Citrus Sinensis ID: 034006

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100------
Protein Sequence
MDVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Secondary Structure (PSIPRED)
cccccccEEEEEcccccccccEEEEEEEEccccccccccccEEEEccccccccccccEEcccccccccEEEEEEEcccccEEEEcEEEEEcEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccEEEcccccccccccccEEEEEccccccHHHcccccccccccccccccccEEEEEcccccEEEEEEEEccccccEEEHHHHccEEEEcccccccccEEc
Coil and Loop (DISEMBL)
mdvnvpktkktyckskecrkhtlhkvtqykkgkdslaaqgkrrydrkqsgyggqtkpvfhkkaKTTKKIVLRLQCqgckhvsqhpikrckhfeiggdkkgkgtslf
Flexible Loop (DISEMBL)
mdvnvpktkktyckskecrkhtlhkvtqykkgkdslaaqgkrrydrkqsgyggqtkpvfhkkAKTTKKIVLRLQCQGckhvsqhpikrckhfeiggdkkgkgtslf
Low Complexity Region (SEG)
MDVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Disordered region (IsUnstruct)
**********************************************************FHKKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEI************
Disordered Region (DISOPRED)
**VNVPKTKKTYCKSKECRKHTLHKVT************************************KTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKG*G*SL*
Disordered Region (DISEMBL)
MDVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Disordered Region (DISPRO)
*DVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLA*QGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDK********
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	106	2.2.26 [Sep-21-2011]
Q96499	105	60S ribosomal protein L44	N/A	no	0.981	0.990	1.0	2e-53
O23290	105	60S ribosomal protein L36	yes	no	0.981	0.990	0.932	4e-50
P27075	106	60S ribosomal protein L44	N/A	no	0.971	0.971	0.747	2e-37
P27074	106	60S ribosomal protein L44	N/A	no	0.971	0.971	0.747	2e-37
P48166	105	60S ribosomal protein L44	yes	no	0.962	0.971	0.718	1e-35
P90702	105	60S ribosomal protein L44	N/A	no	0.962	0.971	0.699	2e-35
P49213	99	60S ribosomal protein L44	N/A	no	0.896	0.959	0.773	3e-35
O59870	106	60S ribosomal protein L44	N/A	no	0.971	0.971	0.776	7e-35
P0CQ50	106	60S ribosomal protein L44	yes	no	0.971	0.971	0.776	9e-35
P0CQ51	106	60S ribosomal protein L44	N/A	no	0.971	0.971	0.776	9e-35

>sp|Q96499|RL44_GOSHI 60S ribosomal protein L44 OS=Gossypium hirsutum GN=RPL44 PE=3 SV=3

 Score =  206 bits (525), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 104/104 (100%), Positives = 104/104 (100%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Sbjct: 62  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 105

Gossypium hirsutum (taxid: 3635)

>sp|O23290|RL36A_ARATH 60S ribosomal protein L36a OS=Arabidopsis thaliana GN=RPL36AA PE=2 SV=3

 Score =  196 bits (498), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 97/104 (93%), Positives = 100/104 (96%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VN+PKTK TYCK+KEC+KHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNIPKTKNTYCKNKECKKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVLRLQCQ CKH SQ PIKRCKHFEIGGDKKGKGTSLF
Sbjct: 62  AKTTKKIVLRLQCQSCKHFSQRPIKRCKHFEIGGDKKGKGTSLF 105

Arabidopsis thaliana (taxid: 3702)

>sp|P27075|RL44_CANTR 60S ribosomal protein L44 OS=Candida tropicalis GN=RPL44 PE=3 SV=2

 Score =  154 bits (388), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 77/103 (74%), Positives = 87/103 (84%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VN+PKT+ TYCK K CRKHT+HKVTQYK G+ SL AQGKRRYDRKQSGYGGQTK VFHKK
Sbjct: 2   VNIPKTRNTYCKGKGCRKHTIHKVTQYKAGRASLFAQGKRRYDRKQSGYGGQTKQVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKKIVL+L+C  CK   Q P+KRCKH E+GG+KK KG +L
Sbjct: 62  AKTTKKIVLKLECTVCKTKKQLPLKRCKHIELGGEKKQKGQAL 104

Candida tropicalis (taxid: 5482)

>sp|P27074|RL44Q_CANMA 60S ribosomal protein L44 Q OS=Candida maltosa GN=RIM-C PE=3 SV=2

 Score =  154 bits (388), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 77/103 (74%), Positives = 87/103 (84%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VN+PKT+ TYCK K CRKHT+HKVTQYK G+ SL AQGKRRYDRKQSGYGGQTK VFHKK
Sbjct: 2   VNIPKTRNTYCKGKGCRKHTIHKVTQYKSGRASLFAQGKRRYDRKQSGYGGQTKQVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKKIVL+L+C  CK   Q P+KRCKH E+GG+KK KG +L
Sbjct: 62  AKTTKKIVLKLECTVCKTKKQLPLKRCKHIELGGEKKQKGQAL 104

Candida maltosa (taxid: 5479)

>sp|P48166|RL44_CAEEL 60S ribosomal protein L44 OS=Caenorhabditis elegans GN=rpl-41 PE=3 SV=2

 Score =  148 bits (373), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 74/103 (71%), Positives = 86/103 (83%), Gaps = 1/103 (0%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPK ++T+C  K CRKHT HKVTQYKKGK+S  AQG+RRYDRKQSG+GGQTKP+F KK
Sbjct: 2   VNVPKARRTFCDGK-CRKHTNHKVTQYKKGKESKFAQGRRRYDRKQSGFGGQTKPIFRKK 60

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKKIVLR++C  CKH  Q PIKRCKHFE+GG KK +G  +
Sbjct: 61  AKTTKKIVLRMECTECKHKKQLPIKRCKHFELGGQKKSRGQVI 103

Caenorhabditis elegans (taxid: 6239)

>sp|P90702|RL44_BRUMA 60S ribosomal protein L44 OS=Brugia malayi GN=rpl-44 PE=3 SV=3

 Score =  147 bits (371), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 72/103 (69%), Positives = 86/103 (83%), Gaps = 1/103 (0%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKT++T+C  K CR+HT+HKVTQYKKGK+S  AQG+RRYD KQ G+GGQTKP+F KK
Sbjct: 2   VNVPKTRRTFCDGK-CRRHTMHKVTQYKKGKESRLAQGRRRYDSKQKGFGGQTKPIFRKK 60

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKKIVLR++C  CKH  Q PIKRCKHFE+GG KK +G  +
Sbjct: 61  AKTTKKIVLRMECTECKHRKQLPIKRCKHFELGGQKKTRGQVI 103

Brugia malayi (taxid: 6279)

>sp|P49213|RL44_CHLRE 60S ribosomal protein L44 OS=Chlamydomonas reinhardtii GN=RPL44 PE=3 SV=2

 Score =  146 bits (369), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 75/97 (77%), Positives = 81/97 (83%), Gaps = 2/97 (2%)

Query: 3  VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
          VNVPKTK+ +CK   C+KH + KVTQYK GK SL AQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2  VNVPKTKRAFCKG--CKKHMMMKVTQYKTGKASLYAQGKRRYDRKQSGYGGQTKPVFHKK 59

Query: 63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKK 99
          AKTTKKIVLR+QCQ CK      +KRCKHFEIGGDKK
Sbjct: 60 AKTTKKIVLRMQCQECKQTCMKGLKRCKHFEIGGDKK 96

Chlamydomonas reinhardtii (taxid: 3055)

>sp|O59870|RL44_PHARH 60S ribosomal protein L44 OS=Phaffia rhodozyma GN=RPL44 PE=3 SV=3

 Score =  145 bits (366), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 80/103 (77%), Positives = 91/103 (88%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKT++TYCK K C+KHT HKVTQYKKGKDS+ AQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNVPKTRRTYCKGKACKKHTPHKVTQYKKGKDSIFAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKK+VLRL+C  CK+  Q  +KRCKHFE+GGDKK KG ++
Sbjct: 62  AKTTKKVVLRLECSVCKYKMQMTLKRCKHFELGGDKKTKGAAI 104

Phaffia rhodozyma (taxid: 5421)

>sp|P0CQ50|RL44_CRYNJ 60S ribosomal protein L44 OS=Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) GN=RPL44 PE=3 SV=1

 Score =  145 bits (365), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 80/103 (77%), Positives = 91/103 (88%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VN+PKT++TYCK K CRKHT HKVTQYKKGKDSL+AQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNIPKTRRTYCKGKACRKHTPHKVTQYKKGKDSLSAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKK+VLRL+C  CK   Q  +KRCKHFE+GGDKK +G ++
Sbjct: 62  AKTTKKVVLRLECTVCKTKHQLALKRCKHFELGGDKKQRGAAI 104

Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) (taxid: 214684)

>sp|P0CQ51|RL44_CRYNB 60S ribosomal protein L44 OS=Cryptococcus neoformans var. neoformans serotype D (strain B-3501A) GN=RPL44 PE=3 SV=1

 Score =  145 bits (365), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 80/103 (77%), Positives = 91/103 (88%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VN+PKT++TYCK K CRKHT HKVTQYKKGKDSL+AQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNIPKTRRTYCKGKACRKHTPHKVTQYKKGKDSLSAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKK+VLRL+C  CK   Q  +KRCKHFE+GGDKK +G ++
Sbjct: 62  AKTTKKVVLRLECTVCKTKHQLALKRCKHFELGGDKKQRGAAI 104

Cryptococcus neoformans var. neoformans serotype D (strain B-3501A) (taxid: 283643)

