Psyllid ID: psy9580

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70-
Protein Sequence
MKELFSVFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS
Secondary Structure (PSIPRED)
cccccccccccccccccccEEEEccccEEEEccccccccccccHHHHHHcccccEEccccHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccHHHHEEEEcccccccccHHHHHEEEEccccccccccccccHccHccHHHHHHHcccc
Coil and Loop (DISEMBL)
MKELFSVFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS
Flexible Loop (DISEMBL)
mkelfsvfkiktkssakkrffirtggvikrgqafkrhiltkkstkvkrklrglasvhksniasvrammpns
Low Complexity Region (SEG)
MKELFSVFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS
Disordered region (IsUnstruct)
*****SVFKIKTK*SAKKRFFIRTGGVIKRGQAFKRHILTK******************************
Disordered Region (DISOPRED)
*****SV***KTKSSAKKRFFIRTGGVIKRGQAFKRHIL***************SVHKSNIASVRAMMPNS
Disordered Region (DISEMBL)
MKELFSVFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS
Disordered Region (DISPRO)
*****SVFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKS****************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKELFSVFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS
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	71	2.2.26 [Sep-21-2011]
Q47CM6	65	50S ribosomal protein L35	yes	N/A	0.859	0.938	0.786	2e-19
A4G617	65	50S ribosomal protein L35	yes	N/A	0.887	0.969	0.714	4e-19
Q2KZL7	65	50S ribosomal protein L35	yes	N/A	0.859	0.938	0.737	8e-18
Q8XZ27	65	50S ribosomal protein L35	yes	N/A	0.859	0.938	0.721	9e-18
A9IPU4	65	50S ribosomal protein L35	yes	N/A	0.859	0.938	0.721	1e-17
Q7VVR2	65	50S ribosomal protein L35	yes	N/A	0.859	0.938	0.721	2e-17
Q7W7C9	65	50S ribosomal protein L35	yes	N/A	0.859	0.938	0.721	2e-17
Q7WKR7	65	50S ribosomal protein L35	yes	N/A	0.859	0.938	0.721	2e-17
B2UGJ6	65	50S ribosomal protein L35	yes	N/A	0.859	0.938	0.721	2e-17
C5CUU4	67	50S ribosomal protein L35	yes	N/A	0.873	0.925	0.693	2e-17

>sp|Q47CM6|RL35_DECAR 50S ribosomal protein L35 OS=Dechloromonas aromatica (strain RCB) GN=rpmI PE=3 SV=1

 Score = 94.4 bits (233), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 48/61 (78%), Positives = 53/61 (86%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTKSSAKKRF IR GG IKRGQAFKRHILTKK+TKVKR LRG  +VH+ + ASVRAMM
Sbjct: 3  KMKTKSSAKKRFSIRAGGSIKRGQAFKRHILTKKTTKVKRHLRGATAVHERDAASVRAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Dechloromonas aromatica (strain RCB) (taxid: 159087)

>sp|A4G617|RL35_HERAR 50S ribosomal protein L35 OS=Herminiimonas arsenicoxydans GN=rpmI PE=3 SV=1

 Score = 93.2 bits (230), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 45/63 (71%), Positives = 53/63 (84%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTKS AKKRF +R GG +KRGQAFKRHILTKK+TK KR+LRG   VH +N+ SVRAMM
Sbjct: 3  KMKTKSGAKKRFRVRPGGTVKRGQAFKRHILTKKTTKNKRQLRGSVGVHDTNMVSVRAMM 62

Query: 69 PNS 71
          PN+
Sbjct: 63 PNA 65

Herminiimonas arsenicoxydans (taxid: 204773)

>sp|Q2KZL7|RL35_BORA1 50S ribosomal protein L35 OS=Bordetella avium (strain 197N) GN=rpmI PE=3 SV=1

 Score = 89.0 bits (219), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 45/61 (73%), Positives = 53/61 (86%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTK SA KRF +R  G IKRGQAFKRHILTKK+TK KR+LRG A+VH++NIASV+AMM
Sbjct: 3  KMKTKKSAAKRFQVRGSGSIKRGQAFKRHILTKKTTKNKRQLRGSAAVHETNIASVKAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Bordetella avium (strain 197N) (taxid: 360910)

>sp|Q8XZ27|RL35_RALSO 50S ribosomal protein L35 OS=Ralstonia solanacearum (strain GMI1000) GN=rpmI PE=3 SV=1

 Score = 88.6 bits (218), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 44/61 (72%), Positives = 50/61 (81%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTK SA KRF  R GG IKRGQAFKRHILTKK+TK KR+LRG   VH++N+ SVRAMM
Sbjct: 3  KMKTKKSASKRFTARPGGTIKRGQAFKRHILTKKTTKNKRQLRGTEGVHETNLKSVRAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Ralstonia solanacearum (strain GMI1000) (taxid: 267608)

>sp|A9IPU4|RL35_BORPD 50S ribosomal protein L35 OS=Bordetella petrii (strain ATCC BAA-461 / DSM 12804 / CCUG 43448) GN=rpmI PE=3 SV=1

 Score = 88.6 bits (218), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 44/61 (72%), Positives = 53/61 (86%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTK SA KRF +R  G IKRGQAFKRHILTKK+TK KR+LRG A+VH++N+ASV+AMM
Sbjct: 3  KMKTKKSASKRFQVRGSGSIKRGQAFKRHILTKKTTKNKRQLRGSAAVHETNVASVKAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Bordetella petrii (strain ATCC BAA-461 / DSM 12804 / CCUG 43448) (taxid: 340100)

>sp|Q7VVR2|RL35_BORPE 50S ribosomal protein L35 OS=Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251) GN=rpmI PE=3 SV=1

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 44/61 (72%), Positives = 53/61 (86%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTK SA KRF +R  G IKRGQAFKRHILTKK+TK KR+LRG A+VH++N+ASV+AMM
Sbjct: 3  KMKTKKSAAKRFKVRGSGSIKRGQAFKRHILTKKTTKNKRQLRGSAAVHETNVASVKAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251) (taxid: 257313)

>sp|Q7W7C9|RL35_BORPA 50S ribosomal protein L35 OS=Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253) GN=rpmI PE=3 SV=1

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 44/61 (72%), Positives = 53/61 (86%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTK SA KRF +R  G IKRGQAFKRHILTKK+TK KR+LRG A+VH++N+ASV+AMM
Sbjct: 3  KMKTKKSAAKRFKVRGSGSIKRGQAFKRHILTKKTTKNKRQLRGSAAVHETNVASVKAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253) (taxid: 257311)

>sp|Q7WKR7|RL35_BORBR 50S ribosomal protein L35 OS=Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) GN=rpmI PE=3 SV=1

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 44/61 (72%), Positives = 53/61 (86%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTK SA KRF +R  G IKRGQAFKRHILTKK+TK KR+LRG A+VH++N+ASV+AMM
Sbjct: 3  KMKTKKSAAKRFKVRGSGSIKRGQAFKRHILTKKTTKNKRQLRGSAAVHETNVASVKAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) (taxid: 257310)

