kK~~~~e~~kkrrr~~~~k~~   82 (163)
                      |++|+|+||||+||||||++|||.||+||.|+|+||+++|++++|||+|.||++||+.|+||+++|.+++|+|+++++||
T Consensus         1 MKvElCsFSG~KIyPG~G~r~vR~D~Kvf~Fln~Kc~~~f~~rrnPr~l~WTvLyR~khkKg~~ee~~kkrtrrt~k~~q   80 (155)
T KOG1722|consen    1 MKVELCSFSGYKIYPGHGRRFVRGDGKVFRFLNSKCESLFLQRRNPRRLAWTVLYRKKHKKGIQEEAAKKRTRRTVKKFQ   80 (155)
T ss_pred             CceeEeeccCceecCCCceeEEecCCeeeeehhhhhHHHHHhccChhhhhHHHHHHHHhhcchhHHHHHHHhhhhhhhhh
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999998999


Q ss_pred             hhhhhhcHHHHHHHhccChHHHHHHHHHHHHHHHHHhhhchHHHHhhhhhhhhccccccC-CCCCCCCCCCCCCCCCCC
Q 031225           83 RSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKTKDEKRAKKAEVTSKSKTQSK-GSMPKGAAPKGPKLGGGG  160 (163)
Q Consensus        83 Raivg~Sl~~I~~kr~qkpevr~a~Re~a~~~~Ker~k~~~~~kk~~~~~~~~~~~~~~k-~~~~k~~~~~~p~~ggk~  160 (163)
                      |+|||+||++|+++|||+||||+|+||||++.+||+.++.++++++.+++.    ..+++ +++.++++.++|+|||+.
T Consensus        81 RaI~GasL~~I~~KRn~kpevR~a~Re~alK~aKe~~ka~k~ak~A~K~~~----as~~k~qk~~k~~k~aaprVggkr  155 (155)
T KOG1722|consen   81 RAIVGASLDVILEKRNQKPEVRKAAREAALKKAKEKKKATKAAKKAKKAKS----ASAPKKQKAKKNAKVAAPRVGGKR  155 (155)
T ss_pred             hhhccccHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc----cccccccchhhhhhhhcccccCCC
Confidence            999999999999999999999999999999999999999888886544432    22333 889999999999999974

>PTZ00033 60S ribosomal protein L24; Provisional

Probab=100.00  E-value=3.2e-54  Score=333.35  Aligned_cols=120  Identities=31%  Similarity=0.523  Sum_probs=113.1

Q ss_pred             eeeccccccCCCccCCCCceEEe----cCCceeEeechHHHHhhhccCCCccchhhHHHHHhhchhhhHHHHHHHhhcCC
Q 031225            3 LKTELCRFSGAKIYPGKGIRFIR----SDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEAVKKKRRSTK   78 (163)
Q Consensus         3 mk~~~C~Fsg~~IyPG~G~~~Vr----~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yRr~~kK~~~~e~~kkrrr~~~   78 (163)
                      |++++|+|||++||||||++||+    +||+||+|||+||+++|++++|||+|.||++||++|+||+++|+. +++++.+
T Consensus         1 Mk~~~C~Fsg~~IyPG~G~~~Vr~~~~~Dgkv~~F~~sKc~~~~~~krnPRkl~WT~~yRr~~kK~~~e~~~-kkR~~rt   79 (125)
T PTZ00033          1 MRTIACEFSHFAVHPGHGRRYVPFAFLSTKPVLTFLRPKCFALYMRKKNPRFLPWTRTYRRINRKTTTDRVQ-RRRAART   79 (125)
T ss_pred             CceeEecCcCCcccCCCCcEeeecccCCCCCEEEEecHHHHHHHHCcCCCccchHHHHHHHHhCCcchhHHH-HHHhcCC
Confidence            78999999999999999999999    999999999999999999999999999999999999999887765 5556667


Q ss_pred             CccchhhhhhcHHHHHHHhccChHHHHHHHHHHHHHHHHHhhhch
Q 031225           79 KPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKTK  123 (163)
Q Consensus        79 ~k~~Raivg~Sl~~I~~kr~qkpevr~a~Re~a~~~~Ker~k~~~  123 (163)
                      ++|||+|||+||++|+++|||+|||+.++|++|++++||++++++
T Consensus        80 vK~qRaivg~sLe~I~~kR~~k~evr~aar~~a~r~~Ke~~~~~k  124 (125)
T PTZ00033         80 VKVQRAIVGADLSYIQEVRAYVQKVDRSAKAKAVRAEKAERKAAK  124 (125)
T ss_pred             ccchHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHhcc
Confidence            799999999999999999999999999999999999999988653

>PF01246 Ribosomal_L24e: Ribosomal protein L24e; InterPro: IPR000988 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=9.8e-39  Score=226.58  Aligned_cols=70  Identities=53%  Similarity=0.976  Sum_probs=55.6

Q ss_pred             eeeccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHHHHHhhchhhhHHHHHH
Q 031225            3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEAVKK   72 (163)
Q Consensus         3 mk~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yRr~~kK~~~~e~~kk   72 (163)
                      |++++|+|||++||||||+|||++||+||+|||+||++||++++|||+|.||++||++|+|++++|++++
T Consensus         1 mk~~~C~Fsg~~I~PG~G~~~Vr~DG~v~~F~s~Kc~~~~~~krnPrkl~WT~~~Rr~~kK~~~~~~~kk   70 (71)
T PF01246_consen    1 MKTEKCSFSGYKIYPGHGKMYVRNDGKVFYFCSSKCEKLFKLKRNPRKLKWTVAYRRQHKKGQSEEAAKK   70 (71)
T ss_dssp             SSSEE-TTT-SEE-SSSSEEEE-TTS-EEEESSHHHHHHHHTT--GGGSTTSTTTCHHH-----SSSSSS
T ss_pred             CceEEecccCCccCCCCCeEEEecCCCeEEEeCHHHHHHHHccCCcccchhHHHHHHHhCchhhhhHhhc
Confidence            7899999999999999999999999999999999999999999999999999999999999999887644

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 [, ]. A number of eukaryotic and archaeabacterial ribosomal proteins can be grouped on the basis of sequence similarities. One of these families [] consists of mammalian ribosomal protein L24; yeast ribosomal protein L30A/B (Rp29) (YL21); Kluyveromyces lactis ribosomal protein L30; Arabidopsis thaliana ribosomal protein L24 homolog; Haloarcula marismortui ribosomal protein HL21/HL22; and Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ1201. These proteins have 60 to 160 amino-acid residues. This entry represents proteins related to the L24e ribosomal proteins.; PDB: 2ZKR_u 1VQ9_U 1VQL_U 1KD1_V 1VQP_U 3CCM_U 3CD6_U 3CCL_U 3CCR_U 1Q86_V ....