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	106
297737946	314	unnamed protein product [Vitis vinifera]	0.981	0.331	1.0	3e-54
297737944	109	unnamed protein product [Vitis vinifera]	1.0	0.972	0.981	4e-52
359473044	190	PREDICTED: 60S ribosomal protein L44-lik	1.0	0.557	0.981	5e-52
297736252	140	unnamed protein product [Vitis vinifera]	0.981	0.742	1.0	8e-52
225450117	105	PREDICTED: 60S ribosomal protein L44-lik	0.981	0.990	1.0	1e-51
255549179	104	60S ribosomal protein L44 [Ricinus commu	0.981	1.0	1.0	1e-51
170920	105	ribosomal protein L41 [Candida maltosa]	0.981	0.990	0.990	2e-51
356524874	105	PREDICTED: 60S ribosomal protein L44-lik	0.981	0.990	0.980	7e-51
351726920	105	uncharacterized protein LOC100305488 [Gl	0.981	0.990	0.971	1e-50
224094107	105	predicted protein [Populus trichocarpa]	0.981	0.990	0.971	2e-50

>gi|297737946|emb|CBI27147.3| unnamed protein product [Vitis vinifera]

 Score =  215 bits (547), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 104/104 (100%), Positives = 104/104 (100%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 211 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 270

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Sbjct: 271 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 314

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297737944|emb|CBI27145.3| unnamed protein product [Vitis vinifera]

 Score =  208 bits (529), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 104/106 (98%), Positives = 105/106 (99%)

Query: 1   MDVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFH 60
           + VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFH
Sbjct: 4   IQVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFH 63

Query: 61  KKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           KKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Sbjct: 64  KKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 109

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473044|ref|XP_002278803.2| PREDICTED: 60S ribosomal protein L44-like [Vitis vinifera]

 Score =  207 bits (528), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 104/106 (98%), Positives = 105/106 (99%)

Query: 1   MDVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFH 60
           + VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFH
Sbjct: 85  IKVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFH 144

Query: 61  KKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           KKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Sbjct: 145 KKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 190

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736252|emb|CBI24890.3| unnamed protein product [Vitis vinifera]

 Score =  207 bits (526), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 104/104 (100%), Positives = 104/104 (100%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 37  VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 96

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Sbjct: 97  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 140

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225450117|ref|XP_002278981.1| PREDICTED: 60S ribosomal protein L44-like [Vitis vinifera] gi|255543771|ref|XP_002512948.1| 60S ribosomal protein L44 [Ricinus communis] gi|449436355|ref|XP_004135958.1| PREDICTED: 60S ribosomal protein L44-like [Cucumis sativus] gi|449461677|ref|XP_004148568.1| PREDICTED: 60S ribosomal protein L44-like [Cucumis sativus] gi|449488799|ref|XP_004158175.1| PREDICTED: 60S ribosomal protein L44-like [Cucumis sativus] gi|449524246|ref|XP_004169134.1| PREDICTED: 60S ribosomal protein L44-like [Cucumis sativus] gi|2500380|sp|Q96499.3|RL44_GOSHI RecName: Full=60S ribosomal protein L44 gi|1553129|gb|AAB08726.1| ribosomal protein L44 isoform a [Gossypium hirsutum] gi|1553131|gb|AAB08727.1| ribosomal protein L44 isoform b [Gossypium hirsutum] gi|223547959|gb|EEF49451.1| 60S ribosomal protein L44 [Ricinus communis]

 Score =  206 bits (525), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 104/104 (100%), Positives = 104/104 (100%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Sbjct: 62  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 105

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255549179|ref|XP_002515644.1| 60S ribosomal protein L44 [Ricinus communis] gi|223545238|gb|EEF46746.1| 60S ribosomal protein L44 [Ricinus communis]

 Score =  206 bits (525), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 104/104 (100%), Positives = 104/104 (100%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 1   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 60

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Sbjct: 61  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 104

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|170920|gb|AAA34366.1| ribosomal protein L41 [Candida maltosa]

 Score =  205 bits (522), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 103/104 (99%), Positives = 104/104 (100%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKTKKTYCKSKEC+KHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNVPKTKKTYCKSKECKKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Sbjct: 62  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 105

Source: Candida maltosa

Species: Candida maltosa

Genus: Candida

Order: Saccharomycetales

Class: Saccharomycetes

Phylum: Ascomycota

Superkingdom: Eukaryota

>gi|356524874|ref|XP_003531053.1| PREDICTED: 60S ribosomal protein L44-like [Glycine max] gi|356525904|ref|XP_003531561.1| PREDICTED: 60S ribosomal protein L44-like [Glycine max] gi|356558594|ref|XP_003547589.1| PREDICTED: 60S ribosomal protein L44-like [Glycine max]

 Score =  204 bits (518), Expect = 7e-51,   Method: Compositional matrix adjust.
 Identities = 102/104 (98%), Positives = 103/104 (99%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDS+AAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSIAAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVLRLQCQGCKHVSQH IKRCKHFEIGGDKKGKGTSLF
Sbjct: 62  AKTTKKIVLRLQCQGCKHVSQHAIKRCKHFEIGGDKKGKGTSLF 105

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726920|ref|NP_001236119.1| uncharacterized protein LOC100305488 [Glycine max] gi|255625669|gb|ACU13179.1| unknown [Glycine max]

 Score =  202 bits (515), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 101/104 (97%), Positives = 103/104 (99%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKTKKTYCKS+ECRKHTLHKVTQYKKGKDS+AAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNVPKTKKTYCKSRECRKHTLHKVTQYKKGKDSIAAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVLRLQCQGCKHVSQH IKRCKHFEIGGDKKGKGTSLF
Sbjct: 62  AKTTKKIVLRLQCQGCKHVSQHAIKRCKHFEIGGDKKGKGTSLF 105

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224094107|ref|XP_002310076.1| predicted protein [Populus trichocarpa] gi|224113271|ref|XP_002316442.1| predicted protein [Populus trichocarpa] gi|118484797|gb|ABK94266.1| unknown [Populus trichocarpa] gi|118487919|gb|ABK95781.1| unknown [Populus trichocarpa] gi|222852979|gb|EEE90526.1| predicted protein [Populus trichocarpa] gi|222865482|gb|EEF02613.1| predicted protein [Populus trichocarpa]

 Score =  202 bits (515), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 101/104 (97%), Positives = 103/104 (99%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKTKKTYCK+KEC+KHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNVPKTKKTYCKNKECKKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVLRLQCQ CKHVSQHPIKRCKHFEIGGDKKGKGTSLF
Sbjct: 62  AKTTKKIVLRLQCQSCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 105

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	106
TAIR|locus:2090885	105	AT3G23390 [Arabidopsis thalian	0.981	0.990	0.932	1.2e-51
ASPGD|ASPL0000001539	106	AN6181 [Emericella nidulans (t	0.971	0.971	0.796	4e-42
UNIPROTKB|G4NBG4	106	MGG_00546 "60S ribosomal prote	0.971	0.971	0.776	3.6e-41
SGD|S000005106	106	RPL42A "Ribosomal 60S subunit	0.971	0.971	0.776	5.9e-41
SGD|S000001183	106	RPL42B "Ribosomal 60S subunit	0.971	0.971	0.776	5.9e-41
POMBASE|SPAC15E1.03	106	rpl42 "60S ribosomal protein L	0.971	0.971	0.728	1.2e-40
WB|WBGene00004454	105	rpl-41 [Caenorhabditis elegans	0.933	0.942	0.74	1.3e-38
ZFIN|ZDB-GENE-020423-1	106	rpl36a "ribosomal protein L36A	0.924	0.924	0.754	1.1e-37
UNIPROTKB|G3N2Y0	129	RPL36AL "Uncharacterized prote	0.924	0.759	0.745	8e-37
UNIPROTKB|Q3SZ59	106	RPL36A "60S ribosomal protein	0.924	0.924	0.745	8e-37

TAIR|locus:2090885 AT3G23390 [Arabidopsis thaliana (taxid:3702)]

 Score = 536 (193.7 bits), Expect = 1.2e-51, P = 1.2e-51
 Identities = 97/104 (93%), Positives = 100/104 (96%)

Query:     3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
             VN+PKTK TYCK+KEC+KHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct:     2 VNIPKTKNTYCKNKECKKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query:    63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
             AKTTKKIVLRLQCQ CKH SQ PIKRCKHFEIGGDKKGKGTSLF
Sbjct:    62 AKTTKKIVLRLQCQSCKHFSQRPIKRCKHFEIGGDKKGKGTSLF 105

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

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

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

ASPGD|ASPL0000001539 AN6181 [Emericella nidulans (taxid:162425)]

 Score = 446 (162.1 bits), Expect = 4.0e-42, P = 4.0e-42
 Identities = 82/103 (79%), Positives = 88/103 (85%)

Query:     3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
             VNVPKT+KTYCK KEC KHT HKVTQYK GK SL AQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct:     2 VNVPKTRKTYCKGKECHKHTQHKVTQYKAGKASLFAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query:    63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
             AKTTKK+VLRL+C  CK   Q  +KRCKHFE+GGDKK KG +L
Sbjct:    62 AKTTKKVVLRLECTQCKTKKQLALKRCKHFELGGDKKTKGAAL 104

GO:0005829 "cytosol" evidence=IEA

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|G4NBG4 MGG_00546 "60S ribosomal protein L44" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 437 (158.9 bits), Expect = 3.6e-41, P = 3.6e-41
 Identities = 80/103 (77%), Positives = 88/103 (85%)

Query:     3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
             VN+PKT++TYC  KEC+KHT H+VTQYK GK S  AQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct:     2 VNIPKTRRTYCAGKECKKHTNHRVTQYKAGKASSFAQGKRRYDRKQSGYGGQTKPVFHKK 61

Query:    63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
             AKTTKKIVLRL+C  CK   Q PIKRCKHFE+GGDKK KG +L
Sbjct:    62 AKTTKKIVLRLECTVCKTKCQLPIKRCKHFELGGDKKTKGAAL 104

GO:0043581 "mycelium development" evidence=IEP

SGD|S000005106 RPL42A "Ribosomal 60S subunit protein L42A" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 435 (158.2 bits), Expect = 5.9e-41, P = 5.9e-41
 Identities = 80/103 (77%), Positives = 89/103 (86%)

Query:     3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
             VNVPKT+KTYCK K CRKHT HKVTQYK GK SL AQGKRRYDRKQSG+GGQTKPVFHKK
Sbjct:     2 VNVPKTRKTYCKGKTCRKHTQHKVTQYKAGKASLFAQGKRRYDRKQSGFGGQTKPVFHKK 61

