Query 027797
Match_columns 218
No_of_seqs 145 out of 1106
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 15:20:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027797.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027797hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00159 rpl13 ribosomal prote 100.0 3.7E-62 8.1E-67 401.9 14.1 143 64-209 1-143 (143)
2 PRK09216 rplM 50S ribosomal pr 100.0 3.6E-61 7.9E-66 396.4 13.2 143 65-210 1-143 (144)
3 TIGR01066 rplM_bact ribosomal 100.0 5.7E-59 1.2E-63 381.7 13.3 132 78-209 9-140 (140)
4 COG0102 RplM Ribosomal protein 100.0 1.4E-58 3.1E-63 382.1 12.3 144 65-211 1-145 (148)
5 PLN00205 ribisomal protein L13 100.0 1.5E-55 3.3E-60 376.9 14.3 138 78-215 13-150 (191)
6 PF00572 Ribosomal_L13: Riboso 100.0 1.2E-55 2.5E-60 356.9 9.1 127 82-208 1-127 (128)
7 cd00392 Ribosomal_L13 Ribosoma 100.0 1.6E-52 3.4E-57 333.0 11.3 114 82-195 1-114 (114)
8 KOG3203 Mitochondrial/chloropl 100.0 4E-53 8.8E-58 351.6 8.2 140 78-217 19-164 (165)
9 TIGR01077 L13_A_E ribosomal pr 100.0 1.4E-42 3E-47 285.4 10.3 117 83-211 1-118 (142)
10 PTZ00068 60S ribosomal protein 100.0 3.4E-41 7.4E-46 290.8 10.5 120 80-216 3-128 (202)
11 PRK06394 rpl13p 50S ribosomal 100.0 6.9E-41 1.5E-45 276.5 11.6 117 81-212 3-124 (146)
12 KOG3204 60S ribosomal protein 99.9 4.9E-23 1.1E-27 177.0 5.6 118 79-215 4-122 (197)
13 PLN02399 phospholipid hydroper 43.1 77 0.0017 28.2 6.2 31 19-49 24-56 (236)
14 PF12396 DUF3659: Protein of u 38.9 9 0.0002 28.0 -0.3 30 78-107 9-38 (64)
15 PRK03759 isopentenyl-diphospha 36.1 50 0.0011 27.5 3.7 46 79-132 5-51 (184)
16 PLN02982 galactinol-raffinose 31.1 69 0.0015 34.0 4.5 53 37-89 74-136 (865)
17 PF00436 SSB: Single-strand bi 29.2 56 0.0012 23.9 2.7 30 80-125 47-76 (104)
18 PRK15393 NUDIX hydrolase YfcD; 27.8 55 0.0012 27.3 2.6 44 79-131 9-53 (180)
19 PHA02754 hypothetical protein; 26.3 61 0.0013 24.0 2.3 16 117-132 43-58 (67)
20 COG0629 Ssb Single-stranded DN 25.5 64 0.0014 26.8 2.6 28 81-124 51-78 (167)
21 cd04496 SSB_OBF SSB_OBF: A sub 24.4 79 0.0017 22.8 2.7 31 79-125 42-72 (100)
22 PRK05853 hypothetical protein; 22.6 77 0.0017 26.9 2.6 29 81-125 43-71 (161)
23 PRK06752 single-stranded DNA-b 21.9 77 0.0017 24.6 2.3 29 81-125 47-75 (112)
24 PRK07772 single-stranded DNA-b 21.8 78 0.0017 27.5 2.5 22 91-124 59-80 (186)
25 KOG0023 Alcohol dehydrogenase, 21.3 1.3E+02 0.0028 29.0 4.1 34 79-127 181-214 (360)
26 PRK09010 single-stranded DNA-b 21.1 1E+02 0.0022 26.6 3.1 30 80-125 53-82 (177)
27 PRK07274 single-stranded DNA-b 20.7 83 0.0018 25.3 2.3 29 80-124 46-74 (131)
28 TIGR02150 IPP_isom_1 isopenten 20.5 74 0.0016 25.8 2.0 41 83-131 2-43 (158)
29 KOG3974 Predicted sugar kinase 20.3 24 0.00052 33.0 -1.0 34 80-115 132-165 (306)
No 1
>CHL00159 rpl13 ribosomal protein L13; Validated
Probab=100.00 E-value=3.7e-62 Score=401.92 Aligned_cols=143 Identities=61% Similarity=1.054 Sum_probs=139.5
Q ss_pred hhhccccCCCCCcCcCceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeec
Q 027797 64 WNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRR 143 (218)