>PRK14891 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

Probab=100.00  E-value=2.6e-36  Score=234.76  Aligned_cols=63  Identities=30%  Similarity=0.665  Sum_probs=61.3

Q ss_pred             ceeeccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHHHHHhhchh
Q 031225            2 VLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKD   64 (163)
Q Consensus         2 vmk~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yRr~~kK~   64 (163)
                      +|++++|+|||++||||||+|||||||+||+||||||++||+++||||+|+||++||+.++|.
T Consensus         1 Mm~~e~CsFcG~kIyPG~G~~fVR~DGkvf~FcssKC~k~f~~kRnPRKlkWT~~yRk~~g~~   63 (131)
T PRK14891          1 MVETRTCDYTGEEIEPGTGTMFVRKDGTVLHFVDSKCEKNYDLGREARDLEWTEAGRAEKGPA   63 (131)
T ss_pred             CCceeeecCcCCcccCCCCcEEEecCCCEEEEecHHHHHHHHccCCCccchhHHHHHHHcCch
Confidence            468999999999999999999999999999999999999999999999999999999999996

>COG2075 RPL24A Ribosomal protein L24E [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=9.6e-35  Score=203.35  Aligned_cols=65  Identities=46%  Similarity=0.917  Sum_probs=62.6

Q ss_pred             eeeccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHHHHHhhchhhhH
Q 031225            3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAA   67 (163)
Q Consensus         3 mk~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yRr~~kK~~~~   67 (163)
                      |+++.|+|||..||||||+|||+|||+||+|||+||+++|.++||||+|+||..||+.++++..+
T Consensus         1 m~~~~CsFcG~~I~PGtG~m~Vr~Dg~v~~FcssKc~k~~~~~rnPRk~~WT~~~~~~~~k~~~~   65 (66)
T COG2075           1 MKVRVCSFCGKKIEPGTGIMYVRNDGKVLRFCSSKCEKLFKLGRNPRKLKWTKKYRKMHKKEIKE   65 (66)
T ss_pred             CceeEecCcCCccCCCceEEEEecCCeEEEEechhHHHHHHccCCCccchhHHHHHHHHHhhhcc
Confidence            67899999999999999999999999999999999999999999999999999999999998754

>cd00472 Ribosomal_L24e_L24 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24)

Probab=99.98  E-value=2.3e-33  Score=189.90  Aligned_cols=54  Identities=48%  Similarity=0.976  Sum_probs=52.5

Q ss_pred             eeeccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHH
Q 031225            3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSM   56 (163)
Q Consensus         3 mk~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~   56 (163)
                      |++++|+|||++||||||+|||++||+||+|||+||+++|++++|||+|+||++
T Consensus         1 m~~~~C~f~g~~I~PG~G~~~Vr~Dgkv~~F~s~Kc~~~~~~krnPRkv~WT~~   54 (54)
T cd00472           1 MKTEKCSFCGYKIYPGHGKMYVRNDGKVFRFCSSKCEKNFLRKRNPRKLKWTVA   54 (54)
T ss_pred             CcEEEecCcCCeecCCCccEEEecCCCEEEEECHHHHHHHHCcCCCCcceeecC
Confidence            789999999999999999999999999999999999999999999999999973

L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor binding site. L24e/L24 appears to play a role in the kinetics of peptide synthesis, and may be involved in interactions between the large and small subunits, either directly or through other factors. In mouse, a deletion mutation in L24 has been identified as the cause for the belly spot and tail (Bst) mutation that results in disrupted pigmentation, somitogenesis and retinal cell fate determination. L24 may be an important protein in eukaryotic reproduction: in shrimp, L24 expression is elevated in the ovary, suggesting a role in oogenesis, and in Arabidopsis, L24 has been proposed to have a specific function in gynoecium development. No protein with sequence or structural homology to L24e/L24 has been identifi

>KOG1723 consensus 60s ribosomal protein L30 isolog [Translation, ribosomal structure and biogenesis]

Probab=99.96  E-value=4e-30  Score=206.70  Aligned_cols=121  Identities=33%  Similarity=0.717  Sum_probs=106.4

Q ss_pred             eeeccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHHHHHhhchhhhHHHH--HHHhhcCCCc
Q 031225            3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEAV--KKKRRSTKKP   80 (163)
Q Consensus         3 mk~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yRr~~kK~~~~e~~--kkrrr~~~~k   80 (163)
                      |+++.|+||+.+||||||+|||+||.++|.||.|+|+++|.+++|||++.||.++|+.+++++..|.+  ++.+|+.+.+
T Consensus         1 Mri~kc~fcss~IyPgHgi~Fv~Nd~k~f~Fc~skc~k~f~~k~nPrk~~~tka~rKaagre~~~d~~~e~~~rrn~~~~   80 (162)
T KOG1723|consen    1 MRIEKCYFCSSPIYPGHGIMFVRNDCKVFRFCKSKCHKNFKQKKNPRKVGWTKAFRKAAGRELVTDSTFEFEKRRNVPRK   80 (162)
T ss_pred             CceeeeeeecCcccCCCceEEEecCcchhHHHHhhhhhhhhhhcCCCccchHHHHHHHhhhhHhhhhhHHHHHhcCcchh
Confidence            77999999999999999999999999999999999999999999999999999999999999999987  4668899999


Q ss_pred             cchhhhhhcHHHHHHHhccChHHHHHHHHHHHHHHHHHhhhchHHHHhhh
Q 031225           81 YSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKTKDEKRAKK  130 (163)
Q Consensus        81 ~~Raivg~Sl~~I~~kr~qkpevr~a~Re~a~~~~Ker~k~~~~~kk~~~  130 (163)
                      |+|+.++.|+++|+..-    +++ ..+++  .++..+++.+++.+....
T Consensus        81 y~r~~~~~Ti~a~k~v~----~i~-~~~~~--~~i~~rL~~~ke~~~~~d  123 (162)
T KOG1723|consen   81 YDRELINKTIDAMKRVL----EIK-QKREA--HFIGNRLKKGKEAQLVQD  123 (162)
T ss_pred             hcccchhhHHHHHHHHH----hhc-ccchh--hhhhhccCccchhccchh
Confidence            99999999999998875    333 33443  578888887777666533

>PRK00807 50S ribosomal protein L24e; Validated

Probab=99.95  E-value=3.1e-29  Score=168.17  Aligned_cols=51  Identities=35%  Similarity=0.811  Sum_probs=49.5

Q ss_pred             eccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhH
Q 031225            5 TELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTS   55 (163)
Q Consensus         5 ~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~   55 (163)
                      +++|+|||++||||||++||++||+||+|||+||+++|++++|||+|+||.
T Consensus         1 ~~~C~fcG~~I~pg~G~~~vr~Dgkv~~Fcs~KC~~~f~~~~nprk~~WT~   51 (52)
T PRK00807          1 TRTCSFCGKEIEPGTGKMYVKKDGTILYFCSSKCEKNYKLGRVPRKLKWTK   51 (52)
T ss_pred             CcccCCCCCeEcCCCCeEEEEeCCcEEEEeCHHHHHHHHccCCCCcccccc
Confidence            468999999999999999999999999999999999999999999999996

>smart00746 TRASH metallochaperone-like domain

Probab=98.57  E-value=8.6e-08  Score=54.47  Aligned_cols=37  Identities=46%  Similarity=1.019  Sum_probs=33.7

Q ss_pred             ccccCCCcc-CCCCceEEecCCceeEeechHHHHhhhcc
Q 031225            8 CRFSGAKIY-PGKGIRFIRSDSQVFLFANSKCKRYFHNR   45 (163)
Q Consensus         8 C~Fsg~~Iy-PG~G~~~Vr~Dgkvf~F~ssKc~~~f~~k   45 (163)
                      |.+||..|+ |+.+..++ .||++++|||..|...|...
T Consensus         1 c~~C~~~~~~~~~~~~~~-~~g~~~~FCs~~c~~~~~~~   38 (39)
T smart00746        1 CSFCGKDIYNPGTGIMVV-NDGKVFYFCSSKCLSKFKKK   38 (39)
T ss_pred             CCCCCCCccCCCCceEEE-ECCEEEEEeCHHHHHHHHhc
Confidence            899999999 88899988 99999999999999988753