Query:    63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
             AKTTKK+VLRL+C  CK  +Q  +KRCKHFE+GG+KK KG +L
Sbjct:    62 AKTTKKVVLRLECVKCKTRAQLTLKRCKHFELGGEKKQKGQAL 104

GO:0005622 "intracellular" evidence=IEA

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

GO:0002181 "cytoplasmic translation" evidence=TAS

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

GO:0046898 "response to cycloheximide" evidence=IEA

GO:0046677 "response to antibiotic" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

SGD|S000001183 RPL42B "Ribosomal 60S subunit protein L42B" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 435 (158.2 bits), Expect = 5.9e-41, P = 5.9e-41
 Identities = 80/103 (77%), Positives = 89/103 (86%)

Query:     3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
             VNVPKT+KTYCK K CRKHT HKVTQYK GK SL AQGKRRYDRKQSG+GGQTKPVFHKK
Sbjct:     2 VNVPKTRKTYCKGKTCRKHTQHKVTQYKAGKASLFAQGKRRYDRKQSGFGGQTKPVFHKK 61

Query:    63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
             AKTTKK+VLRL+C  CK  +Q  +KRCKHFE+GG+KK KG +L
Sbjct:    62 AKTTKKVVLRLECVKCKTRAQLTLKRCKHFELGGEKKQKGQAL 104

GO:0002181 "cytoplasmic translation" evidence=TAS

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

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

GO:0046898 "response to cycloheximide" evidence=IEA

GO:0046677 "response to antibiotic" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

POMBASE|SPAC15E1.03 rpl42 "60S ribosomal protein L36/L42" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 432 (157.1 bits), Expect = 1.2e-40, P = 1.2e-40
 Identities = 75/103 (72%), Positives = 89/103 (86%)

Query:     3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
             VN+PKT+KTYC  K CRKHT+H+VTQYKKG DS  AQGKRRYDRKQSG+GGQTKPVFHKK
Sbjct:     2 VNIPKTRKTYCPGKNCRKHTVHRVTQYKKGPDSKLAQGKRRYDRKQSGFGGQTKPVFHKK 61

Query:    63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
             AK TKK+VLRL+C  CK+ +Q  +KRCKHFE+GG+KK KG ++
Sbjct:    62 AKVTKKVVLRLECVSCKYKNQLVLKRCKHFELGGEKKTKGAAI 104

GO:0002181 "cytoplasmic translation" evidence=NAS

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

GO:0005829 "cytosol" evidence=IDA

GO:0006412 "translation" evidence=ISO

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

WB|WBGene00004454 rpl-41 [Caenorhabditis elegans (taxid:6239)]

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 74/100 (74%), Positives = 85/100 (85%)

Query:     3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
             VNVPK ++T+C  K CRKHT HKVTQYKKGK+S  AQG+RRYDRKQSG+GGQTKP+F KK
Sbjct:     2 VNVPKARRTFCDGK-CRKHTNHKVTQYKKGKESKFAQGRRRYDRKQSGFGGQTKPIFRKK 60

Query:    63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKG 102
             AKTTKKIVLR++C  CKH  Q PIKRCKHFE+GG KK +G
Sbjct:    61 AKTTKKIVLRMECTECKHKKQLPIKRCKHFELGGQKKSRG 100

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

GO:0018996 "molting cycle, collagen and cuticulin-based cuticle" evidence=IMP

GO:0040018 "positive regulation of multicellular organism growth" evidence=IMP

ZFIN|ZDB-GENE-020423-1 rpl36a "ribosomal protein L36A" [Danio rerio (taxid:7955)]

 Score = 404 (147.3 bits), Expect = 1.1e-37, P = 1.1e-37
 Identities = 77/102 (75%), Positives = 85/102 (83%)

Query:     3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
             VNVPKT++TYCK  +C+KH  HKVTQYKKGKDSL AQGKRRYDRKQSGYGGQTKP+F KK
Sbjct:     2 VNVPKTRRTYCK--KCKKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQTKPIFRKK 59

Query:    63 AKTTKKIVLRLQC--QGCKHVSQHPIKRCKHFEIGGDKKGKG 102
             AKTTKKIVLRL+C    C+      IKRCKHFE+GGDKK KG
Sbjct:    60 AKTTKKIVLRLECVEPNCRSKRMLAIKRCKHFELGGDKKRKG 101

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0009790 "embryo development" evidence=IMP

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0051726 "regulation of cell cycle" evidence=IMP

UNIPROTKB|G3N2Y0 RPL36AL "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 396 (144.5 bits), Expect = 8.0e-37, P = 8.0e-37
 Identities = 76/102 (74%), Positives = 84/102 (82%)

Query:     3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
             VNVPKT++T+CK  +C KH  HKVTQYKKGKDSL AQGKRRYDRKQSGYGGQTKP+F KK
Sbjct:    25 VNVPKTRRTFCK--KCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQTKPIFRKK 82

Query:    63 AKTTKKIVLRLQC--QGCKHVSQHPIKRCKHFEIGGDKKGKG 102
             AKTTKKIVLRL+C    C+      IKRCKHFE+GGDKK KG
Sbjct:    83 AKTTKKIVLRLECVEPNCRSKRMLAIKRCKHFELGGDKKRKG 124

GO:0005840 "ribosome" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

UNIPROTKB|Q3SZ59 RPL36A "60S ribosomal protein L36a" [Bos taurus (taxid:9913)]

 Score = 396 (144.5 bits), Expect = 8.0e-37, P = 8.0e-37
 Identities = 76/102 (74%), Positives = 84/102 (82%)

Query:     3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
             VNVPKT++T+CK  +C KH  HKVTQYKKGKDSL AQGKRRYDRKQSGYGGQTKP+F KK
Sbjct:     2 VNVPKTRRTFCK--KCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQTKPIFRKK 59

Query:    63 AKTTKKIVLRLQC--QGCKHVSQHPIKRCKHFEIGGDKKGKG 102
             AKTTKKIVLRL+C    C+      IKRCKHFE+GGDKK KG
Sbjct:    60 AKTTKKIVLRLECVEPNCRSKRMLAIKRCKHFELGGDKKRKG 101

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P0CQ51	RL44_CRYNB	No assigned EC number	0.7766	0.9716	0.9716	N/A	no
P0CQ50	RL44_CRYNJ	No assigned EC number	0.7766	0.9716	0.9716	yes	no
B8D537	RL44E_DESK1	No assigned EC number	0.4242	0.8867	0.9126	yes	no
A9L948	RL36A_PAPAN	No assigned EC number	0.6761	0.9528	0.9528	N/A	no
Q9UWE4	RL44_COPCI	No assigned EC number	0.7669	0.9716	0.9716	N/A	no
Q8SR18	RL44_ENCCU	No assigned EC number	0.5631	0.9528	0.9711	yes	no
P83884	RL36A_PIG	No assigned EC number	0.7238	0.9528	0.9528	yes	no
P83883	RL36A_RAT	No assigned EC number	0.7238	0.9528	0.9528	yes	no
P83882	RL36A_MOUSE	No assigned EC number	0.7238	0.9528	0.9528	yes	no
P83881	RL36A_HUMAN	No assigned EC number	0.7238	0.9528	0.9528	no	no
Q9NB33	RL44_AEDTR	No assigned EC number	0.6699	0.9528	0.9711	N/A	no
Q9HIX1	RL44E_THEAC	No assigned EC number	0.4347	0.8490	0.9677	yes	no
P31866	RL44_PICGU	No assigned EC number	0.7766	0.9716	0.9716	N/A	no
Q6BLK0	RL44_DEBHA	No assigned EC number	0.7864	0.9716	0.9716	yes	no
O97231	RL44_PLAF7	No assigned EC number	0.6538	0.9716	0.9903	yes	no
Q3SZ59	RL36A_BOVIN	No assigned EC number	0.7238	0.9528	0.9528	yes	no
Q6CFS7	RL44_YARLI	No assigned EC number	0.7669	0.9716	0.9716	yes	no
P0CX27	RL44A_YEAST	No assigned EC number	0.7766	0.9716	0.9716	yes	no
D0VWQ4	RL36A_CANFA	No assigned EC number	0.7238	0.9528	0.9528	no	no
P17843	RL44_TRYBB	No assigned EC number	0.6494	0.9150	0.9150	N/A	no
Q5R9D2	RL36L_PONAB	No assigned EC number	0.7047	0.9528	0.9528	no	no
P61487	RL36A_ICTPU	No assigned EC number	0.7333	0.9528	0.9528	N/A	no
P61486	RL36A_TAKRU	No assigned EC number	0.7333	0.9528	0.9528	N/A	no
P61485	RL36A_DANRE	No assigned EC number	0.7333	0.9528	0.9528	yes	no
A8PCG3	RL44_COPC7	No assigned EC number	0.7669	0.9716	0.9716	N/A	no
P90702	RL44_BRUMA	No assigned EC number	0.6990	0.9622	0.9714	N/A	no
O23290	RL36A_ARATH	No assigned EC number	0.9326	0.9811	0.9904	yes	no
Q969Q0	RL36L_HUMAN	No assigned EC number	0.7142	0.9528	0.9528	no	no
Q754N8	RL44_ASHGO	No assigned EC number	0.7572	0.9716	0.9716	yes	no
Q9UVB8	RL44_WICCF	No assigned EC number	0.7961	0.9716	0.9716	N/A	no
Q00477	RL44P_CANMA	No assigned EC number	0.7766	0.9716	0.9716	N/A	no
P31028	RL44_SCHOC	No assigned EC number	0.7669	0.9716	0.9716	N/A	no
O59870	RL44_PHARH	No assigned EC number	0.7766	0.9716	0.9716	N/A	no
P49213	RL44_CHLRE	No assigned EC number	0.7731	0.8962	0.9595	N/A	no
P31027	RL44_KLULA	No assigned EC number	0.7572	0.9716	0.9716	yes	no
P48166	RL44_CAEEL	No assigned EC number	0.7184	0.9622	0.9714	yes	no
Q96499	RL44_GOSHI	No assigned EC number	1.0	0.9811	0.9904	N/A	no
P27075	RL44_CANTR	No assigned EC number	0.7475	0.9716	0.9716	N/A	no
P27076	RL44_KLUMA	No assigned EC number	0.7475	0.9716	0.9716	N/A	no
P0CX28	RL44B_YEAST	No assigned EC number	0.7766	0.9716	0.9716	yes	no
P52809	RL44_CYBJA	No assigned EC number	0.7961	0.9716	0.9716	N/A	no
Q9UTI8	RL44_SCHPO	No assigned EC number	0.7281	0.9716	0.9716	yes	no
P27074	RL44Q_CANMA	No assigned EC number	0.7475	0.9716	0.9716	N/A	no
Q4PNY0	RL44_CANGY	No assigned EC number	0.7766	0.9716	0.9716	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00030198001	SubName- Full=Chromosome chr1 scaffold_5, whole genome shotgun sequence; (151 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00017233001	RecName- Full=40S ribosomal protein S12; (140 aa)			•	•		•			0.796
	GSVIVG00023139001	SubName- Full=Chromosome chr8 scaffold_29, whole genome shotgun sequence; (136 aa)				•		•	•		0.793
	GSVIVG00031140001	SubName- Full=Chromosome chr14 scaffold_54, whole genome shotgun sequence; (234 aa)				•	•	•	•		0.792
	GSVIVG00018552001	SubName- Full=Chromosome chr13 scaffold_17, whole genome shotgun sequence; (155 aa)	•			•	•	•	•		0.777
	GSVIVG00029522001	SubName- Full=Chromosome chr13 scaffold_48, whole genome shotgun sequence; (129 aa)				•	•	•			0.763
	GSVIVG00026857001	RecName- Full=60S ribosomal protein L36; (110 aa)				•	•	•	•		0.763
	GSVIVG00016417001	SubName- Full=Chromosome chr11 scaffold_13, whole genome shotgun sequence; (83 aa)				•		•	•		0.744
	GSVIVG00019030001	SubName- Full=Chromosome chr15 scaffold_19, whole genome shotgun sequence; (103 aa)				•		•	•		0.743
	GSVIVG00024035001	SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (246 aa)			•	•		•	•		0.742
	GSVIVG00001285001	SubName- Full=Chromosome chr8 scaffold_115, whole genome shotgun sequence; (246 aa)			•	•		•	•		0.738