>sp|B2UGJ6|RL35_RALPJ 50S ribosomal protein L35 OS=Ralstonia pickettii (strain 12J) GN=rpmI PE=3 SV=1

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 44/61 (72%), Positives = 49/61 (80%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTK SA KRF  R GG IKRGQAFKRHILTKK+TK KR LRG   VH++N+ SVRAMM
Sbjct: 3  KMKTKKSASKRFTARPGGTIKRGQAFKRHILTKKTTKNKRHLRGTEGVHETNLKSVRAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Ralstonia pickettii (strain 12J) (taxid: 402626)

>sp|C5CUU4|RL35_VARPS 50S ribosomal protein L35 OS=Variovorax paradoxus (strain S110) GN=rpmI PE=3 SV=1

 Score = 87.4 bits (215), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 43/62 (69%), Positives = 52/62 (83%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTKSSAKKRF +R GG +KRGQAFKRHILTKK+TK KR LRG  +VH++N+ SV AM+
Sbjct: 3  KMKTKSSAKKRFRVRPGGTVKRGQAFKRHILTKKTTKNKRHLRGAVAVHETNMVSVAAML 62

Query: 69 PN 70
          P 
Sbjct: 63 PG 64

Variovorax paradoxus (strain S110) (taxid: 543728)

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	71
152983158	76	50S ribosomal protein L35 [Janthinobacte	0.887	0.828	0.730	4e-18
71908288	65	50S ribosomal protein L35 [Dechloromonas	0.859	0.938	0.786	8e-18
134095004	65	50S ribosomal protein L35 [Herminiimonas	0.887	0.969	0.714	2e-17
406998731	65	50S ribosomal protein L35 [uncultured ba	0.859	0.938	0.770	2e-17
115351414	81	50S ribosomal protein L35 [Burkholderia	0.943	0.827	0.671	2e-17
291614196	65	ribosomal protein L35 [Sideroxydans lith	0.859	0.938	0.754	3e-17
421475863	123	ribosomal protein L35 [Burkholderia mult	0.943	0.544	0.671	3e-17
399020915	65	ribosomal protein L35 [Herbaspirillum sp	0.859	0.938	0.721	7e-17
423016842	65	50S ribosomal protein L35 [Achromobacter	0.859	0.938	0.737	1e-16
421486011	65	50S ribosomal protein L35 [Achromobacter	0.859	0.938	0.737	1e-16

>gi|152983158|ref|YP_001353179.1| 50S ribosomal protein L35 [Janthinobacterium sp. Marseille] gi|151283235|gb|ABR91645.1| 50S ribosomal subunit protein A [Janthinobacterium sp. Marseille]

 Score = 95.5 bits (236), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 46/63 (73%), Positives = 54/63 (85%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTKSSAKKRF +R GG +KRGQAFKRHILTKK+TK KR+LRG   VH +N+ SVRAMM
Sbjct: 14 KMKTKSSAKKRFRVRPGGTVKRGQAFKRHILTKKTTKNKRQLRGAVGVHDTNMNSVRAMM 73

Query: 69 PNS 71
          PN+
Sbjct: 74 PNA 76

Source: Janthinobacterium sp. Marseille

Species: Janthinobacterium sp. Marseille

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|71908288|ref|YP_285875.1| 50S ribosomal protein L35 [Dechloromonas aromatica RCB] gi|148840419|sp|Q47CM6.1|RL35_DECAR RecName: Full=50S ribosomal protein L35 gi|71847909|gb|AAZ47405.1| LSU ribosomal protein L35P [Dechloromonas aromatica RCB]

 Score = 94.4 bits (233), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 48/61 (78%), Positives = 53/61 (86%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTKSSAKKRF IR GG IKRGQAFKRHILTKK+TKVKR LRG  +VH+ + ASVRAMM
Sbjct: 3  KMKTKSSAKKRFSIRAGGSIKRGQAFKRHILTKKTTKVKRHLRGATAVHERDAASVRAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Source: Dechloromonas aromatica RCB

Species: Dechloromonas aromatica

Genus: Dechloromonas

Family: Rhodocyclaceae

Order: Rhodocyclales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|134095004|ref|YP_001100079.1| 50S ribosomal protein L35 [Herminiimonas arsenicoxydans] gi|166231191|sp|A4G617.1|RL35_HERAR RecName: Full=50S ribosomal protein L35 gi|133738907|emb|CAL61954.1| 50S ribosomal protein L35 [Herminiimonas arsenicoxydans]

 Score = 93.2 bits (230), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 45/63 (71%), Positives = 53/63 (84%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTKS AKKRF +R GG +KRGQAFKRHILTKK+TK KR+LRG   VH +N+ SVRAMM
Sbjct: 3  KMKTKSGAKKRFRVRPGGTVKRGQAFKRHILTKKTTKNKRQLRGSVGVHDTNMVSVRAMM 62

Query: 69 PNS 71
          PN+
Sbjct: 63 PNA 65

Source: Herminiimonas arsenicoxydans

Species: Herminiimonas arsenicoxydans

Genus: Herminiimonas

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|406998731|gb|EKE16621.1| 50S ribosomal protein L35 [uncultured bacterium]

 Score = 93.2 bits (230), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 47/61 (77%), Positives = 55/61 (90%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTKSSAKKRF +R GG IKRGQAFKRHILTKK+TKVKR LRG A+V++ ++ASVRAMM
Sbjct: 3  KMKTKSSAKKRFKVRAGGSIKRGQAFKRHILTKKTTKVKRHLRGSAAVNERDVASVRAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Source: uncultured bacterium

Species: uncultured bacterium

Superkingdom: Bacteria

>gi|115351414|ref|YP_773253.1| 50S ribosomal protein L35 [Burkholderia ambifaria AMMD] gi|115281402|gb|ABI86919.1| LSU ribosomal protein L35P [Burkholderia ambifaria AMMD]

 Score = 92.8 bits (229), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 45/67 (67%), Positives = 54/67 (80%)

Query: 3  ELFSVFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIA 62
          ELF + K+KTK SA KRF +R GG +KRGQAFKRHILTKK+TK KR LRG  +VH S++ 
Sbjct: 13 ELFVMPKMKTKKSAAKRFVVRPGGTVKRGQAFKRHILTKKTTKNKRHLRGATAVHDSDLN 72

Query: 63 SVRAMMP 69
          SVRAM+P
Sbjct: 73 SVRAMLP 79

Source: Burkholderia ambifaria AMMD

Species: Burkholderia ambifaria

Genus: Burkholderia

Family: Burkholderiaceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|291614196|ref|YP_003524353.1| ribosomal protein L35 [Sideroxydans lithotrophicus ES-1] gi|291584308|gb|ADE11966.1| ribosomal protein L35 [Sideroxydans lithotrophicus ES-1]

 Score = 92.4 bits (228), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 46/61 (75%), Positives = 52/61 (85%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTKS AKKRF +R GG IKRGQAFKRHILTKK+TK KR+LRG   VH++N ASVRAMM
Sbjct: 3  KMKTKSGAKKRFSVRAGGSIKRGQAFKRHILTKKTTKNKRQLRGSTGVHETNTASVRAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Source: Sideroxydans lithotrophicus ES-1