>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators

Probab=97.14  E-value=0.00064  Score=43.14  Aligned_cols=36  Identities=25%  Similarity=0.665  Sum_probs=31.0

Q ss_pred             ccccCCCccCCCCceEEecCCceeEeechHHHHhhhcc
Q 031225            8 CRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNR   45 (163)
Q Consensus         8 C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~k   45 (163)
                      |+|||..|. |.++.| +.++++++||..-|.+-|+.+
T Consensus         1 Cd~CG~~I~-~eP~~~-k~~~~~y~fCC~tC~~~fk~k   36 (37)
T PF08394_consen    1 CDYCGGEIT-GEPIVV-KIGNKVYYFCCPTCLSQFKKK   36 (37)
T ss_pred             CCccCCccc-CCEEEE-EECCeEEEEECHHHHHHHHhh
Confidence            899999998 777665 458999999999999998865

It is thought to function as a metal-sensing regulatory module [].

>PF04945 YHS: YHS domain; InterPro: IPR007029 This short presumed domain is about 50 amino acid residues long

Probab=97.01  E-value=0.00062  Score=43.81  Aligned_cols=36  Identities=22%  Similarity=0.527  Sum_probs=26.8

Q ss_pred             ccccCCCccCCCCceEEecCCceeEeechHHHHhhhc
Q 031225            8 CRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHN   44 (163)
Q Consensus         8 C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~   44 (163)
                      +..||-.| ||.-...+.-+|++|+|||.-|...|..
T Consensus         3 DPvcg~~v-~~~~~~~~~y~G~~Y~FCS~~C~~~F~~   38 (47)
T PF04945_consen    3 DPVCGMKV-PGNAAYSVEYNGRTYYFCSEGCKEKFEA   38 (47)
T ss_dssp             B-GGG-BE------EEEEETTEEEEESSHHHHHHHHC
T ss_pred             CCCCCCEE-ccCccEEEEECCEEEEEcCHHHHHHHHH
Confidence            56799999 9999999999999999999999999874

It often contains two cysteines that may be functionally important. This domain is found in copper transporting ATPases, some phenol hydroxylases and in a set of uncharacterised membrane proteins including Q9CNI0 from SWISSPROT. This domain is named after three of the most conserved amino acids it contains. The domain may be metal binding, possibly copper ions. This domain is duplicated in some copper transporting ATPases.; PDB: 3U52_B 2INN_A 2INP_B 1T0Q_A 2RDB_A 1T0R_A 2IND_A 1T0S_A 2INC_A 3DHI_A ....

>PF06467 zf-FCS: MYM-type Zinc finger with FCS sequence motif; InterPro: IPR010507 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=96.34  E-value=0.0016  Score=40.51  Aligned_cols=37  Identities=14%  Similarity=0.252  Sum_probs=26.5

Q ss_pred             eccccccCCCccCCC-CceEEecCCceeEeechHHHHhh
Q 031225            5 TELCRFSGAKIYPGK-GIRFIRSDSQVFLFANSKCKRYF   42 (163)
Q Consensus         5 ~~~C~Fsg~~IyPG~-G~~~Vr~Dgkvf~F~ssKc~~~f   42 (163)
                      ...|++|+..|+.+. + ..+..||.+..|||.-|...|
T Consensus         6 ~~~C~~C~~~~~~~~~~-~~~~~~g~~~~FCS~~C~~~y   43 (43)
T PF06467_consen    6 MKTCSYCKKYIPNKPTM-IEVQYDGKMKQFCSQSCLSSY   43 (43)
T ss_dssp             CEE-TTT--EEECCC-----EE-TTTTSCCSSHHHHHHH
T ss_pred             CCcCcccCCcccCCCcc-ccccccCcccChhCHHHHhhC
Confidence            457999999998888 5 888999999999999998765

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. MYM-type zinc fingers were identified in MYM family proteins []. Human protein Q14202 from SWISSPROT is involved in a chromosomal translocation and may be responsible for X-linked retardation in XQ13.1 []. Q9UBW7 from SWISSPROT is also involved in disease. In myeloproliferative disorders it is fused to FGF receptor 1 []; in atypical myeloproliferative disorders it is rearranged []. Members of the family generally are involved in development. This Zn-finger domain functions as a transcriptional trans-activator of late vaccinia viral genes, and orthologues are also found in all nucleocytoplasmic large DNA viruses, NCLDV. This domain is also found fused to the C termini of recombinases from certain prokaryotic transposons []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2L8E_A 2DAS_A.

>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster

Probab=94.76  E-value=0.025  Score=44.40  Aligned_cols=40  Identities=23%  Similarity=0.497  Sum_probs=16.7

Q ss_pred             eccccccCCCc--cCCC-CceEEecCCceeEeechHHHHhhhc
Q 031225            5 TELCRFSGAKI--YPGK-GIRFIRSDSQVFLFANSKCKRYFHN   44 (163)
Q Consensus         5 ~~~C~Fsg~~I--yPG~-G~~~Vr~Dgkvf~F~ssKc~~~f~~   44 (163)
                      ...|.+||-.|  |||. |.++..+.+++++||+-.|--.|.+
T Consensus        25 ~~~C~~CgM~i~d~p~~~aqi~~~~g~~~~~Fdsi~c~~~~~~   67 (149)
T PF05573_consen   25 DDRCPVCGMVISDYPGFAAQIIYKDGEKVYKFDSIGCMFAYLK   67 (149)
T ss_dssp             ------------------EEEEETT-SSEEEES-HHHHHHHHT
T ss_pred             CCccCCCCCEeccCCCccEEEEECCCCEEEEECCHHHHHHHHh
Confidence            46799999999  7886 5555544449999999999866654

NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.

>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown

Probab=94.05  E-value=0.012  Score=40.77  Aligned_cols=36  Identities=22%  Similarity=0.498  Sum_probs=26.4

Q ss_pred             ccccccCCCccCCCCceEEecCCceeEeechHHHHhhh-ccCCCccchh
Q 031225            6 ELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFH-NRLKPSKLTW   53 (163)
Q Consensus         6 ~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~-~krnPRki~W   53 (163)
                      ..|-+||.+|.|.            -.|||.+|+..|. ..+..++..|
T Consensus         4 kHC~~CG~~Ip~~------------~~fCS~~C~~~~~k~qk~~~~~~~   40 (59)
T PF09889_consen    4 KHCPVCGKPIPPD------------ESFCSPKCREEYRKRQKRMRKTQY   40 (59)
T ss_pred             CcCCcCCCcCCcc------------hhhhCHHHHHHHHHHHHHHHHHHH
Confidence            4699999999983            5799999987766 3344444444

They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.