---

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	106
pfam00935	77	pfam00935, Ribosomal_L44, Ribosomal protein L44	5e-31
PTZ00157	84	PTZ00157, PTZ00157, 60S ribosomal protein L36a; Pr	2e-30
COG1631	94	COG1631, RPL42A, Ribosomal protein L44E [Translati	9e-27
PRK05767	92	PRK05767, rpl44e, 50S ribosomal protein L44e; Vali	6e-17

>gnl|CDD|144512 pfam00935, Ribosomal_L44, Ribosomal protein L44

 Score =  104 bits (261), Expect = 5e-31
 Identities = 57/77 (74%), Positives = 59/77 (76%)

Query: 20 KHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCK 79
          KHT HKV QYKKGK SL AQGKRRYDRKQ GYGGQTKPV  KKAK TKKIVLRL+C  CK
Sbjct: 1  KHTEHKVEQYKKGKASLLAQGKRRYDRKQKGYGGQTKPVPGKKAKPTKKIVLRLRCTECK 60

Query: 80 HVSQHPIKRCKHFEIGG 96
             Q P KRCK FE+  
Sbjct: 61 KAHQRPGKRCKKFELVE 77

Length = 77

>gnl|CDD|240296 PTZ00157, PTZ00157, 60S ribosomal protein L36a; Provisional

 Score =  103 bits (258), Expect = 2e-30
 Identities = 63/85 (74%), Positives = 71/85 (83%), Gaps = 2/85 (2%)

Query: 3  VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
          VNVPK +KTYCK  +C KHT HKV+QYKKGK+SL AQGKRRYDRKQSGYGGQTKP+F KK
Sbjct: 2  VNVPKNRKTYCK--KCGKHTSHKVSQYKKGKESLFAQGKRRYDRKQSGYGGQTKPIFRKK 59

Query: 63 AKTTKKIVLRLQCQGCKHVSQHPIK 87
          AKTTKKIVL+L+C  CK   Q  +K
Sbjct: 60 AKTTKKIVLKLECTKCKSKRQKVLK 84

Length = 84

>gnl|CDD|224546 COG1631, RPL42A, Ribosomal protein L44E [Translation, ribosomal structure and biogenesis]

 Score = 94.0 bits (234), Expect = 9e-27
 Identities = 50/95 (52%), Positives = 62/95 (65%), Gaps = 3/95 (3%)

Query: 3  VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
          + +PK ++TYC    C+KHT+HKV + KKGK S  A G+RRY RKQSGYGGQ +PV   K
Sbjct: 1  MKIPKKRRTYCPY--CKKHTIHKVERVKKGKASELAWGQRRYRRKQSGYGGQPRPVPKGK 58

Query: 63 AKTTKKIVLRLQCQGCKHVSQ-HPIKRCKHFEIGG 96
          AK TKK+ LRL+C  C    Q  P  R K FE+  
Sbjct: 59 AKPTKKVDLRLRCTECGKAHQRTPGFRAKRFELVE 93

Length = 94

>gnl|CDD|180247 PRK05767, rpl44e, 50S ribosomal protein L44e; Validated

 Score = 69.2 bits (170), Expect = 6e-17
 Identities = 39/91 (42%), Positives = 50/91 (54%), Gaps = 3/91 (3%)

Query: 4  NVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKA 63
           +PK  +TYC    C+ HT H+V + KKGK S    G+R+Y RK  GYGG+  PV    A
Sbjct: 2  KMPKKIRTYCPY--CKTHTEHEVEKVKKGKRSELKWGQRQYRRKTIGYGGKFSPVP-GGA 58

Query: 64 KTTKKIVLRLQCQGCKHVSQHPIKRCKHFEI 94
          K TKK+ LR +C  C         R K FE+
Sbjct: 59 KPTKKVDLRYRCTECGKAHTREGFRAKKFEL 89

Length = 92

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	106
KOG3464	106	consensus 60S ribosomal protein L44 [Translation,	100.0
PRK05767	92	rpl44e 50S ribosomal protein L44e; Validated	100.0
PTZ00157	84	60S ribosomal protein L36a; Provisional	100.0
COG1631	94	RPL42A Ribosomal protein L44E [Translation, riboso	100.0
PF00935	77	Ribosomal_L44: Ribosomal protein L44; InterPro: IP	100.0
PRK00504	50	rpmG 50S ribosomal protein L33; Validated	94.35
PF00471	48	Ribosomal_L33: Ribosomal protein L33; InterPro: IP	93.77
CHL00104	66	rpl33 ribosomal protein L33	93.53
TIGR01023	54	rpmG_bact ribosomal protein L33, bacterial type. T	93.31
PRK00595	53	rpmG 50S ribosomal protein L33; Validated	93.15
COG0267	50	RpmG Ribosomal protein L33 [Translation, ribosomal	93.13

>KOG3464 consensus 60S ribosomal protein L44 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.5e-53  Score=300.44  Aligned_cols=103  Identities=78%  Similarity=1.206  Sum_probs=100.5

Q ss_pred             ccccCceeeeeccCCCCCCccceEEEEeecCccchhhccceeeeccccCCCCcccceecCCCCccceeEEEEEec--CCC
Q 034006            2 DVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQ--GCK   79 (106)
Q Consensus         2 mv~vPK~~~tyC~~~~C~kHt~HkVtqyKkGK~s~~aqG~Rrydrkq~GygGq~kpi~~k~aKtTKKi~Lrl~C~--~C~   79 (106)
                      |||||++++|||  ++|++||+|+|+||++|++|++|||+|||||+|+||||||+|||+++|||||||||||||.  +|.
T Consensus         1 mvnvpkT~~tfc--~kc~kh~~hkVtq~k~gk~s~~aQgkr~YdrkqsGygGQTKpIf~KkaKtTKKiVlrLec~e~~Ck   78 (106)
T KOG3464|consen    1 MVNVPKTRKTFC--KKCGKHTAHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQTKPIFRKKAKTTKKIVLRLECCEPKCK   78 (106)
T ss_pred             CCccCCCCcchh--hhhcccchhhhhhhhhcccchHhhcCcccccccCCCCccccHHHHHHhhhhhhheeeeeeeccccc
Confidence            899999999999  8999999999999999999999999999999999999999999999999999999999964  699


Q ss_pred             ceeeecceeeeeeEEeeeeccCCccCC
Q 034006           80 HVSQHPIKRCKHFEIGGDKKGKGTSLF  106 (106)
Q Consensus        80 ~~~~~~~kR~KkfEl~~~kk~kg~~~~  106 (106)
                      +++|++|+||+|||||||++++|++|+
T Consensus        79 sk~~l~iKrcKhfelGg~kk~kg~~iq  105 (106)
T KOG3464|consen   79 SKRQLAIKRCKHFELGGDKKRKGQAIQ  105 (106)
T ss_pred             chhhhhhhhhceeeecCcccccccccc
Confidence            999999999999999999999999984

>PRK05767 rpl44e 50S ribosomal protein L44e; Validated

Probab=100.00  E-value=8.1e-52  Score=288.11  Aligned_cols=91  Identities=43%  Similarity=0.706  Sum_probs=89.9