Q Consensus 64 ~~kt~~~k~~~~~~~~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~ 143 (218)
||+||++++++ .+|+|+||||+||+||||||.||++|+|||||+|||++||||+|||||||+|.|||+||.+|.|++
T Consensus 1 ~~~t~~~~~~~---~~r~W~viDA~~~~lGRlAs~iA~~L~GKhKp~ytP~~d~Gd~VVViNa~kv~~TG~K~~~K~y~~ 77 (143)
T CHL00159 1 MNKTFIPSKDY---KNRKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVINAEKIKVTGNKTSQKFYVR 77 (143)
T ss_pred CCccccCCchh---cCCCEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCcCCCCEEEEEecceeEEeCchhhheEEEe
Confidence 57899999998 599999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCccCHHHHhhcChHHHHHHHHHccCCCCcchHHHhccceeecCCCCCccCCCCeeecc
Q 027797 144 HSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPI 209 (218)
Q Consensus 144 htgypGglk~~t~~~l~~r~P~~IikrAVrGMLPKn~lGr~~lkrLkVY~G~~hP~~~qkp~~l~~ 209 (218)
|+|||||+++.+++++++++|++||++||+||||||++||++|+||+||+|.+|||++|+|+.+++
T Consensus 78 htg~pGg~k~~~~~~~~~r~P~~il~~aV~gMLPkn~lgr~~~~rLkvy~G~~hph~aq~p~~~~~ 143 (143)
T CHL00159 78 HSGRPGGLKIETFEELQNRLPNRIIEKAVKGMLPKGPLGRKLFTKLKVYKGESHPHVAQKPIKINI 143 (143)
T ss_pred cCCCCCCcccccHHHHhhcCHHHHHHHHHHhcCCCChhHHHHHhCCEEeCCCCCCccccCCeecCC
Confidence 999999999999999999999999999999999999999999999999999999999999998864
No 2
>PRK09216 rplM 50S ribosomal protein L13; Reviewed
Probab=100.00 E-value=3.6e-61 Score=396.35 Aligned_cols=143 Identities=57% Similarity=0.953 Sum_probs=139.5
Q ss_pred hhccccCCCCCcCcCceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeecc
Q 027797 65 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH 144 (218)
Q Consensus 65 ~kt~~~k~~~~~~~~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~h 144 (218)
|+||++++++ ++++||||||+||+||||||+||++|+|||||+|||++||||+|||||||+|+|||+||++|.|++|
T Consensus 1 m~t~~~~~~~---~~~~W~viDA~~~~lGRlAs~IAk~L~GKhKp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~h 77 (144)
T PRK09216 1 MKTFSAKPAE---VERKWYVIDAEGKVLGRLASEVASILRGKHKPTFTPHVDTGDFVIVINAEKVKLTGKKLTDKIYYRH 77 (144)
T ss_pred CCcccCChhh---cCCCEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCCCCCCEEEEEeCceeEEcCchHhheeeEEe
Confidence 4699999998 5899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCCccCHHHHhhcChHHHHHHHHHccCCCCcchHHHhccceeecCCCCCccCCCCeeeccc
Q 027797 145 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIR 210 (218)
Q Consensus 145 tgypGglk~~t~~~l~~r~P~~IikrAVrGMLPKn~lGr~~lkrLkVY~G~~hP~~~qkp~~l~~~ 210 (218)
+|||||+++.+++++++++|++||++|||||||||++|+++|+||+||+|.+|||++|+|+.+++.
T Consensus 78 tg~pGglk~~~~~~~~~r~P~~il~~aVrgMLPkn~lgr~~~~rLkvy~G~~hp~~~q~p~~~~~~ 143 (144)
T PRK09216 78 SGYPGGLKEITFGELLAKKPERVIEKAVKGMLPKNPLGRAMFKKLKVYAGAEHPHAAQQPEVLEIK 143 (144)
T ss_pred cccCCCCEEecHHHHhhhCHHHHHHHHHHhcCCCCccHHHHHhCcEEeCCCCCCccccCCEecccC
Confidence 999999999999999999999999999999999999999999999999999999999999999875
No 3
>TIGR01066 rplM_bact ribosomal protein L13, bacterial type. This model distinguishes ribosomal protein L13 of bacteria and organelles from its eukarytotic and archaeal counterparts.