Species: Sideroxydans lithotrophicus

Genus: Sideroxydans

Family: Gallionellaceae

Order: Gallionellales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|421475863|ref|ZP_15923795.1| ribosomal protein L35 [Burkholderia multivorans CF2] gi|400229496|gb|EJO59343.1| ribosomal protein L35 [Burkholderia multivorans CF2]

 Score = 92.0 bits (227), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 45/67 (67%), Positives = 54/67 (80%)

Query: 3   ELFSVFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIA 62
           ELF + K+KTK SA KRF +R GG +KRGQAFKRHILTKK+TK KR LRG  +VH S++ 
Sbjct: 55  ELFVMPKMKTKKSAAKRFVVRPGGTVKRGQAFKRHILTKKTTKNKRHLRGATAVHDSDLN 114

Query: 63  SVRAMMP 69
           SVRAM+P
Sbjct: 115 SVRAMLP 121

Source: Burkholderia multivorans CF2

Species: Burkholderia multivorans

Genus: Burkholderia

Family: Burkholderiaceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|399020915|ref|ZP_10723039.1| ribosomal protein L35 [Herbaspirillum sp. CF444] gi|398093881|gb|EJL84255.1| ribosomal protein L35 [Herbaspirillum sp. CF444]

 Score = 91.3 bits (225), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 44/61 (72%), Positives = 53/61 (86%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTKSSAKKRF +R GG +KRGQAFKRHILTKK+TK KR+LRG   VH++N+ SVRAM+
Sbjct: 3  KMKTKSSAKKRFRVRPGGTVKRGQAFKRHILTKKTTKNKRQLRGAVGVHETNMTSVRAML 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Source: Herbaspirillum sp. CF444

Species: Herbaspirillum sp. CF444

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|423016842|ref|ZP_17007563.1| 50S ribosomal protein L35 [Achromobacter xylosoxidans AXX-A] gi|338780073|gb|EGP44491.1| 50S ribosomal protein L35 [Achromobacter xylosoxidans AXX-A]

 Score = 90.5 bits (223), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 45/61 (73%), Positives = 53/61 (86%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTK SA KRF +R  G IKRGQAFKRHILTKK+TK KR+LRG A+VH+SN+ASV+AMM
Sbjct: 3  KMKTKKSAAKRFQVRGSGSIKRGQAFKRHILTKKTTKAKRQLRGSAAVHESNVASVKAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Source: Achromobacter xylosoxidans AXX-A

Species: Achromobacter xylosoxidans

Genus: Achromobacter

Family: Alcaligenaceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|421486011|ref|ZP_15933563.1| 50S ribosomal protein L35 [Achromobacter piechaudii HLE] gi|400195792|gb|EJO28776.1| 50S ribosomal protein L35 [Achromobacter piechaudii HLE]

 Score = 90.1 bits (222), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 45/61 (73%), Positives = 53/61 (86%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTK SA KRF +R  G IKRGQAFKRHILTKK+TK KR+LRG A+VH+SN+ASV+AMM
Sbjct: 3  KMKTKKSASKRFKVRGSGSIKRGQAFKRHILTKKTTKAKRQLRGSAAVHESNVASVKAMM 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Source: Achromobacter piechaudii HLE

Species: Achromobacter piechaudii

Genus: Achromobacter

Family: Alcaligenaceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

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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	71
TIGR_CMR|ECH_0198	66	ECH_0198 "ribosomal protein L3	0.887	0.954	0.460	4.2e-08
TIGR_CMR|VC_A0289	64	VC_A0289 "ribosomal protein L3	0.845	0.937	0.491	5.3e-08
TIGR_CMR|SPO_3599	66	SPO_3599 "ribosomal protein L3	0.859	0.924	0.442	6.8e-08
TIGR_CMR|CJE_0294	63	CJE_0294 "ribosomal protein L3	0.830	0.936	0.466	1.8e-07
TIGR_CMR|APH_0061	66	APH_0061 "ribosomal protein L3	0.859	0.924	0.442	2.9e-07
TIGR_CMR|CBU_1324	64	CBU_1324 "ribosomal protein L3	0.845	0.937	0.45	3.8e-07
UNIPROTKB|P0A7Q1	65	rpmI "50S ribosomal subunit pr	0.845	0.923	0.516	4.8e-07
TIGR_CMR|SO_2301	64	SO_2301 "ribosomal protein L35	0.845	0.937	0.459	4.8e-07
TIGR_CMR|CHY_1577	64	CHY_1577 "ribosomal protein L3	0.845	0.937	0.435	7.8e-07
TIGR_CMR|GSU_1517	65	GSU_1517 "ribosomal protein L3	0.774	0.846	0.516	7.8e-07

TIGR_CMR|ECH_0198 ECH_0198 "ribosomal protein L35" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)]

 Score = 125 (49.1 bits), Expect = 4.2e-08, P = 4.2e-08
 Identities = 29/63 (46%), Positives = 39/63 (61%)

Query:     9 KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
             K+KTKSS KKRF +   G IK  Q+ KRH +TK+S +  R  RG A ++ S+   V+  M
Sbjct:     3 KLKTKSSVKKRFSVTATGKIKSTQSAKRHGMTKRSKRSIRVQRGTAIMNSSDSRIVKLFM 62

Query:    69 PNS 71
             P S
Sbjct:    63 PYS 65

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|VC_A0289 VC_A0289 "ribosomal protein L35" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 124 (48.7 bits), Expect = 5.3e-08, P = 5.3e-08
 Identities = 30/61 (49%), Positives = 39/61 (63%)

Query:     9 KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
             K+K    A KRF  +T G IK   A KRHILTK++TK KR+LR  A + K  +A+V  M+
Sbjct:     3 KMKNNKGAAKRFK-KTAGGIKYKHATKRHILTKRTTKNKRQLRPNAILPKCELAAVARML 61

Query:    69 P 69
             P
Sbjct:    62 P 62

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|SPO_3599 SPO_3599 "ribosomal protein L35" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 123 (48.4 bits), Expect = 6.8e-08, P = 6.8e-08
 Identities = 27/61 (44%), Positives = 37/61 (60%)

Query:     9 KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
             K+KTKSSAKKRF +   G +  GQA KRH + K++TK  R  RG  ++   +   V+  M
Sbjct:     3 KMKTKSSAKKRFKVTATGKVMAGQAGKRHGMIKRTTKFIRDARGTTTLSAPDAKIVKGYM 62

Query:    69 P 69
             P
Sbjct:    63 P 63

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CJE_0294 CJE_0294 "ribosomal protein L35" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 119 (46.9 bits), Expect = 1.8e-07, P = 1.8e-07
 Identities = 28/60 (46%), Positives = 36/60 (60%)

Query:     9 KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
             K+K+  SA KRF +     IKRG AF+ HILTKK  K  R LR    VH +N+ +V  M+
Sbjct:     3 KMKSVKSAVKRFKVGKNK-IKRGSAFRSHILTKKPAKRMRDLRTAKYVHSTNVKAVEKML 61

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

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|APH_0061 APH_0061 "ribosomal protein L35" [Anaplasma phagocytophilum HZ (taxid:212042)]