Q ss_pred             cccCceeeeeccCCCCCCccceEEEEeecCccchhhccceeeeccccCCCCcccceecCCCCccceeEEEEEecCCCcee
Q 034006            3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVS   82 (106)
Q Consensus         3 v~vPK~~~tyC~~~~C~kHt~HkVtqyKkGK~s~~aqG~Rrydrkq~GygGq~kpi~~k~aKtTKKi~Lrl~C~~C~~~~   82 (106)
                      ||||++++|||  |+|++||+|+|||||+|++|++|||+|||||+|+|||||++|||+ +|||||||||+|+|++|++++
T Consensus         1 m~~PK~~~tyC--p~CkkHt~HkV~qyKkGK~s~~a~G~Rry~Rkq~GygGq~kpv~~-~aK~TKKi~Lr~~C~~C~~~~   77 (92)
T PRK05767          1 MKMPKKIRTYC--PYCKTHTEHEVEKVKKGKRSELKWGQRQYRRKTIGYGGKFSPVPG-GAKPTKKVDLRYRCTECGKAH   77 (92)
T ss_pred             CCCCccccccC--cCCCCcccEEEEEEecCCcChhHHhhhHHHhhccccCCcCCcccC-CCccceeEEEEEEecccChhh
Confidence            89999999999  999999999999999999999999999999999999999999997 999999999999999999999


Q ss_pred             eecceeeeeeEEee
Q 034006           83 QHPIKRCKHFEIGG   96 (106)
Q Consensus        83 ~~~~kR~KkfEl~~   96 (106)
                      +++++||++|||++
T Consensus        78 ~~~~~R~k~fEl~e   91 (92)
T PRK05767         78 TREGFRAKKFELVE   91 (92)
T ss_pred             ccccceeeeEEEec
Confidence            99999999999986

>PTZ00157 60S ribosomal protein L36a; Provisional

Probab=100.00  E-value=2e-48  Score=267.44  Aligned_cols=84  Identities=75%  Similarity=1.174  Sum_probs=82.4

Q ss_pred             ccccCceeeeeccCCCCCCccceEEEEeecCccchhhccceeeeccccCCCCcccceecCCCCccceeEEEEEecCCCce
Q 034006            2 DVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHV   81 (106)
Q Consensus         2 mv~vPK~~~tyC~~~~C~kHt~HkVtqyKkGK~s~~aqG~Rrydrkq~GygGq~kpi~~k~aKtTKKi~Lrl~C~~C~~~   81 (106)
                      |||||++++|||  |+|++||+|+|||||+|++|++|||+|||||+|+|||||++|||+++|||||||||+|+|++|+++
T Consensus         1 mv~~PK~~~tyC--~~C~kHt~HkV~qyKkGK~s~~aqG~Rry~Rkq~GygGq~kpv~~~kaK~TKKi~Lrl~C~~C~~~   78 (84)
T PTZ00157          1 MVNVPKNRKTYC--KKCGKHTSHKVSQYKKGKESLFAQGKRRYDRKQSGYGGQTKPIFRKKAKTTKKIVLKLECTKCKSK   78 (84)
T ss_pred             CCcccccccccC--cCCCCCccEEEEEeccCCcChhHHhhhhhhhhccCcCCcCccccCccccccceeEEEEEecccCce
Confidence            999999999999  999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeecce
Q 034006           82 SQHPIK   87 (106)
Q Consensus        82 ~~~~~k   87 (106)
                      ++++++
T Consensus        79 ~~~~~k   84 (84)
T PTZ00157         79 RQKVLK   84 (84)
T ss_pred             eEeccC
Confidence            999874

>COG1631 RPL42A Ribosomal protein L44E [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.5e-47  Score=266.17  Aligned_cols=93  Identities=54%  Similarity=0.900  Sum_probs=90.9

Q ss_pred             cccCceeeeeccCCCCCCccceEEEEeecCccchhhccceeeeccccCCCCcccceecCCCCccceeEEEEEecCCCcee
Q 034006            3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVS   82 (106)
Q Consensus         3 v~vPK~~~tyC~~~~C~kHt~HkVtqyKkGK~s~~aqG~Rrydrkq~GygGq~kpi~~k~aKtTKKi~Lrl~C~~C~~~~   82 (106)
                      |||||+++|||  |+|++||.|+|++|++|++|++|||+|||+|+|+|||||++|+|.++||+||+|||+|+|++||++|
T Consensus         1 mkiPK~~~tyC--p~CkkhT~H~V~~~kkgk~s~l~~gqRr~~R~~~GyGg~~rp~p~g~~KptKKv~Lr~~Ct~Cgkah   78 (94)
T COG1631           1 MKIPKKRRTYC--PYCKKHTIHKVERVKKGKASELAWGQRRYRRKQSGYGGQPRPVPKGKAKPTKKVDLRLRCTECGKAH   78 (94)
T ss_pred             CCCCcceeecC--cccccceeeeeeehhcCCcchhhHHHHHHHHHhcccCCcCCcccCccCCccceEEEEEEehhhcccc
Confidence            89999999999  9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ee-cceeeeeeEEeee
Q 034006           83 QH-PIKRCKHFEIGGD   97 (106)
Q Consensus        83 ~~-~~kR~KkfEl~~~   97 (106)
                      ++ +++|+++|||++.
T Consensus        79 ~~~~~~Rakr~Elve~   94 (94)
T COG1631          79 QRTPGFRAKRFELVEE   94 (94)
T ss_pred             ccCcceeeeeEEEecC
Confidence            99 5999999999874

>PF00935 Ribosomal_L44: Ribosomal protein L44; InterPro: IPR000552 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=3.2e-42  Score=233.29  Aligned_cols=77  Identities=73%  Similarity=1.091  Sum_probs=62.2

Q ss_pred             CccceEEEEeecCccchhhccceeeeccccCCCCcccceecCCCCccceeEEEEEecCCCceeeecceeeeeeEEee
Q 034006           20 KHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGG   96 (106)
Q Consensus        20 kHt~HkVtqyKkGK~s~~aqG~Rrydrkq~GygGq~kpi~~k~aKtTKKi~Lrl~C~~C~~~~~~~~kR~KkfEl~~   96 (106)
                      +||+|+|+||++|++|++|||+|||||+|+|||||++|||+++|||||||||+|+|++|+++++++++||++|||+.
T Consensus         1 kHt~HkV~~yKkgK~s~~a~G~Rry~Rk~~GygGq~kp~~~~kaK~TKKi~Lrl~C~~C~~~~~~~~~R~kkfEl~E   77 (77)
T PF00935_consen    1 KHTEHKVSQYKKGKASPLAQGKRRYDRKQKGYGGQTKPVFRKKAKTTKKIVLRLECTECGKAHMRPGKRCKKFELVE   77 (77)
T ss_dssp             EEEEEEEEE---S--SSTSHHHHHHHHTSSSSSSCCSSS-S----SSEBBEEEEEETTTS-EEEEE-BBESS-EEC-
T ss_pred             CCcceEEEEeccCCcChHHHhhhhhhhhccccCCccccccccCCcccccEEEEEEeCCCCcccccccceeEEEEecC
Confidence            59999999999999999999999999999999999999999999999999999999999999999999999999974

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 archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families consists of mammalian [], Trypanosoma brucei, Caenorhabditis elegans and fungal L44, and Haloarcula marismortui LA [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZS_r 1S1I_Z 3O5H_f 3O58_f 3IZR_r 1M1K_4 3CCQ_3 3CCL_3 3CME_3 1K73_4 ....

>PRK00504 rpmG 50S ribosomal protein L33; Validated

Probab=94.35  E-value=0.024  Score=35.72  Aligned_cols=17  Identities=53%  Similarity=1.024  Sum_probs=14.7

Q ss_pred             eeeeeccCCCCCCccceEE
Q 034006            8 TKKTYCKSKECRKHTLHKV   26 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~HkV   26 (106)
                      +.+-||  |.|++||.|+=
T Consensus        32 elkKyc--p~c~khtlhkE   48 (50)
T PRK00504         32 ELKKFC--PRCNKHTLHKE   48 (50)
T ss_pred             EEECcC--CCCCCeEeeee
Confidence            467899  99999999973

>PF00471 Ribosomal_L33: Ribosomal protein L33; InterPro: IPR001705 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=93.77  E-value=0.045  Score=34.03  Aligned_cols=16  Identities=69%  Similarity=1.275  Sum_probs=14.3

Q ss_pred             eeeeeccCCCCCCccceE
Q 034006            8 TKKTYCKSKECRKHTLHK   25 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~Hk   25 (106)
                      +.+-||  |.|++||.|+
T Consensus        30 ~lkKyc--p~~~khtlhk   45 (48)
T PF00471_consen   30 ELKKYC--PRCRKHTLHK   45 (48)
T ss_dssp             EEEEEE--TSSSSEEEEE
T ss_pred             eEeccC--CCCCCEecEE
Confidence            467899  9999999996

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L33 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L33 has been shown to be on the surface of 50S subunit. L33 belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, , ], groups: Eubacterial L33. Algal and plant chloroplast L33. Cyanelle L33. L33 is a small protein of 49 to 66 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3PIO_1 3PIP_1 3PYT_3 3MS1_3 3F1F_6 3F1H_6 3MRZ_3 3PYO_3 3D5B_6 3D5D_6 ....

>CHL00104 rpl33 ribosomal protein L33

Probab=93.53  E-value=0.04  Score=36.52  Aligned_cols=17  Identities=47%  Similarity=0.899  Sum_probs=14.7

Q ss_pred             eeeeeccCCCCCCccceEE
Q 034006            8 TKKTYCKSKECRKHTLHKV   26 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~HkV   26 (106)
                      +.+-||  |.|++||.|+=
T Consensus        47 elkKyc--p~c~kHtlhkE   63 (66)
T CHL00104         47 ELKKFC--PYCYKHTIHKE   63 (66)
T ss_pred             EEECcC--CCCCCEeeEee
Confidence            467899  99999999974

>TIGR01023 rpmG_bact ribosomal protein L33, bacterial type

Probab=93.31  E-value=0.048  Score=34.70  Aligned_cols=17  Identities=53%  Similarity=1.060  Sum_probs=14.9

Q ss_pred             eeeeeccCCCCCCccceEE
Q 034006            8 TKKTYCKSKECRKHTLHKV   26 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~HkV   26 (106)
                      +.+-||  |.|++|+.|+-
T Consensus        36 ~lkKyc--p~~~khtlhkE   52 (54)
T TIGR01023        36 ELRKYC--PVCRKHVLHKE   52 (54)
T ss_pred             EEECcC--CCCCCeEeEEe
Confidence            567899  99999999974

This model describes bacterial ribosomal protein L33 and its chloroplast and mitochondrial equivalents.