>COG3350 Uncharacterized conserved protein [Function unknown]

Probab=93.83  E-value=0.088  Score=35.95  Aligned_cols=39  Identities=18%  Similarity=0.303  Sum_probs=31.1

Q ss_pred             ccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCC
Q 031225            8 CRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKP   48 (163)
Q Consensus         8 C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnP   48 (163)
                      -..||.+|.+-.-..=.--+|++++|||..|...|.  .||
T Consensus         5 DPVcgm~v~~~~a~~k~~Y~GktYYFcse~~~~~F~--~~P   43 (53)
T COG3350           5 DPVCGMKVDNENAEYKSSYGGKTYYFCSEECKEKFK--DNP   43 (53)
T ss_pred             cCCcCccccccccceeEEeCCEEEEEeCHHHHHHHH--HCH
Confidence            457888888777666667789999999999988875  455

>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function

Probab=89.49  E-value=0.12  Score=39.46  Aligned_cols=29  Identities=24%  Similarity=0.369  Sum_probs=23.3

Q ss_pred             ccccccCCCccCCCCceEEecCCceeEeec
Q 031225            6 ELCRFSGAKIYPGKGIRFIRSDSQVFLFAN   35 (163)
Q Consensus         6 ~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~s   35 (163)
                      ..|++||.+||-|-...|..+ |-|.|-|-
T Consensus         3 WkC~iCg~~I~~gqlFTF~~k-G~VH~~C~   31 (101)
T PF09943_consen    3 WKCYICGKPIYEGQLFTFTKK-GPVHYECF   31 (101)
T ss_pred             eEEEecCCeeeecceEEEecC-CcEeHHHH
Confidence            579999999998888777777 77766553

>cd01057 AAMH_A Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain

Probab=85.97  E-value=0.72  Score=42.92  Aligned_cols=51  Identities=18%  Similarity=0.445  Sum_probs=38.6

Q ss_pred             cccccCCCccC----CCC-ceEEecCCceeEeechHHHHhhhccCCCccc--hhhHHHHH
Q 031225            7 LCRFSGAKIYP----GKG-IRFIRSDSQVFLFANSKCKRYFHNRLKPSKL--TWTSMYRK   59 (163)
Q Consensus         7 ~C~Fsg~~IyP----G~G-~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki--~WT~~yRr   59 (163)
                      +|..|+-+|-|    ..- ..-.--||+.|+|||--|+..|.+  +|-+.  .|+..-|-
T Consensus       382 ~c~vC~~p~~~~~~~~~~~~~~~ey~G~~y~FCS~~C~~~F~~--ePerY~~~~~~~~~~  439 (465)
T cd01057         382 LCNVCQVPCVFTEDLTAEAPRVLEYNGRKYHFCSEGCEWIFEQ--EPERYAGHWNPVDRF  439 (465)
T ss_pred             CCCCCCCeeccccCcccccceEEEECCEEEEecCHHHHHHHHH--CHHHHhcCCCHHHHH
Confidence            79999999985    443 344566999999999999999986  77665  45544433

Aromatic and Alkene Monooxygenase Hydroxylases, subunit A (AAMH_A). Subunit A of the soluble hydroxylase of multicomponent, aromatic and alkene monooxygenases are members of a superfamily of ferritin-like iron-storage proteins. AAMH exists as a hexamer (an alpha2-beta2-gamma2 homodimer) with each alpha-subunit housing one nonheme diiron center embedded in a four-helix bundle. The N-terminal domain of the alpha- and noncatalytic beta-subunits possess nearly identical folds, however, the beta-subunit lacks critical diiron ligands and a C-terminal domain found in the alpha-subunit. Methane monooxygenase is a multicomponent enzyme found in methanotrophic bacteria that catalyzes the hydroxylation of methane and higher alkenes (as large as octane). Phenol monooxygenase, found in a diverse group of bacteria, catalyses the hydroxylation of phenol, chloro- and methyl-phenol and naphtho

>COG4314 NosL Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]

Probab=83.34  E-value=1.4  Score=36.42  Aligned_cols=47  Identities=17%  Similarity=0.352  Sum_probs=37.7

Q ss_pred             ccccccCCCc--cCCC-CceEEecCCceeEeechHHHHhhh-ccCCCccch
Q 031225            6 ELCRFSGAKI--YPGK-GIRFIRSDSQVFLFANSKCKRYFH-NRLKPSKLT   52 (163)
Q Consensus         6 ~~C~Fsg~~I--yPG~-G~~~Vr~Dgkvf~F~ssKc~~~f~-~krnPRki~   52 (163)
                      ..|.|||-.|  |||- |.+|..-+-...||||.+---+|. +=-+|+.|.
T Consensus        36 s~g~ycgMnl~ehpGPKgQi~l~g~~qP~wfsst~e~f~~tllPEepk~ia   86 (176)
T COG4314          36 SMGHYCGMNLLEHPGPKGQIILNGKPQPIWFSSTREMFGFTLLPEEPKGIA   86 (176)
T ss_pred             ccccccceeeecCCCCcceEeeCCCCCceeeecHHHHhhHhcCCcCcCcee
Confidence            4699999877  7997 999999888889999999855444 666777653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	163
3izr_Z	162	Localization Of The Large Subunit Ribosomal Protein		6e-62
2zkr_u	157	Structure Of A Mammalian Ribosomal 60s Subunit With		2e-24
3izs_Z	155	Localization Of The Large Subunit Ribosomal Protein		4e-24
4a17_T	158	T.Thermophila 60s Ribosomal Subunit In Complex With		1e-13
1s1i_S	56	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		3e-11
3jyw_S	45	Structure Of The 60s Proteins For Eukaryotic Riboso		1e-08
3zf7_Y	125	High-resolution Cryo-electron Microscopy Structure		4e-07
3j21_V	66	Promiscuous Behavior Of Proteins In Archaeal Riboso		3e-06

>pdb|3IZR|Z Chain Z, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 162

Iteration: 1
 Score =  232 bits (592), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 115/141 (81%), Positives = 122/141 (86%)
Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MVLKTELCRFSG KIYPGKGIRFIR+DSQVFLFANSKCKRYFHNRLKP+KLTWT+MYRKQ
Sbjct: 1   MVLKTELCRFSGQKIYPGKGIRFIRADSQVFLFANSKCKRYFHNRLKPAKLTWTAMYRKQ 60
Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIX 120
           HKKDI AEAVKK+RR+TKKPYSRSIVGATLEVIQK+R+EKPEVRDAAREAALREIKERI 
Sbjct: 61  HKKDIHAEAVKKRRRTTKKPYSRSIVGATLEVIQKKRSEKPEVRDAAREAALREIKERIK 120
Query: 121 XXXXXXXXXXXXVTSKSKTQS 141
                       V    KTQS
Sbjct: 121 KTKDEKKAKKAEVAKSQKTQS 141

>pdb|2ZKR|UU Chain u, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 157

Iteration: 1
 Score =  108 bits (269), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 74/111 (66%), Gaps = 1/111 (0%)
Query: 3   LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
           +K ELC FSG KIYPG G R+ R+D +VF F N+KC+  F ++  P ++ WT +YR++HK
Sbjct: 1   MKVELCSFSGYKIYPGHGRRYARTDGKVFQFLNAKCESAFLSKRNPRQINWTVLYRRKHK 60
Query: 63  KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALR 113
           K  + E  KK+ R   K + R+I GA+L  I  +R +KPEVR A RE A+R
Sbjct: 61  KGQSEEIQKKRTRRAVK-FQRAITGASLADIMAKRNQKPEVRKAQREQAIR 110