Probab=100.00 E-value=5.7e-59 Score=381.70 Aligned_cols=132 Identities=63% Similarity=1.054 Sum_probs=129.7
Q ss_pred cCceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeeccccccCCCCccCHH
Q 027797 78 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFD 157 (218)
Q Consensus 78 ~~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~htgypGglk~~t~~ 157 (218)
++++|+||||+||+||||||.||++|+|||||+|||++||||+|||||||+|+|||+||++|.|++|+|||||+++.+++
T Consensus 9 ~~r~W~viDA~~~~lGRLAs~iAk~L~GKhKp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~htg~pgg~k~~~~~ 88 (140)
T TIGR01066 9 KKRKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKVRLTGKKLEQKVYYRHSGYPGGLKSRTFE 88 (140)
T ss_pred hcccEEEEeCCCCchHHHHHHHHHHHhccCCCccCCCccCCCEEEEEeccEEEEeCchhhceeeEEEcccCCccccccHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcChHHHHHHHHHccCCCCcchHHHhccceeecCCCCCccCCCCeeecc
Q 027797 158 QLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPI 209 (218)
Q Consensus 158 ~l~~r~P~~IikrAVrGMLPKn~lGr~~lkrLkVY~G~~hP~~~qkp~~l~~ 209 (218)
++++++|++||++||+||||||.+|+++|+||+||+|.+|||++|+|+.+++
T Consensus 89 ~~~~r~P~~ii~~aVrGMLPkn~lgr~~l~rLkvy~G~~hp~~~q~p~~~~~ 140 (140)
T TIGR01066 89 EMIARKPERVLEHAVKGMLPKNRLGRKLFKKLKVYAGSEHPHEAQKPIVLDI 140 (140)
T ss_pred HhhhcCHHHHHHHHHHhcCCCCccHHHHHhCeEEeCCCCCChhhcCCeecCC
Confidence 9999999999999999999999999999999999999999999999998764
No 4
>COG0102 RplM Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-58 Score=382.06 Aligned_cols=144 Identities=55% Similarity=0.880 Sum_probs=137.2
Q ss_pred hhccccCCCCCcCcCceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeecc
Q 027797 65 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH 144 (218)
Q Consensus 65 ~kt~~~k~~~~~~~~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~h 144 (218)
|+|++++.++ .+++|+||||+|++||||||.||++|+|||||+||||+||||+|||||||+|+|||+|..+|.||+|
T Consensus 1 ~~t~~~k~~~---~~r~w~vIDA~g~vLGRLAs~VA~~Lrgkhkp~ytP~~d~Gd~ViVINAeKv~iTG~K~~~k~yy~h 77 (148)
T COG0102 1 MKTFTAKPSE---VERKWYVIDAEGKVLGRLASEVAKRLRGKHKPTYTPHVDTGDYVIVINAEKVVITGKKLTDKKYYRH 77 (148)
T ss_pred CceeccCccc---ccceEEEEeCCCCChHHHHHHHHHHHhcCCCCCcCcCcCCCCEEEEEeceeeEEecccccceEEEEe
Confidence 5788999998 6999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCCccCHHHHhh-cChHHHHHHHHHccCCCCcchHHHhccceeecCCCCCccCCCCeeecccc
Q 027797 145 SGRPGGMKEETFDQLQH-RIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRD 211 (218)
Q Consensus 145 tgypGglk~~t~~~l~~-r~P~~IikrAVrGMLPKn~lGr~~lkrLkVY~G~~hP~~~qkp~~l~~~~ 211 (218)
++||||+++.+++.+.. |.|++||++||+||||||++||++|+||+||+|.+|||.+|+|..+.++.