>PRK00595 rpmG 50S ribosomal protein L33; Validated

Probab=93.15  E-value=0.052  Score=34.31  Aligned_cols=17  Identities=47%  Similarity=0.528  Sum_probs=14.7

Q ss_pred             eeeeeccCCCCCCccceEE
Q 034006            8 TKKTYCKSKECRKHTLHKV   26 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~HkV   26 (106)
                      +.+-||  |.|++||.|+=
T Consensus        35 ~lkKyc--p~~~khtlhkE   51 (53)
T PRK00595         35 ELKKYD--PVLRKHVLHKE   51 (53)
T ss_pred             EEECcC--CCCCCEEeEEe
Confidence            457899  99999999974

>COG0267 RpmG Ribosomal protein L33 [Translation, ribosomal structure and biogenesis]

Probab=93.13  E-value=0.051  Score=34.45  Aligned_cols=17  Identities=65%  Similarity=1.118  Sum_probs=14.7

Q ss_pred             eeeeeccCCCCCCccceEE
Q 034006            8 TKKTYCKSKECRKHTLHKV   26 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~HkV   26 (106)
                      +.+-||  |.|++||.|+=
T Consensus        32 elkKyc--p~~~khtlhkE   48 (50)
T COG0267          32 ELKKYC--PVCRKHTLHKE   48 (50)
T ss_pred             EEEecC--cccccEEEEee
Confidence            467899  99999999973

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	106
3izr_r	105	Localization Of The Large Subunit Ribosomal Protein		5e-52
2zkr_4	106	Structure Of A Mammalian Ribosomal 60s Subunit With		8e-35
3izs_r	106	Localization Of The Large Subunit Ribosomal Protein		2e-34
1s1i_Z	105	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		2e-34
3j0l_F	95	Core Of Mammalian 80s Pre-Ribosome In Complex With		4e-32
3jyw_Z	92	Structure Of The 60s Proteins For Eukaryotic Riboso		2e-30
3zf7_t	106	High-resolution Cryo-electron Microscopy Structure		8e-30
4a18_C	109	T.Thermophila 60s Ribosomal Subunit In Complex With		5e-21
3j21_j	94	Promiscuous Behavior Of Proteins In Archaeal Riboso		1e-08

>pdb|3IZR|RR Chain r, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 105

Iteration: 1
 Score =  199 bits (505), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 99/104 (95%), Positives = 102/104 (98%)
Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKTKKTYCK+KECRKHTLHKVTQYKKGKDSL+AQGKRRYDRKQSGYGGQTKPVFHKK
Sbjct: 2   VNVPKTKKTYCKNKECRKHTLHKVTQYKKGKDSLSAQGKRRYDRKQSGYGGQTKPVFHKK 61
Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSLF 106
           AKTTKKIVL+LQCQ CKH SQHPIKRCKHFEIGGDKKGKGTSLF
Sbjct: 62  AKTTKKIVLKLQCQSCKHYSQHPIKRCKHFEIGGDKKGKGTSLF 105

>pdb|2ZKR|4 Chain 4, 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 = 106

Iteration: 1
 Score =  141 bits (356), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 76/105 (72%), Positives = 85/105 (80%), Gaps = 4/105 (3%)
Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKT++T+CK  +C KH  HKVTQYKKGKDSL AQGKRRYDRKQSGYGGQTKP+F KK
Sbjct: 2   VNVPKTRRTFCK--KCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQTKPIFRKK 59
Query: 63  AKTTKKIVLRLQC--QGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKKIVLRL+C    C+      IKRCKHFE+GGDKK KG  +
Sbjct: 60  AKTTKKIVLRLECVEPNCRSKRMLAIKRCKHFELGGDKKRKGQVI 104

>pdb|3IZS|RR Chain r, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 106

Iteration: 1
 Score =  140 bits (353), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 80/103 (77%), Positives = 89/103 (86%)
Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKT+KTYCK K CRKHT HKVTQYK GK SL AQGKRRYDRKQSG+GGQTKPVFHKK
Sbjct: 2   VNVPKTRKTYCKGKTCRKHTQHKVTQYKAGKASLFAQGKRRYDRKQSGFGGQTKPVFHKK 61
Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKK+VLRL+C  CK  +Q  +KRCKHFE+GG+KK KG +L
Sbjct: 62  AKTTKKVVLRLECVKCKTRAQLTLKRCKHFELGGEKKQKGQAL 104

>pdb|1S1I|Z Chain Z, 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 = 105

Iteration: 1
 Score =  140 bits (352), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 80/103 (77%), Positives = 89/103 (86%)
Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           VNVPKT+KTYCK K CRKHT HKVTQYK GK SL AQGKRRYDRKQSG+GGQTKPVFHKK
Sbjct: 1   VNVPKTRKTYCKGKTCRKHTQHKVTQYKAGKASLFAQGKRRYDRKQSGFGGQTKPVFHKK 60
Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKK+VLRL+C  CK  +Q  +KRCKHFE+GG+KK KG +L
Sbjct: 61  AKTTKKVVLRLECVKCKTRAQLTLKRCKHFELGGEKKQKGQAL 103

>pdb|3J0L|F Chain F, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas Fitted To A 9.8a Cryo-Em Map: Classic Pre State 1 Length = 95

Iteration: 1
 Score =  132 bits (333), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 75/95 (78%), Positives = 83/95 (87%)
Query: 3  VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
          VNVPKT+KTYCK K CRKHT HKVTQYK GK SL AQGKRRYDRKQSG+GGQTKPVFHKK
Sbjct: 1  VNVPKTRKTYCKGKTCRKHTQHKVTQYKAGKASLFAQGKRRYDRKQSGFGGQTKPVFHKK 60
Query: 63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGD 97
          AKTTKK+VLRL+C  CK  +Q  +KRCKHFE+GG+
Sbjct: 61 AKTTKKVVLRLECVKCKTRAQLTLKRCKHFELGGE 95

>pdb|3JYW|Z Chain Z, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 92

Iteration: 1
 Score =  127 bits (319), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 73/92 (79%), Positives = 80/92 (86%)
Query: 3  VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
          VNVPKT+KTYCK K CRKHT HKVTQYK GK SL AQGKRRYDRKQSG+GGQTKPVFHKK
Sbjct: 1  VNVPKTRKTYCKGKTCRKHTQHKVTQYKAGKASLFAQGKRRYDRKQSGFGGQTKPVFHKK 60
Query: 63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEI 94
          AKTTKK+VLRL+C  CK  +Q  +KRCKHFE+
Sbjct: 61 AKTTKKVVLRLECVKCKTRAQLTLKRCKHFEL 92

>pdb|3ZF7|TT Chain t, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 106

Iteration: 1
 Score =  125 bits (313), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 63/97 (64%), Positives = 72/97 (74%)
Query: 3  VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
          VN PK KK +C  + C  H   KV QYK GK  L A+GKRRYDRKQSGYGGQTKP+FHKK
Sbjct: 2  VNYPKKKKMHCPDERCNAHKSFKVVQYKAGKARLYARGKRRYDRKQSGYGGQTKPIFHKK 61
Query: 63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKK 99
          AKTTKKIVL+LQC  CK + Q+ +KR KHFE+   KK
Sbjct: 62 AKTTKKIVLKLQCSNCKSIIQNVLKRTKHFELNDKKK 98

>pdb|4A18|C Chain C, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 1 Length = 109

Iteration: 1
 Score = 95.9 bits (237), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 58/88 (65%), Positives = 67/88 (76%), Gaps = 2/88 (2%)
Query: 3  VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
          V VPKT+KTYCK  +C  HT HKV+QYKK K+S  AQG+RRYD KQSG+GGQTKP+F KK
Sbjct: 2  VQVPKTRKTYCK--KCNSHTNHKVSQYKKSKESTHAQGRRRYDMKQSGFGGQTKPIFRKK 59
Query: 63 AKTTKKIVLRLQCQGCKHVSQHPIKRCK 90
          AKTTKK+ L+  C  CK     PIKRCK
Sbjct: 60 AKTTKKVALKFDCTTCKTKRVIPIKRCK 87

>pdb|3J21|JJ Chain j, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Proteins) Length = 94

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/76 (40%), Positives = 43/76 (56%), Gaps = 2/76 (2%)
Query: 3  VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
          +  PK  +TYC    C+KHT+HKV + KK   S  + G+RR+ R   GYGG  +P    +
Sbjct: 1  MKYPKQIRTYCPF--CKKHTIHKVERVKKRPRSELSAGQRRFRRILKGYGGFPRPKPEGR 58
Query: 63 AKTTKKIVLRLQCQGC 78
           K  KK+ LR +C  C
Sbjct: 59 EKPVKKLDLRFRCTEC 74

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	106
3iz5_R	188	60S ribosomal protein L18 (L18E); eukaryotic ribos	5e-34
4a18_C	109	60S ribosomal protein L36A; ribosome, eukaryotic i	4e-31
1vq8_3	92	50S ribosomal protein L44E; ribosome 50S, protein-	5e-29

>4a18_C 60S ribosomal protein L36A; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_C 4a1b_C 4a1d_C Length = 109

 Score =  105 bits (262), Expect = 4e-31
 Identities = 59/103 (57%), Positives = 69/103 (66%), Gaps = 2/103 (1%)

Query: 3   VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
           V VPKT+KTYCK   C  HT HKV+QYKK K+S  AQG+RRYD KQSG+GGQTKP+F KK
Sbjct: 2   VQVPKTRKTYCKK--CNSHTNHKVSQYKKSKESTHAQGRRRYDMKQSGFGGQTKPIFRKK 59

Query: 63  AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEIGGDKKGKGTSL 105
           AKTTKK+ L+  C  CK     PIKRCK        + K   +
Sbjct: 60  AKTTKKVALKFDCTTCKTKRVIPIKRCKTIVFMDITQIKKAKV 102