>pdb|3IZS|Z Chain Z, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 155

Iteration: 1
 Score =  107 bits (266), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 53/106 (50%), Positives = 70/106 (66%), Gaps = 1/106 (0%)
Query: 3   LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
           +K E+  FSGAKIYPG+G  F+R DS++F F NSK    F  R  P ++ WT ++RK HK
Sbjct: 1   MKVEIDSFSGAKIYPGRGTLFVRGDSKIFRFQNSKSASLFKQRKNPRRIAWTVLFRKHHK 60
Query: 63  KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAR 108
           K I  E  KK+ R T K   R I GA+L++I++RR+ KPEVR A R
Sbjct: 61  KGITEEVAKKRSRKTVKA-QRPITGASLDLIKERRSLKPEVRKANR 105

>pdb|4A17|T Chain T, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 5s Rrna, 5.8s Rrna And Proteins Of Molecule 2. Length = 158

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/119 (38%), Positives = 68/119 (57%), Gaps = 3/119 (2%)
Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MV++T  C F   +IYPG+G RFI  D + F F   K K     ++K  K+TWT   R+ 
Sbjct: 1   MVVRTGTCSFCEYRIYPGRGQRFIAKDGRGFFFLTKKAKCLSLRKVKAQKITWTIARRRL 60
Query: 61  HKKDIAAE-AVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKER 118
            KK  A + A KKK+R+     +R+IVG +LE I +R+      + A  E A+RE+K++
Sbjct: 61  WKKVKATDIAQKKKKRNV--TVARAIVGISLEEINRRKNLDASHKKAEAEKAVRELKQK 117

>pdb|1S1I|S Chain S, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h. Length = 56

Iteration: 1
 Score = 63.9 bits (154), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 27/56 (48%), Positives = 37/56 (66%)
Query: 3  LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYR 58
          +K E+  FSGAKIYPG+G  F+R DS++F F NSK    F  R  P ++ WT ++R
Sbjct: 1  MKVEIDSFSGAKIYPGRGTLFVRGDSKIFRFQNSKSASLFKQRKNPRRIAWTVLFR 56

>pdb|3JYW|S Chain S, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 45

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 24/45 (53%), Positives = 30/45 (66%)
Query: 10 FSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWT 54
          FSGAKIYPG+G  F+R DS++F F NSK    F  R  P ++ WT
Sbjct: 1  FSGAKIYPGRGTLFVRGDSKIFRFQNSKSASLFKQRKNPRRIAWT 45

>pdb|3ZF7|Y Chain Y, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 125

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 37/116 (31%), Positives = 58/116 (50%), Gaps = 5/116 (4%)
Query: 3   LKTELCRFSGAKIYPGKGIRFI----RSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYR 58
           ++T  C FS   ++PG G R++     S   V  FA  KC   +  +  P  + WT  YR
Sbjct: 1   MRTIDCEFSHFAVHPGHGRRYVPFAFLSTKPVLTFARPKCFAMYMRKKNPRFIAWTRTYR 60
Query: 59  KQHKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALRE 114
           + H+K    + V ++R +      R+IVGA L  IQ+ R +  +V   A+  A+RE
Sbjct: 61  RIHRKT-TTDRVGRRRAARTVRAERAIVGAELSYIQEVRAKAKKVDRTAKGKAVRE 115

>pdb|3J21|V Chain V, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Proteins) Length = 66

Iteration: 1
 Score = 47.8 bits (112), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 32/58 (55%)
Query: 2  VLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRK 59
          + +  +C + G    PG G  ++R+D +V  F + KC+RY+     P KL WT  Y++
Sbjct: 1  MARWNVCSYCGKPFEPGTGKMYVRNDGRVLFFCSRKCERYYFMGRNPRKLKWTKAYQE 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	163
3iz5_Z	162	60S ribosomal protein L24 (L24E); eukaryotic ribos	1e-32
2zkr_u	157	60S ribosomal protein L24; protein-RNA complex, 60	2e-30
4a17_T	158	RPL24, 60S ribosomal protein L21; eukaryotic ribos	9e-29
3izc_Z	155	60S ribosomal protein RPL24 (L24E); eukaryotic rib	1e-26
1vq8_U	66	50S ribosomal protein L24E; ribosome 50S, protein-	9e-20
3jyw_S	45	60S ribosomal protein L24(A); eukaryotic ribosome,	1e-15
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	1e-05

>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 157

 Score =  107 bits (268), Expect = 2e-30
 Identities = 64/156 (41%), Positives = 92/156 (58%), Gaps = 1/156 (0%)

Query: 3   LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK 62
           +K ELC FSG KIYPG G R+ R+D +VF F N+KC+  F ++  P ++ WT +YR++HK
Sbjct: 1   MKVELCSFSGYKIYPGHGRRYARTDGKVFQFLNAKCESAFLSKRNPRQINWTVLYRRKHK 60

Query: 63  KDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKT 122
           K  + E  KK+ R   K + R+I GA+L  I  +R +KPEVR A RE A+R  KE  K  
Sbjct: 61  KGQSEEIQKKRTRRAVK-FQRAITGASLADIMAKRNQKPEVRKAQREQAIRAAKEAKKAK 119

Query: 123 KDEKRAKKAEVTSKSKTQSKGSMPKGAAPKGPKLGG 158
           +  K+   A   + +K   K  + K      P++GG
Sbjct: 120 QASKKTAMAAAKAPTKAAPKQKIVKPVKVSAPRVGG 155

>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_T 4a1c_T 4a1e_T Length = 158

 Score =  102 bits (256), Expect = 9e-29
 Identities = 53/158 (33%), Positives = 79/158 (50%), Gaps = 1/158 (0%)

Query: 1   MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQ 60
           MV++T  C F   +IYPG+G RFI  D + F F   K K     ++K  K+TWT   R+ 
Sbjct: 1   MVVRTGTCSFCEYRIYPGRGQRFIAKDGRGFFFLTKKAKCLSLRKVKAQKITWTIARRRL 60

Query: 61  HKKDIAAEAVKKKRRSTKKPYSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIK 120
            KK  A +  +KK++      +R+IVG +LE I +R+      + A  E A+RE+K++  
Sbjct: 61  WKKVKATDIAQKKKKRNVT-VARAIVGISLEEINRRKNLDASHKKAEAEKAVRELKQKKA 119

Query: 121 KTKDEKRAKKAEVTSKSKTQSKGSMPKGAAPKGPKLGG 158
              ++KRA +       K   K    K   P G K G 
Sbjct: 120 NDIEKKRADRKLQGKDVKAAKKAETKKTKQPVGAKGGK 157

>1vq8_U 50S ribosomal protein L24E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.39.1.6 PDB: 1giy_R 1jj2_T 1k73_V* 1k8a_V* 1k9m_V* 1kc8_V* 1kd1_V* 1kqs_T* 1m1k_V* 1m90_V* 1ml5_r* 1n8r_V* 1nji_V* 1q7y_V* 1q81_V* 1q82_V* 1q86_V* 1qvf_T 1qvg_T 1s72_U* ... Length = 66

 Score = 77.1 bits (190), Expect = 9e-20
 Identities = 17/62 (27%), Positives = 25/62 (40%)

Query: 4  KTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKK 63
          +T  C + G  I PG G  F+  D     F +SKC+       +   L WT   R +  +
Sbjct: 2  RTRECDYCGTDIEPGTGTMFVHKDGATTHFCSSKCENNADLGREARNLEWTDTARGEAGE 61