T Consensus 78 s~~~gglk~~t~~~~~~~r~P~ri~~~AVrGMLPk~~lGr~~~krLkVy~G~~h~~~aq~p~~l~~~~ 145 (148)
T COG0102 78 SGYPGGLKNPTRGGPLAPRRPERILERAVRGMLPKNPLGRAALKRLKVYAGIPHPHEAQKPEALELKL 145 (148)
T ss_pred eccCCcccccccccccccCCHHHHHHHHHhccCCCChhHHHHHhCceEecCCCCccccccchhhhhhc
Confidence 99999999999955555 99999999999999999999999999999999999999999999887653
No 5
>PLN00205 ribisomal protein L13 family protein; Provisional
Probab=100.00 E-value=1.5e-55 Score=376.87 Aligned_cols=138 Identities=34% Similarity=0.613 Sum_probs=133.0
Q ss_pred cCceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeeccccccCCCCccCHH
Q 027797 78 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFD 157 (218)
Q Consensus 78 ~~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~htgypGglk~~t~~ 157 (218)
-.++||||||+||+||||||+||++|+|||||+|||++||||+|||||||+|.|||+||.+|.|++|||||||+++++++
T Consensus 13 ~~r~W~VIDA~~~iLGRLAS~IAk~L~GKhKP~ytP~~D~GD~VVVINAekI~lTG~K~~~K~Y~~htgypGglk~~~~~ 92 (191)
T PLN00205 13 EGLRWRVFDAKGQVLGRLASQISTVLQGKDKPTYAPNRDDGDICIVLNAKDISVTGRKLTDKFYRWHTGYIGHLKERSLK 92 (191)
T ss_pred CCCcEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCcCCCCEEEEEeccEEEEeCChhhcceEEEecCCCCCcccccHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcChHHHHHHHHHccCCCCcchHHHhccceeecCCCCCccCCCCeeeccccchhh
Q 027797 158 QLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQ 215 (218)
Q Consensus 158 ~l~~r~P~~IikrAVrGMLPKn~lGr~~lkrLkVY~G~~hP~~~qkp~~l~~~~~~~~ 215 (218)
++++++|++||++||+||||+|.+|+.+|+||+||+|.+|||++|+|+++++--.+++
T Consensus 93 ~~~~r~P~~Il~kAVrGMLPkn~lr~~~~krLkVY~G~~hp~~~q~p~~~~~p~~~~~ 150 (191)
T PLN00205 93 DQMAKDPTEVIRKAVLRMLPRNRLRDDRDRKLRIFAGSEHPFGDKPLEPFVMPPRQVR 150 (191)
T ss_pred HHhccCHHHHHHHHHHhcCCCCchHHHHHhCCEEECCCCCChhccCCeEecCChHHhh
Confidence 9999999999999999999999999999999999999999999999998877655554
No 6
>PF00572 Ribosomal_L13: Ribosomal protein L13; InterPro: IPR005822 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. 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 L13 is one of the proteins from the large ribosomal subunit []. In Escherichia coli, L13 is known to be one of the early assembly proteins of the 50S ribosomal subunit.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 4A17_I 4A1E_I 4A1A_I 4A1C_I 3D5B_N 3MS1_J 1VSP_H 3PYT_J 3PYO_J 3PYV_J ....
Probab=100.00 E-value=1.2e-55 Score=356.86 Aligned_cols=127 Identities=56% Similarity=0.943 Sum_probs=125.6
Q ss_pred EEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeeccccccCCCCccCHHHHhh
Q 027797 82 WYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQH 161 (218)
Q Consensus 82 W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~htgypGglk~~t~~~l~~ 161 (218)
|+||||+||+||||||.||++|+|||||+|||+.||||+|||||||+|++||++|.+|.|++|++||||+++.+++++++
T Consensus 1 W~viDA~~~~lGRLAs~iAk~L~GKhk~~y~p~~d~Gd~VvViNae~i~~tG~k~~~k~y~~h~~~~g~~~~~~~~~~~~ 80 (128)
T PF00572_consen 1 WYVIDAKGQILGRLASKIAKLLLGKHKPTYTPNVDCGDHVVVINAEKIVLTGKKWRQKVYYRHTGYPGGLKNPTAKGLHE 80 (128)
T ss_dssp EEEEETTTBBHHHHHHHHHHHHCTTSSTSSBTTSSTTEEEEEECGGGBEESSHHHHHHHHHHEHSSSTSCEEEECHHHHC
T ss_pred CEEEeCCCCchHHHHHHHHHHHhCCCCCccCcCccCCCEEEEEcCeeeEecCCeecceEEEeecccchhhcccchhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cChHHHHHHHHHccCCCCcchHHHhccceeecCCCCCccCCCCeeec
Q 027797 162 RIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELP 208 (218)
Q Consensus 162 r~P~~IikrAVrGMLPKn~lGr~~lkrLkVY~G~~hP~~~qkp~~l~ 208 (218)
++|++||++||+||||+|.+|+++|+||+||+|.+|||++|+|++++
T Consensus 81 ~~P~~i~~~aVrgMLP~n~~g~~~l~rL~vy~g~~hp~~~~~~~~~~ 127 (128)
T PF00572_consen 81 KDPSRILKRAVRGMLPKNKLGREALKRLKVYPGEPHPHAAQKPVVLE 127 (128)
T ss_dssp SSHHHHHHHHHHTTSTTSHHHHHHHTTEEEESSSSCSTTSSSCBEEE
T ss_pred cCHHHHHHHHHHHHCCCChhhhHHhhceEEECCCCCChhccCCEeCC
Confidence 99999999999999999999999999999999999999999999987
No 7
>cd00392 Ribosomal_L13 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the polypeptide exit site. It interacts with proteins L3 and L6, and forms an extensive network of interactions with 23S rRNA. L13 has been identified as a homolog of the human breast basic conserved protein 1 (BBC1), a protein identified through its increased expression in breast cancer. L13 expression is also upregulated in a variety of human gastrointestinal cancers, suggesting it may play a role in the etiology of a variety of human malignancies.