 Score = 117 (46.2 bits), Expect = 2.9e-07, P = 2.9e-07
 Identities = 27/61 (44%), Positives = 36/61 (59%)

Query:     9 KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
             K+KTKSSAKKRF I   G +   Q+ KRH +TK+S +  R  RG A +  ++   V   M
Sbjct:     3 KLKTKSSAKKRFKITASGKVVAAQSTKRHGMTKRSKRSLRTRRGTALMSAADTRIVAPFM 62

Query:    69 P 69
             P
Sbjct:    63 P 63

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|CBU_1324 CBU_1324 "ribosomal protein L35" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 116 (45.9 bits), Expect = 3.8e-07, P = 3.8e-07
 Identities = 27/60 (45%), Positives = 36/60 (60%)

Query:     9 KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
             K+KT   A KRF +   G IKR  +   HILTKKS K KR+LR +  V  S++ +V  M+
Sbjct:     3 KLKTNRGAVKRFKVTGSGKIKRAASNHNHILTKKSQKRKRRLRKIHEVAPSDMRAVSEML 62

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

UNIPROTKB|P0A7Q1 rpmI "50S ribosomal subunit protein L35" [Escherichia coli K-12 (taxid:83333)]

 Score = 115 (45.5 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 32/62 (51%), Positives = 37/62 (59%)

Query:     9 KIKTKSSAKKRFFIRTG-GVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAM 67
             KIKT   A KRF  +TG G  K   A  RHILTKK+TK KR LR  A V K ++  V A 
Sbjct:     3 KIKTVRGAAKRFK-KTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIAC 61

Query:    68 MP 69
             +P
Sbjct:    62 LP 63

GO:0006412 "translation" evidence=IEA

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

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

TIGR_CMR|SO_2301 SO_2301 "ribosomal protein L35" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 115 (45.5 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 28/61 (45%), Positives = 35/61 (57%)

Query:     9 KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
             K+KT     KRF  +T    KR QA  RHILTKKSTK KR LR    V K ++ ++   +
Sbjct:     3 KMKTDRGVAKRFK-KTANGFKRKQAHLRHILTKKSTKRKRHLRNKCLVAKVDVPAIARQL 61

Query:    69 P 69
             P
Sbjct:    62 P 62

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CHY_1577 CHY_1577 "ribosomal protein L35" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 113 (44.8 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 27/62 (43%), Positives = 40/62 (64%)

Query:     9 KIKTKSSAKKRFFIRTG-GVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAM 67
             KIKTK +A KRF  +TG G +K   AF  H+L  K++K KR+LR  A V K ++  ++ +
Sbjct:     3 KIKTKKAAAKRFK-KTGSGKVKHFHAFHSHLLGHKTSKRKRRLRKSAIVSKGDMKIIKKI 61

Query:    68 MP 69
             +P
Sbjct:    62 LP 63

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|GSU_1517 GSU_1517 "ribosomal protein L35" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 113 (44.8 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 31/60 (51%), Positives = 37/60 (61%)

Query:     9 KIKTKSSAKKRFFIRTG-GVIKRGQAFKRHILTKKSTKVKRKLRG---LASVHKSNIASV 64
             KIKT   A KRF  +TG G IKR  AF  HILT K+ K KR+LR    +A+V   NIA +
Sbjct:     3 KIKTNRGAAKRFK-KTGTGKIKRSHAFTSHILTSKTRKRKRQLRSSAVVAAVDHKNIAKL 61

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
B1XYZ5	RL35_LEPCP	No assigned EC number	0.6557	0.8591	0.9104	yes	N/A
A2SH05	RL35_METPP	No assigned EC number	0.6557	0.8591	0.9104	yes	N/A
Q5P7X7	RL35_AROAE	No assigned EC number	0.6229	0.8591	0.9384	yes	N/A
A4SX35	RL35_POLSQ	No assigned EC number	0.6470	0.7183	0.7846	yes	N/A
Q2SVE0	RL35_BURTA	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
A1V3R1	RL35_BURMS	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
Q2YBS4	RL35_NITMU	No assigned EC number	0.7049	0.8591	0.9384	yes	N/A
B4E7I7	RL35_BURCJ	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
A4JDU6	RL35_BURVG	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
A3NUI6	RL35_BURP0	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
A1W8I4	RL35_ACISJ	No assigned EC number	0.6349	0.8873	0.9402	yes	N/A
B9MHY0	RL35_ACIET	No assigned EC number	0.6349	0.8873	0.9402	yes	N/A
B2JJJ5	RL35_BURP8	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
B1K093	RL35_BURCC	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
Q1BWV1	RL35_BURCA	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
A3N8T3	RL35_BURP6	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
Q13WF9	RL35_BURXL	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
Q7NYC4	RL35_CHRVO	No assigned EC number	0.6721	0.8591	0.9384	yes	N/A
Q1LP78	RL35_RALME	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
Q7W7C9	RL35_BORPA	No assigned EC number	0.7213	0.8591	0.9384	yes	N/A
Q2KZL7	RL35_BORA1	No assigned EC number	0.7377	0.8591	0.9384	yes	N/A
A1K4E3	RL35_AZOSB	No assigned EC number	0.6721	0.8591	0.9384	yes	N/A
A4G617	RL35_HERAR	No assigned EC number	0.7142	0.8873	0.9692	yes	N/A
A0K6V2	RL35_BURCH	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
A1TR37	RL35_ACIAC	No assigned EC number	0.6721	0.8591	0.9104	yes	N/A
Q7VVR2	RL35_BORPE	No assigned EC number	0.7213	0.8591	0.9384	yes	N/A
A9C3D2	RL35_DELAS	No assigned EC number	0.6885	0.8591	0.9104	yes	N/A
Q0ADN6	RL35_NITEC	No assigned EC number	0.7213	0.8591	0.9384	yes	N/A
Q0KBZ1	RL35_CUPNH	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
B1XV12	RL35_POLNS	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
Q62KI4	RL35_BURMA	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
B2SZG0	RL35_BURPP	No assigned EC number	0.6721	0.8591	0.9384	yes	N/A
Q8XZ27	RL35_RALSO	No assigned EC number	0.7213	0.8591	0.9384	yes	N/A
Q47CM6	RL35_DECAR	No assigned EC number	0.7868	0.8591	0.9384	yes	N/A
A1VR75	RL35_POLNA	No assigned EC number	0.6290	0.8732	0.9253	yes	N/A
Q82VV3	RL35_NITEU	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
A9IPU4	RL35_BORPD	No assigned EC number	0.7213	0.8591	0.9384	yes	N/A
Q39H53	RL35_BURS3	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
Q21YT1	RL35_RHOFD	No assigned EC number	0.6129	0.8732	0.9253	yes	N/A
B1YP15	RL35_BURA4	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
Q7WKR7	RL35_BORBR	No assigned EC number	0.7213	0.8591	0.9384	yes	N/A
Q472N6	RL35_CUPPJ	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
B2UGJ6	RL35_RALPJ	No assigned EC number	0.7213	0.8591	0.9384	yes	N/A
B3R4J3	RL35_CUPTR	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
Q12BR1	RL35_POLSJ	No assigned EC number	0.6190	0.8873	0.9402	yes	N/A
A3MJU0	RL35_BURM7	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
Q63TM4	RL35_BURPS	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
A1WMG7	RL35_VEREI	No assigned EC number	0.6190	0.8873	0.9402	yes	N/A
Q3JT11	RL35_BURP1	No assigned EC number	0.6885	0.8591	0.9384	yes	N/A
C5CUU4	RL35_VARPS	No assigned EC number	0.6935	0.8732	0.9253	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	71
PRK00172	65	PRK00172, rpmI, 50S ribosomal protein L35; Reviewe	7e-17
COG0291	65	COG0291, RpmI, Ribosomal protein L35 [Translation,	4e-13
TIGR00001	63	TIGR00001, rpmI_bact, ribosomal protein L35	4e-12
pfam01632	61	pfam01632, Ribosomal_L35p, Ribosomal protein L35	9e-10
CHL00103	65	CHL00103, rpl35, ribosomal protein L35	4e-06