Query: 64 DI 65
            
Sbjct: 62 AE 63

>3jyw_S 60S ribosomal protein L24(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} Length = 45

 Score = 65.8 bits (161), Expect = 1e-15
 Identities = 24/45 (53%), Positives = 30/45 (66%)

Query: 10 FSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWT 54
          FSGAKIYPG+G  F+R DS++F F NSK    F  R  P ++ WT
Sbjct: 1  FSGAKIYPGRGTLFVRGDSKIFRFQNSKSASLFKQRKNPRRIAWT 45

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 42.5 bits (99), Expect = 1e-05
 Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 3/55 (5%)

Query: 91  EVIQKRRTEKP---EVRDAAREAALREIKERIKKTKDEKRAKKAEVTSKSKTQSK 142
           E I+K R E+    +  DAA +   +E +E+ KK  +E   +++E   K+K  ++
Sbjct: 85  ESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNR 139

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	163
3iz5_Z	162	60S ribosomal protein L24 (L24E); eukaryotic ribos	100.0
2zkr_u	157	60S ribosomal protein L24; protein-RNA complex, 60	100.0
4a17_T	158	RPL24, 60S ribosomal protein L21; eukaryotic ribos	100.0
3izc_Z	155	60S ribosomal protein RPL24 (L24E); eukaryotic rib	100.0
1vq8_U	66	50S ribosomal protein L24E; ribosome 50S, protein-	100.0
3j21_V	66	50S ribosomal protein L24E; archaea, archaeal, KIN	100.0
3jyw_S	45	60S ribosomal protein L24(A); eukaryotic ribosome,	99.96
2hpu_A	175	NOSL protein; alpha beta topology, metal transport	94.74
1mty_D	512	Methane monooxygenase hydroxylase; dinuclear iron	92.24
3u52_A	511	Phenol hydroxylase component PHN; 4-helix bundle,	86.83
2l8e_A	49	Polyhomeotic-like protein 1; DNA binding protein;	85.24
3ge3_A	500	Toluene-4-monooxygenase system protein A; DIIRON h	82.45

>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=100.00  E-value=6.7e-63  Score=393.33  Aligned_cols=156  Identities=40%  Similarity=0.718  Sum_probs=52.9

Q ss_pred             eeeccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHHHHHhhchhhhHHHHHHHhhcCCCccc
Q 031225            3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEAVKKKRRSTKKPYS   82 (163)
Q Consensus         3 mk~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yRr~~kK~~~~e~~kkrrr~~~~k~~   82 (163)
                      |++++|+|||++||||||+|||++||+||+||||||++||++++|||+|.||++||++|+||+++|..++|++ .+++||
T Consensus         1 Mk~~~C~Fcg~~IyPG~G~~~Vr~Dgkvf~FcssKC~k~f~~krnPRKl~WT~~yRr~~kK~~~~e~~KkR~r-~~vK~~   79 (157)
T 2zkr_u            1 MKVELCSFSGYKIYPGHGRRYARTDGKVFQFLNAKCESAFLSKRNPRQINWTVLYRRKHKKGQSEEIQKKRTR-RAVKFQ   79 (157)
T ss_dssp             ---CBCTTTCCBCCTTCCEEEECTTSCEEEESSHHHHHHHHTTCCTTTCTTCSTTC------------------------
T ss_pred             CCeeeecCcCCcccCCCceEEEeeCCcEEEEecHHHHHHHHccCCcccchhHHHHHHHhcchHHHHHHHHHhc-Ccccee
Confidence            7899999999999999999999999999999999999999999999999999999999999999987666554 555899


Q ss_pred             hhhhhhcHHHHHHHhccChHHHHHHHHHHHHHHHHHhhhchHHHHhhhhhhhhccccccCCCCCCCCCCCCCCCCCC
Q 031225           83 RSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKTKDEKRAKKAEVTSKSKTQSKGSMPKGAAPKGPKLGGG  159 (163)
Q Consensus        83 Raivg~Sl~~I~~kr~qkpevr~a~Re~a~~~~Ker~k~~~~~kk~~~~~~~~~~~~~~k~~~~k~~~~~~p~~ggk  159 (163)
                      |+|||+||++|+++|||+||||.++||+||+++||++++.++.++++.++..+++++++++++++++...+|+|||+
T Consensus        80 R~ivg~sl~~I~~kR~qkpevr~a~r~~ai~~~Ke~kk~~~~~kk~~~~~~~~~~~~~~~~k~~k~~~k~a~~v~g~  156 (157)
T 2zkr_u           80 RAITGASLADIMAKRNQKPEVRKAQREQAIRAAKEAKKAKQASKKTAMAAAKAPTKAAPKQKIVKPVKVSAPRVGGK  156 (157)
T ss_dssp             -----------------------------------------------------------------------------
T ss_pred             HHHHHhhHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccccccchhhhccccccccCCCCCCC
Confidence            99999999999999999999999999999999999999999999887655444445667778888888888999986

>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_T 4a1c_T 4a1e_T

Probab=100.00  E-value=3.3e-61  Score=383.73  Aligned_cols=133  Identities=35%  Similarity=0.565  Sum_probs=60.9

Q ss_pred             CceeeccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHHHHHhhchhhhHHHHHHHhhcCCCc
Q 031225            1 MVLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAAEAVKKKRRSTKKP   80 (163)
Q Consensus         1 mvmk~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yRr~~kK~~~~e~~kkrrr~~~~k   80 (163)
                      |||++++|+|||++||||||+|||+|||+||+||||||++||++++|||+|.||++||+.|+||+++|++.+|+ +.+++
T Consensus         1 Mvmk~~~CsFcg~~IyPG~G~~fVr~Dgkvf~FcssKC~k~f~~krnPRkl~WT~~yRr~~kK~~~~e~~kkr~-~r~vK   79 (158)
T 4a17_T            1 MVVRTGTCSFCEYRIYPGRGQRFIAKDGRGFFFLTKKAKCLSLRKVKAQKITWTIARRRLWKKVKATDIAQKKK-KRNVT   79 (158)
T ss_dssp             -CCCCEECTTTCCEECTTCCEEEECTTSCEEEESCHHHHHHHHHTCCGGGSTTSHHHHHHHC------------------
T ss_pred             CeeEEEEecCcCCcccCCCCeEEEeeCCceEEEEcHHHHHHHHcccCcccchhHHHHHHHhCCcchHHHHHHHh-cCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999885544 56669


Q ss_pred             cchhhhhhcHHHHHHHhccChHHHHHHHHHHHHHHHHHhhhchHHHHhhhhhhh
Q 031225           81 YSRSIVGATLEVIQKRRTEKPEVRDAAREAALREIKERIKKTKDEKRAKKAEVT  134 (163)
Q Consensus        81 ~~Raivg~Sl~~I~~kr~qkpevr~a~Re~a~~~~Ker~k~~~~~kk~~~~~~~  134 (163)
                      |||+|||+||++|+++|||+||+|+|+||+||+++||++++.++.++++++..+
T Consensus        80 ~~R~ivg~sl~~I~~kR~qkpe~r~a~re~ai~~~Kekkka~~~~kka~~a~~~  133 (158)
T 4a17_T           80 VARAIVGISLEEINRRKNLDASHKKAEAEKAVRELKQKKANDIEKKRADRKLQG  133 (158)
T ss_dssp             ------------------------------------------------------
T ss_pred             cchhhhhhhHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            999999999999999999999999999999999999999999999988776543

>1vq8_U 50S ribosomal protein L24E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: g.39.1.6 PDB: 1giy_R 1jj2_T 1k73_V* 1k8a_V* 1k9m_V* 1kc8_V* 1kd1_V* 1kqs_T* 1m1k_V* 1m90_V* 1ml5_r* 1n8r_V* 1nji_V* 1q7y_V* 1q81_V* 1q82_V* 1q86_V* 1qvf_T 1qvg_T 1s72_U* ...