>1vq8_3 50S ribosomal protein L44E; 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.41.8.3 PDB: 1jj2_2 1k73_4* 1k8a_4* 1k9m_4* 1kc8_4* 1kd1_4* 1kqs_2* 1m1k_4* 1m90_4* 1n8r_4* 1nji_4* 1q7y_4* 1q81_4* 1q82_4* 1q86_4* 1qvf_2 1qvg_2 1s72_3* 1vq4_3* 1vq5_3* ... Length = 92

 Score = 99.1 bits (247), Expect = 5e-29
 Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 2/92 (2%)

Query: 3  VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKK 62
          + +P+   TYC    C +H  H+V + + G+ +      R+ +R                
Sbjct: 1  MQMPRRFNTYCPH--CNEHQEHEVEKVRSGRQTGMKWIDRQRERNSGIGNDGKFSKVPGG 58

Query: 63 AKTTKKIVLRLQCQGCKHVSQHPIKRCKHFEI 94
           K TKK  L+ +C  C         R    E 
Sbjct: 59 DKPTKKTDLKYRCGECGKAHLREGWRAGRLEF 90

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	106
3iz5_r	105	60S ribosomal protein L42 (L44E); eukaryotic ribos	100.0
4a18_C	109	60S ribosomal protein L36A; ribosome, eukaryotic i	100.0
1vq8_3	92	50S ribosomal protein L44E; ribosome 50S, protein-	100.0
3j21_j	94	50S ribosomal protein L44E; archaea, archaeal, KIN	100.0
3v2d_6	54	50S ribosomal protein L33; ribosome associated inh	94.67
3r8s_1	50	50S ribosomal protein L33; protein biosynthesis, R	94.04
2zjr_1	55	50S ribosomal protein L33; ribosome, large ribosom	94.03
2ftc_P	52	Mitochondrial ribosomal protein L33 isoform A, mit	93.71
3bbo_3	66	Ribosomal protein L33; large ribosomal subunit, sp	93.27

>4a18_C 60S ribosomal protein L36A; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_C 4a1b_C 4a1d_C

Probab=100.00  E-value=4.4e-55  Score=311.09  Aligned_cols=99  Identities=60%  Similarity=0.943  Sum_probs=96.4

Q ss_pred             ccccCceeeeeccCCCCCCccceEEEEeecCccchhhccceeeeccccCCCCcccceecCCCCccceeEEEEEecCCCce
Q 034006            2 DVNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHV   81 (106)
Q Consensus         2 mv~vPK~~~tyC~~~~C~kHt~HkVtqyKkGK~s~~aqG~Rrydrkq~GygGq~kpi~~k~aKtTKKi~Lrl~C~~C~~~   81 (106)
                      |||||++++|||  |+|++||+|+||||++|++|++|||+|||||+|+||||||+|||+++|||||||||+|+|++|+++
T Consensus         1 mv~vPK~~~tyC--pkC~kHt~HkVtqyKkGK~s~~aqGkRrydRkq~GyGGq~kpi~~~kaKtTKKivLrl~C~eC~~~   78 (109)
T 4a18_C            1 MVQVPKTRKTYC--KKCNSHTNHKVSQYKKSKESTHAQGRRRYDMKQSGFGGQTKPIFRKKAKTTKKVALKFDCTTCKTK   78 (109)
T ss_dssp             -CEEESEEEEEE--TTTTEEEEEEEEECCCCCCCTTSHHHHHHHHHHSSSSSCCSCCCCCCCCSCCCCEEEEEETTTCCE
T ss_pred             CCCCCcceeecC--cCCCCCcceEEEEeecccccchhhchhhhhhhcCCcCCccCCcccCCCcccceEEEEEEecccCcc
Confidence            999999999999  999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeecceeeeeeEEeeeeccCC
Q 034006           82 SQHPIKRCKHFEIGGDKKGKG  102 (106)
Q Consensus        82 ~~~~~kR~KkfEl~~~kk~kg  102 (106)
                      +|++++||++|||++|+|++.
T Consensus        79 ~~~~~kR~K~fEl~~~kk~~~   99 (109)
T 4a18_C           79 RVIPIKRCKTIVFMDITQIKK   99 (109)
T ss_dssp             EEEECCCCSCCEEECHHHHHH
T ss_pred             cccccceeeeEEEccccchhh
Confidence            999999999999999998763

>1vq8_3 50S ribosomal protein L44E; 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.41.8.3 PDB: 1jj2_2 1k73_4* 1k8a_4* 1k9m_4* 1kc8_4* 1kd1_4* 1kqs_2* 1m1k_4* 1m90_4* 1n8r_4* 1nji_4* 1q7y_4* 1q81_4* 1q82_4* 1q86_4* 1qvf_2 1qvg_2 1s72_3* 1vq4_3* 1vq5_3* ...

Probab=100.00  E-value=3.8e-52  Score=288.76  Aligned_cols=91  Identities=25%  Similarity=0.428  Sum_probs=89.4

Q ss_pred             cccCceeeeeccCCCCCCccceEEEEeecCccchhhccceeeec-cccCCCCcccceecCCCCccceeEEEEEecCCCce
Q 034006            3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDR-KQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHV   81 (106)
Q Consensus         3 v~vPK~~~tyC~~~~C~kHt~HkVtqyKkGK~s~~aqG~Rrydr-kq~GygGq~kpi~~k~aKtTKKi~Lrl~C~~C~~~   81 (106)
                      ||||++++|||  |+|++||+|+|||||+|++|++|||+||||| +|+||||||+|||++ |||||||||+|+|++|+++
T Consensus         1 m~~PK~~~tyC--p~C~kHt~HkVtqyKkGK~s~~aqG~Rry~r~kq~GygGq~kpv~~~-aK~TKKi~Lrl~C~~C~~~   77 (92)
T 1vq8_3            1 MQMPRRFNTYC--PHCNEHQEHEVEKVRSGRQTGMKWIDRQRERNSGIGNDGKFSKVPGG-DKPTKKTDLKYRCGECGKA   77 (92)
T ss_dssp             CEEESEEEEEE--TTTTEEEEEEEEECCCCCCCSCSHHHHHHHHHCCSSCCGGGGCCCCC-CCSSCBCCEEEEETTTCCE
T ss_pred             CCCCccccccC--CCCCCCccEEEEEEecCCcChhhhcchhhhhccccccCCcCCcccCC-CcccceEEEEEEecccChh
Confidence            89999999999  9999999999999999999999999999999 999999999999987 9999999999999999999


Q ss_pred             eeecceeeeeeEEee
Q 034006           82 SQHPIKRCKHFEIGG   96 (106)
Q Consensus        82 ~~~~~kR~KkfEl~~   96 (106)
                      +|++++||++|||+.
T Consensus        78 ~~~~~~R~k~fEl~e   92 (92)
T 1vq8_3           78 HLREGWRAGRLEFQE   92 (92)
T ss_dssp             ECCCCCBCSCCEEEC
T ss_pred             hccccceeeEEEecC
Confidence            999999999999974

>3j21_j 50S ribosomal protein L44E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=7.5e-52  Score=287.96  Aligned_cols=92  Identities=38%  Similarity=0.663  Sum_probs=91.0

Q ss_pred             cccCceeeeeccCCCCCCccceEEEEeecCccchhhccceeeeccccCCCCcccceecCCCCccceeEEEEEecCCCcee
Q 034006            3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVS   82 (106)
Q Consensus         3 v~vPK~~~tyC~~~~C~kHt~HkVtqyKkGK~s~~aqG~Rrydrkq~GygGq~kpi~~k~aKtTKKi~Lrl~C~~C~~~~   82 (106)
                      |||||+++|||  |+|++||+|+|+||++|+||++|||+|||||+|+||||||+|||+++|||||||||+|+|++|++++
T Consensus         1 M~vPK~~~tyC--~~C~kHt~HkVt~yKkgK~s~~aqG~Rry~rkq~GygGq~kpv~~~~aK~TKKi~Lrl~C~eC~~~~   78 (94)
T 3j21_j            1 MKYPKQIRTYC--PFCKKHTIHKVERVKKRPRSELSAGQRRFRRILKGYGGFPRPKPEGREKPVKKLDLRFRCTECGKAH   78 (94)
T ss_dssp             CEECSEEEECC--TTTTSCEEEEECCCCCCCCSSCSHHHHTTTTCCSSCCSTTSCCSCCCCCSSCBCCCCEEESSSCCEE
T ss_pred             CCCCceeeecC--cCCCCCcceEEEEEecccccchhhcchhhhhhccccCCccccccccCccccceEEEEEEecccCccc
Confidence            89999999999  9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eec-ceeeeeeEEee
Q 034006           83 QHP-IKRCKHFEIGG   96 (106)
Q Consensus        83 ~~~-~kR~KkfEl~~   96 (106)
                      |++ ++||++|||+.
T Consensus        79 ~~~~~~R~k~fEl~e   93 (94)
T 3j21_j           79 TRGRGFRVKKFELVE   93 (94)
T ss_dssp             CCCCCCBCSCCEECC
T ss_pred             eeccCceeeeEEEec
Confidence            999 99999999985

>3v2d_6 50S ribosomal protein L33; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_5 2hgj_5 2hgu_5 2j03_6 2jl6_6 2jl8_6 2v47_6 2v49_6 2wdi_6 2wdj_6 2wdl_6 2wdn_6 2wh2_6 2wh4_6 2wrj_6 2wrl_6 2wro_6 2wrr_6 2x9s_6 2x9u_6 ...

Probab=94.67  E-value=0.011  Score=36.75  Aligned_cols=18  Identities=44%  Similarity=0.953  Sum_probs=15.3

Q ss_pred             eeeeeccCCCCCCccceEEE
Q 034006            8 TKKTYCKSKECRKHTLHKVT   27 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~HkVt   27 (106)
                      +.+-||  |.|++||.|+=+
T Consensus        35 elkKyc--p~c~kHtlhkE~   52 (54)
T 3v2d_6           35 ELRKYC--PWCRKHTVHREV   52 (54)
T ss_dssp             EEEEEE--TTTTEEEEEEEE
T ss_pred             EEeeeC--CCCCCEeeEEEe
Confidence            467899  999999999843

>3r8s_1 50S ribosomal protein L33; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_1 3j19_1 2wwq_4 3oat_1* 3oas_1* 3ofd_1 3ofc_1 3ofr_1* 3ofz_1* 3og0_1 3ofq_1 3r8t_1 3i1n_1 1vs8_1 1vs6_1 1vt2_1 3i1p_1 3i1r_1 3i1t_1 3i20_1 ...