>gnl|CDD|234676 PRK00172, rpmI, 50S ribosomal protein L35; Reviewed

 Score = 66.7 bits (164), Expect = 7e-17
 Identities = 34/63 (53%), Positives = 43/63 (68%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTKS A KRF +   G +KR  A KRHILTKKSTK KR+LRG   V K++   V+ M+
Sbjct: 3  KMKTKSGAAKRFKVTGSGKVKRKHAGKRHILTKKSTKRKRQLRGTTVVSKADAKRVKRML 62

Query: 69 PNS 71
          P +
Sbjct: 63 PYA 65

Length = 65

>gnl|CDD|223368 COG0291, RpmI, Ribosomal protein L35 [Translation, ribosomal structure and biogenesis]

 Score = 57.2 bits (139), Expect = 4e-13
 Identities = 33/61 (54%), Positives = 40/61 (65%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KTK  A KRF I   G IKR  A KRHILTKKSTK KR LR  A V K+++  V+ ++
Sbjct: 3  KMKTKKGAAKRFKITGTGKIKRKHAGKRHILTKKSTKRKRHLRKTAVVSKADLKRVKRLL 62

Query: 69 P 69
           
Sbjct: 63 L 63

Length = 65

>gnl|CDD|129113 TIGR00001, rpmI_bact, ribosomal protein L35

 Score = 54.6 bits (132), Expect = 4e-12
 Identities = 30/61 (49%), Positives = 40/61 (65%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KT  +A KRF I   G IKR +A KRH+LTKKS+K KR LR  A V   ++  V+ ++
Sbjct: 2  KMKTHKAAAKRFKITGSGKIKRKKAGKRHLLTKKSSKRKRNLRKKAIVSAGDLKRVKLLL 61

Query: 69 P 69
          P
Sbjct: 62 P 62

This ribosomal protein is found in bacteria and organelles only. It is not closely related to any eukaryotic or archaeal ribosomal protein [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 63

>gnl|CDD|145004 pfam01632, Ribosomal_L35p, Ribosomal protein L35

 Score = 48.4 bits (116), Expect = 9e-10
 Identities = 30/60 (50%), Positives = 38/60 (63%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KT  +A KRF     G IKR +A KRH+LTKKSTK KR+LR    V KS+   V  ++
Sbjct: 2  KMKTVKAAAKRFKRTASGKIKRRKAGKRHLLTKKSTKRKRRLRKKVLVSKSDAKRVDKLL 61

Length = 61

>gnl|CDD|214367 CHL00103, rpl35, ribosomal protein L35

 Score = 39.7 bits (93), Expect = 4e-06
 Identities = 26/61 (42%), Positives = 37/61 (60%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KT+ +A KR+     G   R +AFK H+L KKS+K KRKL     V K +  S++ M+
Sbjct: 3  KLKTRKAAAKRYKKTGNGKFLRRKAFKSHLLQKKSSKQKRKLSQTVCVSKGDSKSIKLML 62

Query: 69 P 69
          P
Sbjct: 63 P 63

Length = 65

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	71
CHL00103	65	rpl35 ribosomal protein L35	99.97
PRK00172	65	rpmI 50S ribosomal protein L35; Reviewed	99.97
COG0291	65	RpmI Ribosomal protein L35 [Translation, ribosomal	99.97
TIGR00001	63	rpmI_bact ribosomal protein L35. This ribosomal pr	99.96
PF01632	61	Ribosomal_L35p: Ribosomal protein L35; InterPro: I	99.93
KOG4316|consensus	172		93.6

>CHL00103 rpl35 ribosomal protein L35

Probab=99.97  E-value=4.6e-32  Score=162.52  Aligned_cols=65  Identities=40%  Similarity=0.543  Sum_probs=64.3

Q ss_pred             CcCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCCCC
Q psy9580           7 VFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS   71 (71)
Q Consensus         7 mpKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llpy~   71 (71)
                      |||||||+||+|||++||||+|+|.+||++|++++||++++|+|++..+|+++|+++|++||||+
T Consensus         1 MpKmKT~k~a~KRFKvT~sGKvkr~~a~k~H~l~kKs~krkR~L~~~~~v~~~d~~~ik~~lp~~   65 (65)
T CHL00103          1 MPKLKTRKAAAKRYKKTGNGKFLRRKAFKSHLLQKKSSKQKRKLSQTVCVSKGDSKSIKLMLPYL   65 (65)
T ss_pred             CCccccchhhhheeEecCCCCEEeccCCccccccCCCHHHHHhcCCCeeECHHHHHHHHHhcCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999996

>PRK00172 rpmI 50S ribosomal protein L35; Reviewed

Probab=99.97  E-value=1.7e-31  Score=159.73  Aligned_cols=65  Identities=52%  Similarity=0.677  Sum_probs=64.3

Q ss_pred             CcCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCCCC
Q psy9580           7 VFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS   71 (71)
Q Consensus         7 mpKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llpy~   71 (71)
                      |||||||+||+|||++||||+|+|++||++|++++||++++|+|+++.+|+++|++.|+.||||+
T Consensus         1 MpKmKT~k~akKRFk~T~~GKi~r~~a~k~H~~~~Ks~k~kR~lr~~~~v~~~~~k~ik~~lpy~   65 (65)
T PRK00172          1 MPKMKTKSGAAKRFKVTGSGKVKRKHAGKRHILTKKSTKRKRQLRGTTVVSKADAKRVKRMLPYA   65 (65)
T ss_pred             CCCcccchhhhheeEEcCCCCEEeccCCCccccccCCHHHHHhcCCCeeECHHHHHHHHHhcCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999996

>COG0291 RpmI Ribosomal protein L35 [Translation, ribosomal structure and biogenesis]

Probab=99.97  E-value=5.5e-31  Score=158.04  Aligned_cols=65  Identities=51%  Similarity=0.593  Sum_probs=64.0