Probab=100.00 E-value=1.6e-52 Score=333.02 Aligned_cols=114 Identities=56% Similarity=0.955 Sum_probs=113.0
Q ss_pred EEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeeccccccCCCCccCHHHHhh
Q 027797 82 WYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQH 161 (218)
Q Consensus 82 W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~htgypGglk~~t~~~l~~ 161 (218)
|+||||+||+||||||.||++|+|||||+|||++||||+|||||||+|.|||+||.+|.|++|++||||+++.+++++++
T Consensus 1 w~viDA~~~~lGRlAs~iA~~L~gKhKp~y~p~~d~Gd~VvViNa~~i~~tG~k~~~k~y~~~~~~~g~~~~~~~~~~~~ 80 (114)
T cd00392 1 WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVYYRHTGYPGGLKNPTAGPLHP 80 (114)
T ss_pred CEEEeCCCCchHHHHHHHHHHHcCCCCCCcCCCccCCCEEEEEeccEEEEeCchhhccceEEeccCCCCCccCCcchhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cChHHHHHHHHHccCCCCcchHHHhccceeecCC
Q 027797 162 RIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGP 195 (218)
Q Consensus 162 r~P~~IikrAVrGMLPKn~lGr~~lkrLkVY~G~ 195 (218)
++|++||++||+||||||.+|+++|+||+||+|+
T Consensus 81 ~~P~~il~~aV~gMLPkn~~g~~~l~rLkvy~g~ 114 (114)
T cd00392 81 RAPERILKRAVRGMLPKNKLGRAALKRLKVYEGA 114 (114)
T ss_pred hCHHHHHHHHHHhcCCCChhHHHHHhCcEEeCCC
Confidence 9999999999999999999999999999999985
No 8
>KOG3203 consensus Mitochondrial/chloroplast ribosomal protein L13 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4e-53 Score=351.60 Aligned_cols=140 Identities=48% Similarity=0.731 Sum_probs=135.5
Q ss_pred cCceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeeccccccCCCCccCHH
Q 027797 78 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFD 157 (218)
Q Consensus 78 ~~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~htgypGglk~~t~~ 157 (218)
++|.|++|||++|+||||||.||..|+|||||+|||..||||+|||+||++|.|||+||++|+|++|+|||||+++.++.
T Consensus 19 faRvW~vvDa~~q~lGrLAs~ia~~L~GkhKPiYhP~~DcGD~VVV~N~~~Ia~sG~K~~qk~Y~~HsGyPG~lk~~~~~ 98 (165)
T KOG3203|consen 19 FARVWHVVDAKQQPLGRLASQIATTLQGKHKPIYHPSTDCGDHVVVTNCKKIAFSGKKWEQKIYRSHSGYPGGLKQTTAD 98 (165)
T ss_pred HhhhheeeccccCchHHHHHHHHHHHhhccCCccCCccCCCCEEEEecchhheeccchhhhhhhhhcCCCCCchhhhHHH
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcChHHHHHHHHHccCCCCcchHHHhccceeecCCCCC------ccCCCCeeeccccchhhhc
Q 027797 158 QLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHP------HEAQQPIELPIRDKRIQKQ 217 (218)
Q Consensus 158 ~l~~r~P~~IikrAVrGMLPKn~lGr~~lkrLkVY~G~~hP------~~~qkp~~l~~~~~~~~~~ 217 (218)
+++.++|++|+++||+||||||.+||+.|+||+||+|++|| ++.++|..+|.++++++.+
T Consensus 99 q~~~rdp~~Iv~~AV~gMLPkN~Lrr~~~~rL~lf~g~e~p~~~Ni~~~~~q~~~vp~r~~e~~~~ 164 (165)
T KOG3203|consen 99 QLADRDPCRIVRLAVYGMLPKNLLRRRRMQRLHLFPGEEHPEKVNIGSELHQPQGVPKRLDEYTFE 164 (165)
T ss_pred HHhhhCHHHHHHHHHHhhCccchHHHHHhheeeccCCccCchhhhhHHHhccccCCCchhHHHhhc
Confidence 99999999999999999999999999999999999999999 8889999999999988765
No 9
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic. This model represents ribosomal protein of L13 from the Archaea and from the eukaryotic cytosol. Bacterial and organellar forms are represented by TIGR01066.