Probab=94.04  E-value=0.017  Score=35.33  Aligned_cols=16  Identities=25%  Similarity=0.345  Sum_probs=14.3

Q ss_pred             eeeeeccCCCCCCccceE
Q 034006            8 TKKTYCKSKECRKHTLHK   25 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~Hk   25 (106)
                      +.+-||  |.|++||.|+
T Consensus        32 elkKyc--p~~~khtlhk   47 (50)
T 3r8s_1           32 ELKKFD--PVVRQHVIYK   47 (50)
T ss_dssp             CEEEEE--TTTTEEEEEE
T ss_pred             eEeeeC--cCCCCEeeEE
Confidence            467899  9999999997

>2zjr_1 50S ribosomal protein L33; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: g.41.8.6 PDB: 1nwx_1* 1xbp_1* 2zjp_1* 2zjq_1 1nwy_1 3cf5_1* 3dll_1* 3pio_1* 3pip_1* 1pnu_1 1pny_1 1vor_3 1vou_3 1vow_3 1voy_3 1vp0_3

Probab=94.03  E-value=0.019  Score=35.70  Aligned_cols=18  Identities=22%  Similarity=0.338  Sum_probs=15.1

Q ss_pred             eeeeeccCCCCCCccceEEE
Q 034006            8 TKKTYCKSKECRKHTLHKVT   27 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~HkVt   27 (106)
                      +.+-||  |.|++||.|+=+
T Consensus        36 elkKyc--p~~~kHtlhkE~   53 (55)
T 2zjr_1           36 ELKKYD--PVAKKHVVFREK   53 (55)
T ss_pred             EEEccC--CCCCCEEeEEEe
Confidence            467899  999999999743

>2ftc_P Mitochondrial ribosomal protein L33 isoform A, mitochondrial 39S ribosomal protein L27; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_P

Probab=93.71  E-value=0.025  Score=34.75  Aligned_cols=16  Identities=19%  Similarity=0.150  Sum_probs=14.2

Q ss_pred             eeeeeccCCCCCCccceE
Q 034006            8 TKKTYCKSKECRKHTLHK   25 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~Hk   25 (106)
                      +.+-||  |.|++||.|+
T Consensus        34 elkKyc--p~~~khtlhk   49 (52)
T 2ftc_P           34 TLLHYD--PVVKQRVLFV   49 (52)
T ss_pred             EEEccC--CCCCceEeEE
Confidence            457899  9999999997

>3bbo_3 Ribosomal protein L33; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=93.27  E-value=0.019  Score=37.04  Aligned_cols=15  Identities=40%  Similarity=0.957  Sum_probs=13.5

Q ss_pred             eeeeccCCCCCCccceE
Q 034006            9 KKTYCKSKECRKHTLHK   25 (106)
Q Consensus         9 ~~tyC~~~~C~kHt~Hk   25 (106)
                      .+-||  |.|++||+|+
T Consensus        48 lkKyc--p~c~kHtlhk   62 (66)
T 3bbo_3           48 LRKFC--PYCYKHTIHG   62 (66)
T ss_dssp             CCCCC--CSSSSCCCCC
T ss_pred             EEccC--CCCCCeeeEE
Confidence            56799  9999999996

---

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	106
d1vqo31	92	g.41.8.3 (3:1-92) Ribosomal protein L44e {Archaeon	1e-27

>d1vqo31 g.41.8.3 (3:1-92) Ribosomal protein L44e {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 92

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L44e
domain: Ribosomal protein L44e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 94.4 bits (235), Expect = 1e-27
 Identities = 20/91 (21%), Positives = 32/91 (35%), Gaps = 2/91 (2%)

Query: 4  NVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKA 63
           +P+   TYC    C +H  H+V + + G+ +      R+ +R                 
Sbjct: 2  QMPRRFNTYCPH--CNEHQEHEVEKVRSGRQTGMKWIDRQRERNSGIGNDGKFSKVPGGD 59

Query: 64 KTTKKIVLRLQCQGCKHVSQHPIKRCKHFEI 94
          K TKK  L+ +C  C         R    E 
Sbjct: 60 KPTKKTDLKYRCGECGKAHLREGWRAGRLEF 90

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	106
d1vqo31	92	Ribosomal protein L44e {Archaeon Haloarcula marism	100.0
d2j0161	45	Ribosomal protein L33p {Thermus thermophilus [TaxI	95.08
d2gyc11	52	Ribosomal protein L33p {Escherichia coli [TaxId: 5	90.91
d2zjr11	53	Ribosomal protein L33p {Deinococcus radiodurans [T	89.3

>d1vqo31 g.41.8.3 (3:1-92) Ribosomal protein L44e {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L44e
domain: Ribosomal protein L44e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=100.00  E-value=1.1e-48  Score=269.60  Aligned_cols=92  Identities=22%  Similarity=0.350  Sum_probs=90.8

Q ss_pred             cccCceeeeeccCCCCCCccceEEEEeecCccchhhccceeeeccccCCCCcccceecCCCCccceeEEEEEecCCCcee
Q 034006            3 VNVPKTKKTYCKSKECRKHTLHKVTQYKKGKDSLAAQGKRRYDRKQSGYGGQTKPVFHKKAKTTKKIVLRLQCQGCKHVS   82 (106)
Q Consensus         3 v~vPK~~~tyC~~~~C~kHt~HkVtqyKkGK~s~~aqG~Rrydrkq~GygGq~kpi~~k~aKtTKKi~Lrl~C~~C~~~~   82 (106)
                      ||||++++|||  |+|++||+|+|+|||+|++|++|||+|||||+|.|||||++|+|.++|||||||||+|+|++|++++
T Consensus         1 MkiPK~~~tyC--p~CkkHt~HkV~~~Kkgk~s~~a~G~Rr~~Rk~~g~gg~~~~~~~~~aK~TKKi~Lr~~C~~C~k~~   78 (92)
T d1vqo31           1 MQMPRRFNTYC--PHCNEHQEHEVEKVRSGRQTGMKWIDRQRERNSGIGNDGKFSKVPGGDKPTKKTDLKYRCGECGKAH   78 (92)
T ss_dssp             CEEESEEEEEE--TTTTEEEEEEEEECCCCCCCSCSHHHHHHHHHCCSSCCGGGGCCCCCCCSSCBCCEEEEETTTCCEE
T ss_pred             CCCCcceeccC--cccCCCccEEEEEeecCCCCHHHHhhHHHhhhccccCCCcCCCCCCCCCccceEEEEEEecccCcce
Confidence            89999999999  9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eecceeeeeeEEee
Q 034006           83 QHPIKRCKHFEIGG   96 (106)
Q Consensus        83 ~~~~kR~KkfEl~~   96 (106)
                      +++++|+++|||+.
T Consensus        79 ~~~~~R~kkfElve   92 (92)
T d1vqo31          79 LREGWRAGRLEFQE   92 (92)
T ss_dssp             CCCCCBCSCCEEEC
T ss_pred             eecceeeeeEEecC
Confidence            99999999999974

>d2j0161 g.41.8.6 (6:9-53) Ribosomal protein L33p {Thermus thermophilus [TaxId: 274]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L33p
domain: Ribosomal protein L33p
species: Thermus thermophilus [TaxId: 274]

Probab=95.08  E-value=0.0022  Score=37.46  Aligned_cols=16  Identities=50%  Similarity=1.111  Sum_probs=14.2

Q ss_pred             eeeeeccCCCCCCccceE
Q 034006            8 TKKTYCKSKECRKHTLHK   25 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~Hk   25 (106)
                      +.+-||  |+|++||.|+
T Consensus        27 elkKyc--p~c~khtlHk   42 (45)
T d2j0161          27 ELRKYC--PWCRKHTVHR   42 (45)
T ss_dssp             CCCCCC--CSSSCCCCCC
T ss_pred             EEeccC--cCCCCeecee
Confidence            457899  9999999996

>d2gyc11 g.41.8.6 (1:1-52) Ribosomal protein L33p {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L33p
domain: Ribosomal protein L33p
species: Escherichia coli [TaxId: 562]

Probab=90.91  E-value=0.028  Score=33.41  Aligned_cols=16  Identities=25%  Similarity=0.345  Sum_probs=14.0

Q ss_pred             eeeeeccCCCCCCccceE
Q 034006            8 TKKTYCKSKECRKHTLHK   25 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~Hk   25 (106)
                      +.+-||  |.|++|++|+
T Consensus        34 el~Ky~--p~~~khtlhk   49 (52)
T d2gyc11          34 ELKKFD--PVVRQHVIYK   49 (52)
T ss_dssp             CCCCBC--CSSSSSBCCC
T ss_pred             EEEccC--CCCCceeeEE
Confidence            457899  9999999996

>d2zjr11 g.41.8.6 (1:2-54) Ribosomal protein L33p {Deinococcus radiodurans [TaxId: 1299]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Zn-binding ribosomal proteins
family: Ribosomal protein L33p
domain: Ribosomal protein L33p
species: Deinococcus radiodurans [TaxId: 1299]

Probab=89.30  E-value=0.065  Score=31.90  Aligned_cols=17  Identities=24%  Similarity=0.356  Sum_probs=14.7

Q ss_pred             eeeeeccCCCCCCccceEE
Q 034006            8 TKKTYCKSKECRKHTLHKV   26 (106)
Q Consensus         8 ~~~tyC~~~~C~kHt~HkV   26 (106)
                      +.+-||  |.|++|+.|+=
T Consensus        35 el~Kyd--P~~rkhvl~kE   51 (53)
T d2zjr11          35 ELKKYD--PVAKKHVVFRE   51 (53)
T ss_pred             EEEccC--CCCcceeeEEe
Confidence            567899  99999999973