Q ss_pred             CcCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCCCC
Q psy9580           7 VFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS   71 (71)
Q Consensus         7 mpKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llpy~   71 (71)
                      |||||||+||+|||++||||+|+|++||++|++++||++++|+||+..+|+++|.++|.+||||.
T Consensus         1 MPKmKT~k~aaKRFK~T~~Gkikr~~A~k~H~l~kKs~k~kR~Lr~~~~v~~~d~k~v~~~l~~~   65 (65)
T COG0291           1 MPKMKTKKGAAKRFKITGTGKIKRKHAGKRHILTKKSTKRKRHLRKTAVVSKADLKRVKRLLLYA   65 (65)
T ss_pred             CCccchhhhhHhheeecCCCcEEecccccccccccCCHHHHHhccCCceeCHHHHHHHHHhccCC
Confidence            89999999999999999999999999999999999999999999999999999999999999984

>TIGR00001 rpmI_bact ribosomal protein L35

Probab=99.96  E-value=2.4e-30  Score=153.99  Aligned_cols=63  Identities=48%  Similarity=0.604  Sum_probs=62.6

Q ss_pred             cCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCCC
Q psy9580           8 FKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPN   70 (71)
Q Consensus         8 pKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llpy   70 (71)
                      ||||||+||+|||++||||+|++++||++|++++||++++|+|+++++|+++|++.|++||||
T Consensus         1 pKmKT~~~akKRFK~T~tGKvkr~~a~k~H~l~~Ks~k~kR~L~~~~~v~~~~~~~ik~~lpy   63 (63)
T TIGR00001         1 PKMKTHKAAAKRFKITGSGKIKRKKAGKRHLLTKKSSKRKRNLRKKAIVSAGDLKRVKLLLPY   63 (63)
T ss_pred             CCcccchhhhhheEEcCCCCEEecccCcccccccCCHHHHHhcCCCeeECHHHHHHHHHhcCC
Confidence            899999999999999999999999999999999999999999999999999999999999998

This ribosomal protein is found in bacteria and organelles only. It is not closely related to any eukaryotic or archaeal ribosomal protein.

>PF01632 Ribosomal_L35p: Ribosomal protein L35; InterPro: IPR021137 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.93  E-value=2.9e-27  Score=139.57  Aligned_cols=61  Identities=48%  Similarity=0.656  Sum_probs=55.4

Q ss_pred             cCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhC
Q psy9580           8 FKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM   68 (71)
Q Consensus         8 pKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~ll   68 (71)
                      ||||||+||+|||++||||+|+|++||++|+++++|++++|+|++..+|+++|++.|++||
T Consensus         1 pKmKT~k~a~KRFk~t~sGkikr~~agk~H~~~~Ks~krkr~Lr~~~~v~~~~~k~ikklL   61 (61)
T PF01632_consen    1 PKMKTHKSAAKRFKVTGSGKIKRKRAGKRHLLTKKSSKRKRRLRKTTLVHKADVKRIKKLL   61 (61)
T ss_dssp             ---S-HHHHHTTEEEESSSEEEEE-SSSSSSSSSSSCHCTTTTSCEEESSSHHHHHHTTTT
T ss_pred             CCccchhhhHhheeEcCCCeEEeccCCcccccccCCHHHHHHcCCCEEECHHHHHHHHHhC
Confidence            8999999999999999999999999999999999999999999999999999999999987

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 [, ]. L35 is a basic protein of 60 to 70 amino-acid residues from the large subunit []. Like many basic polypeptides, L35 completely inhibits ornithine decarboxylase when present unbound in the cell, but the inhibitory function is abolished upon its incorporation into ribosomes []. It belongs to a family of ribosomal proteins, including L35 from bacteria, plant chloroplast, red algae chloroplasts and cyanelles. In plants it is a nuclear encoded gene product, which suggests a chloroplast-to-nucleus relocation during the evolution of higher plants [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2QBE_3 2QBG_3 3SGF_7 2QOV_3 3J0Y_6 3I22_3 3E1D_W 1VS6_3 2VHN_3 1VS8_3 ....

>KOG4316|consensus

Probab=93.60  E-value=0.024  Score=39.39  Aligned_cols=61  Identities=23%  Similarity=0.160  Sum_probs=56.5

Q ss_pred             cCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhC
Q psy9580           8 FKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM   68 (71)
Q Consensus         8 pKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~ll   68 (71)
                      -|-||-+++-+||+.-..|-..|.|+|+.-.+.+|+.-.+++|.--..-+++|-..+-+|+
T Consensus        78 GkrktvkaVldRFkRL~~G~WIr~h~Gr~Kkl~kK~~a~~krl~~~vfcnktQs~lLDKm~  138 (172)
T KOG4316|consen   78 GKRKTVKAVLDRFKRLHCGLWIRAHPGRHKKLYKKDEAWQKRLLYYVFCNKTQSELLDKMM  138 (172)
T ss_pred             cccccHHHHHHHHHhcccCeeeeecCchhhhhhhcCHHHHHHHHHhheechHHHHHHHHHh
Confidence            3678999999999999999999999999999999999999999999999999988887775

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	71
2aw4_3	64	Crystal Structure Of The Bacterial Ribosome From Es		1e-04
1vs6_3	65	Crystal Structure Of The Bacterial Ribosome From Es		1e-04
3bbo_5	159	Homology Model For The Spinach Chloroplast 50s Subu		3e-04

>pdb|2AW4|3 Chain 3, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli At 3.5 A Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 64

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 30/63 (47%), Positives = 35/63 (55%)
Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          KIKT   A KRF     G  K   A  RHILTKK+TK KR LR  A V K ++  V A +
Sbjct: 2  KIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIACL 61
Query: 69 PNS 71
          P +
Sbjct: 62 PYA 64

>pdb|1VS6|3 Chain 3, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 65

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 30/63 (47%), Positives = 35/63 (55%)
Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          KIKT   A KRF     G  K   A  RHILTKK+TK KR LR  A V K ++  V A +
Sbjct: 3  KIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIACL 62
Query: 69 PNS 71
          P +
Sbjct: 63 PYA 65

>pdb|3BBO|5 Chain 5, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 159

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/62 (38%), Positives = 38/62 (61%)
Query: 8   FKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAM 67
           +K+KT  ++ KRF +   G I R +A K+H+L KK+TK K +L  L  V +S+  +V   
Sbjct: 90  YKMKTHKASAKRFRVTGKGKIVRRRAGKQHLLAKKNTKRKNRLSKLIQVDRSDYDNVIGA 149
Query: 68  MP 69
           +P
Sbjct: 150 LP 151

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	71
3r8s_3	64	50S ribosomal protein L35; protein biosynthesis, R	6e-17
3v2d_8	65	50S ribosomal protein L35; ribosome associated inh	3e-16
3bbo_5	159	Ribosomal protein L35; large ribosomal subunit, sp	9e-16
2zjr_3	66	50S ribosomal protein L35; ribosome, large ribosom	9e-07

>3r8s_3 50S ribosomal protein L35; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2awb_3 2aw4_3 2i2v_3 2j28_3 2i2t_3* 2qao_3* 2qba_3* 2qbc_3* 2qbe_3 2qbg_3 2qbi_3* 2qbk_3* 2qov_3 2qox_3 2qoz_3* 2qp1_3* 2rdo_3 2vhm_3 2vhn_3 2wwq_7* ... Length = 64