Probab=100.00 E-value=1.4e-42 Score=285.41 Aligned_cols=117 Identities=34% Similarity=0.485 Sum_probs=109.5
Q ss_pred EEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeeccccccCCCCccCHHHHhhc
Q 027797 83 YVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHR 162 (218)
Q Consensus 83 ~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~htgypGglk~~t~~~l~~r 162 (218)
+||||+||+||||||.||+.|+ |||+|||||||+|.+||+|+.+|.||+|+.++|.....++++++++
T Consensus 1 ivIDA~~~vlGRLAs~IA~~L~------------~Gd~VvViNaeki~~TG~k~~~k~~y~~~~~~g~~~~~~~~~~~~r 68 (142)
T TIGR01077 1 TVIDGSGHILGRLASVVAKQLL------------NGEKVVVVNAEKIVISGNFYRNKLKYKEFLRKRTLTNPRRGPFFPR 68 (142)
T ss_pred CEEeCCCCchHHHHHHHHHHHh------------cCCEEEEEechHheecCchhhheeEEEEECCCCCcccCCHHHhhhc
Confidence 5899999999999999999996 9999999999999999999999999999965555444488999999
Q ss_pred ChHHHHHHHHHccCCCC-cchHHHhccceeecCCCCCccCCCCeeecccc
Q 027797 163 IPERIIEHAVRGMLPKG-RLGRELFTHLKVYKGPNHPHEAQQPIELPIRD 211 (218)
Q Consensus 163 ~P~~IikrAVrGMLPKn-~lGr~~lkrLkVY~G~~hP~~~qkp~~l~~~~ 211 (218)
+|++||++||+||||+| .+|+++|+||+||+|.+|||++||++++|.++
T Consensus 69 ~P~~il~~aVrGMLPk~~~~Gr~~~krLkvy~G~~h~~~~qk~~~~~~a~ 118 (142)
T TIGR01077 69 APSRIFRRTVRGMLPHKTARGRAALRRLKVYVGIPPELDKKKRVVVPEAL 118 (142)
T ss_pred CHHHHHHHHHHHhCCCCChhHHHHHhCcEEecCCCCCccccCccccChhh
Confidence 99999999999999996 89999999999999999999999999999986
No 10
>PTZ00068 60S ribosomal protein L13a; Provisional
Probab=100.00 E-value=3.4e-41 Score=290.81 Aligned_cols=120 Identities=28% Similarity=0.491 Sum_probs=110.9
Q ss_pred ceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeeccccccCCCCccC----
Q 027797 80 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEET---- 155 (218)
Q Consensus 80 k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~htgypGglk~~t---- 155 (218)
.+|+||||+||+||||||+||+.|+ |||+|||||||+|+|||+++++|.||+|. ++..+
T Consensus 3 ~~w~vIDA~g~vLGRLAS~VAk~Ll------------~Gd~VVVVNaeki~iTG~k~~~K~~y~~~-----lk~~~~~nP 65 (202)
T PTZ00068 3 KKVIVIDCKGHLLGRLASVVAKELL------------LGQKIVVVRCEDLNISGSLFRNKVKYEEF-----LRKRMNTNP 65 (202)
T ss_pred CceEEEECCCCcHHHHHHHHHHHHh------------CCCEEEEEecceeEeecchhhheeeeEee-----eEeeccCCC
Confidence 3799999999999999999999998 99999999999999999999999999982 33333
Q ss_pred -HHHHhhcChHHHHHHHHHccCCC-CcchHHHhccceeecCCCCCccCCCCeeeccccchhhh
Q 027797 156 -FDQLQHRIPERIIEHAVRGMLPK-GRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQK 216 (218)
Q Consensus 156 -~~~l~~r~P~~IikrAVrGMLPK-n~lGr~~lkrLkVY~G~~hP~~~qkp~~l~~~~~~~~~ 216 (218)
.+++++|.|++||++|||||||| |.+|+++|+||+||+|.||||++++++++|.+++.++.