Probab=100.00  E-value=2.7e-39  Score=225.75  Aligned_cols=65  Identities=26%  Similarity=0.489  Sum_probs=52.9

Q ss_pred             eeeccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHHHHHhhchhhhH
Q 031225            3 LKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHKKDIAA   67 (163)
Q Consensus         3 mk~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yRr~~kK~~~~   67 (163)
                      |++++|+|||++||||||+|||++||+||+||||||++||++++|||+|+||++||++|+|+++|
T Consensus         1 mk~~~C~Fcg~~IyPG~G~~~Vr~Dgkvf~FcssKc~k~f~~krnPRkl~WT~~yRr~~kK~~~~   65 (66)
T 1vq8_U            1 PRTRECDYCGTDIEPGTGTMFVHKDGATTHFCSSKCENNADLGREARNLEWTDTARGEAGEAEDE   65 (66)
T ss_dssp             ---CBCTTTCCBCCSSCCEEEECTTSCEEEESCHHHHHHHHTTCCGGGCTTSTTTC---------
T ss_pred             CCeeEecCcCCcccCCCceEEEeeCCcEEEEECHHHHHHHHcccCcccchhHHHHHHHhcccccc
Confidence            78999999999999999999999999999999999999999999999999999999999998875

>3j21_V 50S ribosomal protein L24E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=7.3e-36  Score=208.41  Aligned_cols=61  Identities=31%  Similarity=0.788  Sum_probs=58.2

Q ss_pred             ceeeccccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHHHHHhhc
Q 031225            2 VLKTELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYRKQHK   62 (163)
Q Consensus         2 vmk~~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yRr~~k   62 (163)
                      +|++++|+|||++||||||+|||++||+||+||||||++||++++|||+|+||++||+..-
T Consensus         1 M~~~~~C~Fcg~~IyPG~G~~~Vr~Dgkvf~FcssKC~k~f~~krnPRkl~WT~~yRk~~~   61 (66)
T 3j21_V            1 MARWNVCSYCGKPFEPGTGKMYVRNDGRVLFFCSRKCERYYFMGRNPRKLKWTKAYQEARL   61 (66)
T ss_dssp             CCCCCBCTTTCSBCCTTCCEEEECSSSCEEEESSHHHHHHHHTTCCTTTCSSSHHHHHHHH
T ss_pred             CCceeEecCcCCcccCCCCeEEEecCCcEEEEECHHHHHHHHcCCCcccchHHHHHHHHhh
Confidence            3699999999999999999999999999999999999999999999999999999998753

>3jyw_S 60S ribosomal protein L24(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus}

Probab=99.96  E-value=4.4e-30  Score=167.40  Aligned_cols=45  Identities=53%  Similarity=1.057  Sum_probs=44.7

Q ss_pred             ccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhh
Q 031225           10 FSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWT   54 (163)
Q Consensus        10 Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT   54 (163)
                      |||++||||||+|||++||+||+||||||+++|++++|||+|+||
T Consensus         1 F~g~~IyPG~G~~~Vr~Dgkvf~FcssKc~k~~~~krnPrkl~WT   45 (45)
T 3jyw_S            1 FSGAKIYPGRGTLFVRGDSKIFRFQNSKSASLFKQRKNPRRIAWT   45 (45)
T ss_dssp             CCCCCCCTTCCCEECTTTSCCCCCCSHHHHGGGTSCCCTTTCCCC
T ss_pred             CCCCcccCCCCeEEEecCCCEEEEECHHHHHHHHcCCCCccCccC
Confidence            899999999999999999999999999999999999999999998

>2hpu_A NOSL protein; alpha beta topology, metal transport; NMR {Achromobacter cycloclastes} SCOP: d.357.1.1 PDB: 2hq3_A

Probab=94.74  E-value=0.017  Score=45.84  Aligned_cols=42  Identities=12%  Similarity=0.286  Sum_probs=20.0

Q ss_pred             eeccccccCCCc--cCCC-CceEEecCCceeEeechHHHHhhhcc
Q 031225            4 KTELCRFSGAKI--YPGK-GIRFIRSDSQVFLFANSKCKRYFHNR   45 (163)
Q Consensus         4 k~~~C~Fsg~~I--yPG~-G~~~Vr~Dgkvf~F~ssKc~~~f~~k   45 (163)
                      ....|.|||-.|  |||. +.++..+.|++++||+-.|--.|.+.
T Consensus        17 ~~~~C~~CgM~i~~~p~~~aqI~~~~~g~~~~F~s~~cm~~~~~~   61 (175)
T 2hpu_A           17 PETLGHYCQMNLLEHPGPKAQIFLEGSPAPLFFSQVRDAIAYARG   61 (175)
T ss_dssp             ------------------CEEEEETTCSSEEEESCHHHHHHHHTT
T ss_pred             CCceeCCCCcCcccCCCccEEEEECCCCcEEEECCHHHHHHHHhc
Confidence            457899999998  4676 56666555999999999998776643

>1mty_D Methane monooxygenase hydroxylase; dinuclear iron center monooxygenase; 1.70A {Methylococcus capsulatus str} SCOP: a.25.1.2 PDB: 1mmo_D 1xvb_A 1fyz_A 1fz0_A 1fz2_A 1fz3_A 1fz4_A 1fz5_A 1fz6_A 1fz7_A 1fz8_A 1fz9_A 1fzh_A 1fzi_A 1xmf_A 1xmg_A 1xmh_A 1xu3_A 1xu5_A 1fz1_A ...

Probab=92.24  E-value=0.098  Score=47.85  Aligned_cols=58  Identities=10%  Similarity=0.225  Sum_probs=44.3

Q ss_pred             ccccccCCCc----cCCCCceEE-ecCCceeEeechHHHHhhhccCCCccc----hhhHHHHHhhchhhhHHH
Q 031225            6 ELCRFSGAKI----YPGKGIRFI-RSDSQVFLFANSKCKRYFHNRLKPSKL----TWTSMYRKQHKKDIAAEA   69 (163)
Q Consensus         6 ~~C~Fsg~~I----yPG~G~~~V-r~Dgkvf~F~ssKc~~~f~~krnPRki----~WT~~yRr~~kK~~~~e~   69 (163)
                      .+|..|+-++    .||....++ --+|+.|+|||.-|+..|.  .||-+.    .|+   | .++-++++-.
T Consensus       402 ~~c~vC~~p~~~~~~~~~~~~~~~~y~G~~y~FCs~~Ck~~F~--~~PerY~~~~~~~---~-~~G~~l~~~~  468 (512)
T 1mty_D          402 YIDRVSQVPFCPSLAKGASTLRVHEYNGEMHTFSDQWGERMWL--AEPERYECQNIFE---Q-YEGRELSEVI  468 (512)
T ss_dssp             EECTTTCCEECTTTCSSCCCCEEEEETTEEEEESSHHHHHHHH--HCGGGCCCCCHHH---H-STTCBHHHHH
T ss_pred             eeCCCCCCcccccCCCCCCceeEEEECCEEEEecCHHHHHHHH--hChHHhhhcchHH---H-hcCCCHHHHH
Confidence            3699999984    456666665 6799999999999999998  678776    566   4 7776554443