 Score = 66.5 bits (163), Expect = 6e-17
 Identities = 30/61 (49%), Positives = 34/61 (55%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          KIKT   A KRF     G  K   A  RHILTKK+TK KR LR  A V K ++  V A +
Sbjct: 2  KIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIACL 61

Query: 69 P 69
          P
Sbjct: 62 P 62

>3v2d_8 50S ribosomal protein L35; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_a 2hgj_7 2hgq_7 2hgu_7 1vsa_a 2j03_8 2jl6_8 2jl8_8 2v47_8 2v49_8 2wdi_8 2wdj_8 2wdl_8 2wdn_8 2wh2_8 2wh4_8 2wrj_8 2wrl_8 2wro_8 2wrr_8 ... Length = 65

 Score = 64.6 bits (158), Expect = 3e-16
 Identities = 18/61 (29%), Positives = 29/61 (47%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KT   AKKR  I   G +   +  KRH+  +KS K  R+      + K     ++ ++
Sbjct: 3  KMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKLLL 62

Query: 69 P 69
          P
Sbjct: 63 P 63

>3bbo_5 Ribosomal protein L35; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 159

 Score = 65.9 bits (160), Expect = 9e-16
 Identities = 24/62 (38%), Positives = 37/62 (59%)

Query: 9   KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
           K+KT  ++ KRF +   G I R +A K+H+L KK+TK K +L  L  V +S+  +V   +
Sbjct: 91  KMKTHKASAKRFRVTGKGKIVRRRAGKQHLLAKKNTKRKNRLSKLIQVDRSDYDNVIGAL 150

Query: 69  PN 70
           P 
Sbjct: 151 PY 152

>2zjr_3 50S ribosomal protein L35; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.301.1.1 PDB: 2zjp_3* 1sm1_3 2zjq_3 3cf5_3* 3dll_3* 3pio_3* 3pip_3* 1nwy_3* 1nwx_3* 1xbp_3* 1nkw_3 1yl3_8 2b66_8 2b9n_8 2b9p_8 1pnu_3 1pny_3 1vor_5 1vou_5 1vow_5 ... Length = 66

 Score = 40.7 bits (95), Expect = 9e-07
 Identities = 19/62 (30%), Positives = 29/62 (46%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KT   AK+R  I   G +   ++ KRH  T KS    R       + K+  A ++ M+
Sbjct: 3  KMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKLML 62

Query: 69 PN 70
          P 
Sbjct: 63 PR 64

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	71
3v2d_8	65	50S ribosomal protein L35; ribosome associated inh	99.98
2zjr_3	66	50S ribosomal protein L35; ribosome, large ribosom	99.98
3r8s_3	64	50S ribosomal protein L35; protein biosynthesis, R	99.97
3bbo_5	159	Ribosomal protein L35; large ribosomal subunit, sp	99.94

>3v2d_8 50S ribosomal protein L35; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_a 2hgj_7 2hgq_7 2hgu_7 1vsa_a 2j03_8 2jl6_8 2jl8_8 2v47_8 2v49_8 2wdi_8 2wdj_8 2wdl_8 2wdn_8 2wh2_8 2wh4_8 2wrj_8 2wrl_8 2wro_8 2wrr_8 ...

Probab=99.98  E-value=1.7e-33  Score=167.85  Aligned_cols=65  Identities=28%  Similarity=0.296  Sum_probs=63.5

Q ss_pred             CcCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCCCC
Q psy9580           7 VFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS   71 (71)
Q Consensus         7 mpKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llpy~   71 (71)
                      |||||||+||+|||++||||+|+|++||++|++++||++++|+|++..+|+++|++.|++||||+
T Consensus         1 MPKmKT~~ga~KRFk~TgsGKikr~~a~k~H~l~kKs~krkR~Lr~~~~v~~~d~k~vk~lLpy~   65 (65)
T 3v2d_8            1 MPKMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKLLLPYE   65 (65)
T ss_dssp             -CCCCCCHHHHTTEEECTTSCEEEECSSCSSCCTTSCHHHHHHTTSEEECCHHHHHHHHHTCTTC
T ss_pred             CCCcccchhhhheeEEcCCCCEEeccCCCCCCccCCCHHHHHhcCCCEEECHHHHHHHHHhcCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999996

>2zjr_3 50S ribosomal protein L35; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: d.301.1.1 PDB: 2zjp_3* 1sm1_3 2zjq_3 3cf5_3* 3dll_3* 3pio_3* 3pip_3* 1nwy_3* 1nwx_3* 1xbp_3* 1nkw_3 1yl3_8 2b66_8 2b9n_8 2b9p_8 1pnu_3 1pny_3 1vor_5 1vou_5 1vow_5 ...

Probab=99.98  E-value=3.6e-33  Score=166.93  Aligned_cols=65  Identities=29%  Similarity=0.243  Sum_probs=64.3

Q ss_pred             CcCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCCCC
Q psy9580           7 VFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS   71 (71)
Q Consensus         7 mpKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llpy~   71 (71)
                      |||||||+||+|||++||||+|+|++||++|++++||++++|+|+++.+|+++|++.|++||||+
T Consensus         1 MPKmKT~~gaaKRFk~TgsGKikr~~a~k~H~l~kKs~krkR~Lr~~~~v~~~d~k~ik~lLp~~   65 (66)
T 2zjr_3            1 MPKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKLMLPRG   65 (66)
T ss_pred             CCCcccchhhhheeEEcCCCcEEeccCCCccCcccCCHHHHHhcCCCeeECHHHHHHHHHhcCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999995

>3r8s_3 50S ribosomal protein L35; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2awb_3 2aw4_3 2i2v_3 2j28_3 2i2t_3* 2qao_3* 2qba_3* 2qbc_3* 2qbe_3 2qbg_3 2qbi_3* 2qbk_3* 2qov_3 2qox_3 2qoz_3* 2qp1_3* 2rdo_3 2vhm_3 2vhn_3 2wwq_7* ...

Probab=99.97  E-value=5.6e-32  Score=160.80  Aligned_cols=64  Identities=47%  Similarity=0.479  Sum_probs=63.3

Q ss_pred             cCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCCCC
Q psy9580           8 FKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS   71 (71)
Q Consensus         8 pKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llpy~   71 (71)
                      ||||||+||+|||++||||+|+|++||++|++++||++++|+|++..+|+++|++.|++||||+
T Consensus         1 PKmKT~~~a~KRFk~TgsGKikr~~a~k~H~l~kKs~krkR~Lr~~~~v~~~d~k~vk~lLpy~   64 (64)
T 3r8s_3            1 PKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIACLPYA   64 (64)
T ss_dssp             CCCCCCTTTTTTCEECSSSCEEEECSSCSSSCTTSCHHHHHHTSSEEECCTTTHHHHHHHCTTC
T ss_pred             CCCccchhhhheeEEcCCCCEEeccCCCCCCccCCCHHHHHhcCCCEEECHHHHHHHHHHcCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999996

>3bbo_5 Ribosomal protein L35; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=99.94  E-value=2.8e-29  Score=170.47  Aligned_cols=67  Identities=36%  Similarity=0.476  Sum_probs=61.8