T Consensus 66 ~~g~~~~r~P~~Il~raVrGMLPkk~~~Gr~alkrLkVy~G~php~~~~k~~vvp~A~r~~rl 128 (202)
T PTZ00068 66 RRGPFHHRAPSDIFWRTVRGMLPHKTKRGAAALKRLKVFEGVPAPYDKVKRVVIPSALRVLRL 128 (202)
T ss_pred CcchhcccCHHHHHHHHHhhhCCCCChhHHHHHhCCEEecCCCCchhccCcccccchhhhhcc
Confidence 58999999999999999999997 89999999999999999999999999999999866554
No 11
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed
Probab=100.00 E-value=6.9e-41 Score=276.50 Aligned_cols=117 Identities=34% Similarity=0.477 Sum_probs=106.6
Q ss_pred eEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeeccccccCCCCcc----CH
Q 027797 81 TWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEE----TF 156 (218)
Q Consensus 81 ~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~htgypGglk~~----t~ 156 (218)
.-+||||+||+|||||+.||++|+ +||+|||||||+|.+||+|+.+ |++|++|+ |.+.. ++
T Consensus 3 ~~~viDA~~~vlGRLAs~IA~~L~------------~Gd~VVViNa~kv~~tG~K~~~--~~~y~~~~-~~k~~~np~~~ 67 (146)
T PRK06394 3 AMVVIDAEGQILGRLASYVAKRLL------------EGEEVVIVNAEKAVITGNRERV--IEKYKQRR-ERGSHYNPYRN 67 (146)
T ss_pred ccEEEECCCCchHHHHHHHHHHHh------------CCCEEEEEechheEecCchhhh--eeeEeCCC-CCcccCCCCCh
Confidence 468999999999999999999999 6999999999999999999876 55555555 45555 78
Q ss_pred HHHhhcChHHHHHHHHHccCC-CCcchHHHhccceeecCCCCCccCCCCeeeccccc
Q 027797 157 DQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDK 212 (218)
Q Consensus 157 ~~l~~r~P~~IikrAVrGMLP-Kn~lGr~~lkrLkVY~G~~hP~~~qkp~~l~~~~~ 212 (218)
+++++++|++||++||+|||| ||++|+++|+||+||+|.+|||++|+|+++++++.
T Consensus 68 ~~~~~r~P~~il~~AV~gMLP~kn~~gr~~~~rLkvy~G~~h~~~~qkp~~~~~a~~ 124 (146)
T PRK06394 68 GPKYPRRPDRIFKRTIRGMLPYKKPRGREALKRLKVYVGVPKELEGKEFEVIDEADL 124 (146)
T ss_pred HHhhhcCHHHHHHHHHHhcCCCCChhHHHHHhCcEEecCCCCCcccCCCEEecHHHH
Confidence 999999999999999999999 89999999999999999999999999999999775
No 12
>KOG3204 consensus 60S ribosomal protein L13a [Translation, ribosomal structure and biogenesis]
Probab=99.87 E-value=4.9e-23 Score=176.98 Aligned_cols=118 Identities=30% Similarity=0.556 Sum_probs=106.9
Q ss_pred CceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeEeCcccccceeeccccccCCCCccCHHH
Q 027797 79 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQ 158 (218)
Q Consensus 79 ~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~iTG~K~~~K~Y~~htgypGglk~~t~~~ 158 (218)
..+-.+||+.||++||||+.||+.|+ .|+.||||.||.|+|||+.|++|-|.++.- + ..++
T Consensus 4 ~~~~~vidg~~hllGrlAa~vaK~ll------------~g~kvvvvr~E~i~isg~f~r~k~~lrk~~---~----~ng~ 64 (197)
T KOG3204|consen 4 EVKLVVIDGRGHLLGRLAAIVAKQLL------------LGRKVVVVRCEEINISGNFYRNKLFLRKRL---N----RNGP 64 (197)
T ss_pred eEEEeeccchhhhhhhHHHHHHHHHh------------cCCeEEEEEEeEEEEecceecchHHHhhhh---c----ccCc
Confidence 35778999999999999999999998 999999999999999999999996665532 1 1278
Q ss_pred HhhcChHHHHHHHHHccCCC-CcchHHHhccceeecCCCCCccCCCCeeeccccchhh
Q 027797 159 LQHRIPERIIEHAVRGMLPK-GRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQ 215 (218)