>3u52_A Phenol hydroxylase component PHN; 4-helix bundle, dioxygen, hydrocarbons, oxidore; HET: MPO EPE; 1.95A {Pseudomonas stutzeri} PDB: 2inn_A 2inp_A

Probab=86.83  E-value=0.35  Score=44.10  Aligned_cols=52  Identities=19%  Similarity=0.418  Sum_probs=37.6

Q ss_pred             cccccCCCc---cCCCCc----eEEecCCceeEeechHHHHhhhccCCCccc--hhhHHHHHh
Q 031225            7 LCRFSGAKI---YPGKGI----RFIRSDSQVFLFANSKCKRYFHNRLKPSKL--TWTSMYRKQ   60 (163)
Q Consensus         7 ~C~Fsg~~I---yPG~G~----~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki--~WT~~yRr~   60 (163)
                      +|..|..+|   .||...    ..+--+|+.|+|||.-|+..|.  .||-+.  .|+..-|-+
T Consensus       398 ~C~~Cq~P~~~~~~~~~~~~~~~~~~~~G~~y~fCs~~C~~~f~--~~Pe~y~~~~~~~~~~~  458 (511)
T 3u52_A          398 LCQVCQIPTIFTEKDAPTMLSHRQIEHEGERYHFCSDGCCDIFK--HEPEKYIQAWLPVHQIY  458 (511)
T ss_dssp             BCTTTCSBSCCEETTEEEEECCEEEEETTEEEEESSHHHHHHHH--HCHHHHTTCCCHHHHHH
T ss_pred             ccCCCCCcccccCCCCCCcccceeEEECCEEEEecChHHHHHHH--HCHHHHhcccChHHHHH
Confidence            799999999   456533    3344689999999999999998  567654  455444433

>2l8e_A Polyhomeotic-like protein 1; DNA binding protein; NMR {Homo sapiens}

Probab=85.24  E-value=0.18  Score=32.61  Aligned_cols=30  Identities=13%  Similarity=0.276  Sum_probs=23.7

Q ss_pred             ccccccCCCccCCCCceEEecCCceeEeechHHHHhh
Q 031225            6 ELCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYF   42 (163)
Q Consensus         6 ~~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f   42 (163)
                      ..|.+||..|.|..+       ++-=.|||..|...|
T Consensus        19 ~~C~~CG~~i~~~~~-------~r~krFCS~sCR~~y   48 (49)
T 2l8e_A           19 LKCEYCGKYAPAEQF-------RGSKRFCSMTCAKRY   48 (49)
T ss_dssp             EECTTTCCEEEGGGC-------TTTSSSCSHHHHHHH
T ss_pred             CcChhccCccccccC-------CCCCccCCHHHHhhh
Confidence            469999999998663       334469999998876

>3ge3_A Toluene-4-monooxygenase system protein A; DIIRON hydroxylase, effector protein, T201A, aromatic hydrocarbons catabolism, FAD, flavoprotein; 1.52A {Pseudomonas mendocina} SCOP: a.25.1.2 PDB: 3ge8_A 3dhi_A* 3dhh_A* 3dhg_A* 3i5j_A 3i63_A 3q14_A 3q2a_A* 3q3m_A* 3q3n_A* 3q3o_A* 3rmk_A* 3ri7_A

Probab=82.45  E-value=0.88  Score=41.54  Aligned_cols=43  Identities=16%  Similarity=0.463  Sum_probs=32.5

Q ss_pred             cccccCCCcc--CCCC----ceEEecCCceeEeechHHHHhhhccCCCccc
Q 031225            7 LCRFSGAKIY--PGKG----IRFIRSDSQVFLFANSKCKRYFHNRLKPSKL   51 (163)
Q Consensus         7 ~C~Fsg~~Iy--PG~G----~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki   51 (163)
                      +|..|..+|-  ||+.    ...+--+|+.|+|||.-|+..|.  .||-+.
T Consensus       396 ~C~~CqvP~~~~~~~~~~~~~~~~~y~G~~y~fCs~~C~~~f~--~~Pe~y  444 (500)
T 3ge3_A          396 VCNMSQIPLVGVPGDDWNIEVFSLEHNGRLYHFGSEVDRWVFQ--QDPVQY  444 (500)
T ss_dssp             BCTTTCSBCBCBCGGGCBCCCEEEEETTEEEEESSHHHHHHHH--HCHHHH
T ss_pred             cccccCCccccCCCCcccccceeeEECCEEEEecCHHHHHHHH--hChHHH
Confidence            7999988885  4431    33344589999999999999998  567655

---

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	163
d1vqou1	53	g.39.1.6 (U:4-56) Ribosomal protein L24e {Archaeon	6e-17

>d1vqou1 g.39.1.6 (U:4-56) Ribosomal protein L24e {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 53

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: Ribosomal protein L24e
domain: Ribosomal protein L24e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 68.2 bits (167), Expect = 6e-17
 Identities = 16/51 (31%), Positives = 21/51 (41%)

Query: 8  CRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYR 58
          C + G  I PG G  F+  D     F +SKC+       +   L WT   R
Sbjct: 3  CDYCGTDIEPGTGTMFVHKDGATTHFCSSKCENNADLGREARNLEWTDTAR 53

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	163
d1vqou1	53	Ribosomal protein L24e {Archaeon Haloarcula marism	99.97

>d1vqou1 g.39.1.6 (U:4-56) Ribosomal protein L24e {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: Ribosomal protein L24e
domain: Ribosomal protein L24e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.97  E-value=9.2e-34  Score=188.82  Aligned_cols=52  Identities=31%  Similarity=0.611  Sum_probs=51.1

Q ss_pred             cccccCCCccCCCCceEEecCCceeEeechHHHHhhhccCCCccchhhHHHH
Q 031225            7 LCRFSGAKIYPGKGIRFIRSDSQVFLFANSKCKRYFHNRLKPSKLTWTSMYR   58 (163)
Q Consensus         7 ~C~Fsg~~IyPG~G~~~Vr~Dgkvf~F~ssKc~~~f~~krnPRki~WT~~yR   58 (163)
                      +|+|||++||||||+|||++||+||+||||||+++|++++|||+|.||++||
T Consensus         2 ~CsF~g~~I~PG~G~~~Vr~Dg~v~~F~ssKc~~~~~~krnPrk~~WT~~yR   53 (53)
T d1vqou1           2 ECDYCGTDIEPGTGTMFVHKDGATTHFCSSKCENNADLGREARNLEWTDTAR   53 (53)
T ss_dssp             BCTTTCCBCCTTCCEEEECTTSCEEEESCHHHHHHHHTTCCGGGCTTSTTTC
T ss_pred             cccccCCeecCCCCEEEEecCCCEEEEeCHHHHHHHHcCCCcccceeeeccC
Confidence            6999999999999999999999999999999999999999999999999987