Q ss_pred             ccCcCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCCCC
Q psy9580           5 FSVFKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS   71 (71)
Q Consensus         5 ~~mpKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llpy~   71 (71)
                      ..|||||||+||+|||++||+|+|+|++||++|++++||++++|+||++.+|+++|++.|++||||+
T Consensus        87 ~~MPKMKThsgAaKRFKvTgSGKiKR~kAgkrHiLtkKS~KrKR~LRk~~~V~~aD~k~IKrlLPy~  153 (159)
T 3bbo_5           87 AKGYKMKTHKASAKRFRVTGKGKIVRRRAGKQHLLAKKNTKRKNRLSKLIQVDRSDYDNVIGALPYL  153 (159)
T ss_dssp             ----CCCCCHHHHTTCCBCSSSCBEEECSSCTTCCSSCCSSCTTSCSEEECCSTHHHHTTTTTTTC-
T ss_pred             cCCcccccchhhhheeEEcCCccEEeccCCCCCCcCcCCHHHHHhcCCCeeECHHHHHHHHHhcCcc
Confidence            3599999999999999999999999999999999999999999999999999999999999999995

---

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	71
d2qam31	64	d.301.1.1 (3:1-64) Ribosomal protein L35p {Escheri	2e-13
d2j0181	64	d.301.1.1 (8:2-65) Ribosomal protein L35p {Thermus	2e-13

>d2qam31 d.301.1.1 (3:1-64) Ribosomal protein L35p {Escherichia coli [TaxId: 562]} Length = 64

class: Alpha and beta proteins (a+b)
fold: L35p-like
superfamily: L35p-like
family: Ribosomal protein L35p
domain: Ribosomal protein L35p
species: Escherichia coli [TaxId: 562]

 Score = 56.2 bits (136), Expect = 2e-13
 Identities = 30/63 (47%), Positives = 35/63 (55%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          KIKT   A KRF     G  K   A  RHILTKK+TK KR LR  A V K ++  V A +
Sbjct: 2  KIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIACL 61

Query: 69 PNS 71
          P +
Sbjct: 62 PYA 64

>d2j0181 d.301.1.1 (8:2-65) Ribosomal protein L35p {Thermus thermophilus [TaxId: 274]} Length = 64

class: Alpha and beta proteins (a+b)
fold: L35p-like
superfamily: L35p-like
family: Ribosomal protein L35p
domain: Ribosomal protein L35p
species: Thermus thermophilus [TaxId: 274]

 Score = 56.2 bits (136), Expect = 2e-13
 Identities = 18/61 (29%), Positives = 29/61 (47%)

Query: 9  KIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMM 68
          K+KT   AKKR  I   G +   +  KRH+  +KS K  R+      + K     ++ ++
Sbjct: 2  KMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKLLL 61

Query: 69 P 69
          P
Sbjct: 62 P 62

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	71
d2qam31	64	Ribosomal protein L35p {Escherichia coli [TaxId: 5	99.97
d2j0181	64	Ribosomal protein L35p {Thermus thermophilus [TaxI	99.96
d2zjr31	63	Ribosomal protein L35p {Deinococcus radiodurans [T	99.96

>d2qam31 d.301.1.1 (3:1-64) Ribosomal protein L35p {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: L35p-like
superfamily: L35p-like
family: Ribosomal protein L35p
domain: Ribosomal protein L35p
species: Escherichia coli [TaxId: 562]

Probab=99.97  E-value=6.3e-32  Score=158.96  Aligned_cols=64  Identities=47%  Similarity=0.479  Sum_probs=63.4

Q ss_pred             cCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCCCC
Q psy9580           8 FKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS   71 (71)
Q Consensus         8 pKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llpy~   71 (71)
                      ||||||+||+|||++||||+|++++||++|++++||++++|+|+++.+|+++|++.|++||||+
T Consensus         1 PKmKT~k~akKRfkvT~sGKi~r~~agk~H~l~~Ks~krkR~lr~~~~v~~~d~k~ik~lLPYa   64 (64)
T d2qam31           1 PKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIACLPYA   64 (64)
T ss_dssp             CCCCCCTTTTTTCCCCSSSCCCBCCSSSSSCCTTSCHHHHHTTSSCBCCCSSSHHHHHHHCTTC
T ss_pred             CCCccchhhhhheeECCCCCEeeccCCCCcccccCCHHHHHhcCCCeeECHHHHHHHHHhCCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999996

>d2j0181 d.301.1.1 (8:2-65) Ribosomal protein L35p {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: L35p-like
superfamily: L35p-like
family: Ribosomal protein L35p
domain: Ribosomal protein L35p
species: Thermus thermophilus [TaxId: 274]

Probab=99.96  E-value=2e-31  Score=156.92  Aligned_cols=64  Identities=28%  Similarity=0.293  Sum_probs=62.7

Q ss_pred             cCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCCCC
Q psy9580           8 FKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMPNS   71 (71)
Q Consensus         8 pKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llpy~   71 (71)
                      ||||||+||+|||++||||+|++++||++|+++++|++++|+||++.+|+++|++.|++||||.
T Consensus         1 PKmKT~k~a~KRFk~T~sGKikr~~ag~~H~l~~Ks~k~kR~lr~~~~v~~~~~k~ik~lLPY~   64 (64)
T d2j0181           1 PKMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKLLLPYE   64 (64)
T ss_dssp             CCCCCCHHHHHHCEECSSSCEEECCTTTTTCSSCSCCSTTTSCSCEECCSSHHHHHHTTTTTC-
T ss_pred             CCCccchhhhhheeEcCCCCEEecccCCccccccCCHHHHHhcCCCeeECHHHHHHHHHhCCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999994

>d2zjr31 d.301.1.1 (3:2-64) Ribosomal protein L35p {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a+b)
fold: L35p-like
superfamily: L35p-like
family: Ribosomal protein L35p
domain: Ribosomal protein L35p
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.96  E-value=4.2e-30  Score=150.94  Aligned_cols=62  Identities=31%  Similarity=0.242  Sum_probs=61.7

Q ss_pred             cCcccCcccccceeecCCccEEeeccCcccccCCCChHHHHhhcCCeeeccCcHHHHHhhCC
Q psy9580           8 FKIKTKSSAKKRFFIRTGGVIKRGQAFKRHILTKKSTKVKRKLRGLASVHKSNIASVRAMMP   69 (71)
Q Consensus         8 pKmKT~k~aaKRFk~T~sGk~kr~~ag~~H~~~~Ks~krkR~Lrk~~~v~~~~~k~ik~llp   69 (71)
                      ||||||+||+|||++||||+|++.+||++|+++++|.+++|+|++..+|+++|++.|++|||
T Consensus         1 PKmKT~k~a~KRFk~T~sGKv~r~~agk~H~l~kKs~krkR~lr~~~~v~~~~~k~ik~~LP   62 (63)
T d2zjr31           1 PKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKLMLP   62 (63)
T ss_pred             CCcccchhhhhheeECCCCCEeeccCCcccccccCCHHHHHhcCCCceeCHHHHHHHHHHCC
Confidence            89999999999999999999999999999999999999999999999999999999999999