Q Consensus 159 l~~r~P~~IikrAVrGMLPK-n~lGr~~lkrLkVY~G~~hP~~~qkp~~l~~~~~~~~ 215 (218)
+|++.|++||+++|+||+|+ +++|+.++++|++|+|.++|++.|++.++|.+.++++
T Consensus 65 ~hfr~ps~i~~~~vrgm~~~kt~rg~aal~~l~~~eGip~~~dk~~r~v~p~a~~v~~ 122 (197)
T KOG3204|consen 65 FHFRAPSRILQKAVRGMYPHKTKRGRAALERLRVFEGIPPPYDKQKRLVVPVAFQVLR 122 (197)
T ss_pred chhhhHHHHHHHhhccccccCCCccHHHHHHHHHhCCCCChhhhcCCccCCcceeeec
Confidence 99999999999999999995 8999999999999999999999999999999988775
No 13
>PLN02399 phospholipid hydroperoxide glutathione peroxidase
Probab=43.07 E-value=77 Score=28.24 Aligned_cols=31 Identities=29% Similarity=0.435 Sum_probs=21.0
Q ss_pred CCCCcccccccccccccCCCCCC--Cccccccc
Q 027797 19 SSSSSFKTLNTGTTISSSTTPFL--GFSVASAK 49 (218)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~ 49 (218)
+++++|.--.++.++..+.++|+ |||++.+.
T Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 (236)
T PLN02399 24 PPSMAFLVPSLKSSTGISKSAFLSNGFSLKSPN 56 (236)
T ss_pred CCccccccceeeeccccccchhhccccccccCC
Confidence 33455555556677777777777 89888764
No 14
>PF12396 DUF3659: Protein of unknown function (DUF3659) ; InterPro: IPR022124 This domain family is found in bacteria and eukaryotes, and is approximately 70 amino acids in length.
Probab=38.92 E-value=9 Score=28.01 Aligned_cols=30 Identities=27% Similarity=0.387 Sum_probs=25.4
Q ss_pred cCceEEEEeCCCCCchhhHHHHHHHHhcCC
Q 027797 78 SDKTWYVVDATDKILGRLASTIAIHIRGKN 107 (218)
Q Consensus 78 ~~k~W~vIDA~g~iLGRLAS~VAk~L~GKh 107 (218)
..+.=.|+|..|.++|||..=-++.|.|+-
T Consensus 9 Vnk~G~V~d~~G~~vG~vveGd~k~L~G~~ 38 (64)
T PF12396_consen 9 VNKDGNVVDDDGNVVGRVVEGDPKKLVGKK 38 (64)
T ss_pred ECCCCeEECCCCCEEEEEecCCHHHhcCCc
Confidence 455567999999999999999999998774
No 15
>PRK03759 isopentenyl-diphosphate delta-isomerase; Provisional
Probab=36.12 E-value=50 Score=27.46 Aligned_cols=46 Identities=11% Similarity=0.108 Sum_probs=31.3
Q ss_pred CceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecc-eeeEe
Q 027797 79 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAE-KVAVS 132 (218)
Q Consensus 79 ~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINae-kI~iT 132 (218)
...|.++|..|..+|+.....+....|. ||+.+ .|+|+|.+ +|.+.
T Consensus 5 ~E~~~~vd~~~~~~g~~~r~~~~~~~~~----~h~av----~v~i~~~~g~vLL~ 51 (184)
T PRK03759 5 TELVVLLDEQGVPTGTAEKAAAHTADTP----LHLAF----SCYLFDADGRLLVT 51 (184)
T ss_pred ceeEEEECCCCCCcccccHHHHHhcCCC----eeeEE----EEEEEcCCCeEEEE
Confidence 3479999999999999888888644444 23322 47777754 45553
No 16
>PLN02982 galactinol-raffinose galactosyltransferase/ghydrolase, hydrolyzing O-glycosyl compounds
Probab=31.09 E-value=69 Score=34.04 Aligned_cols=53 Identities=23% Similarity=0.545 Sum_probs=35.3
Q ss_pred CCCCCCcccccccc--cccc----ccccc----chhhhhhccccCCCCCcCcCceEEEEeCCC
Q 027797 37 TTPFLGFSVASAKS--TSPL----NTKRS----FKDIWNNTWYPKAADHRHSDKTWYVVDATD 89 (218)
Q Consensus 37 ~~~~~~~~~~~~~~--~~~~----~~~~~----~~~~~~kt~~~k~~~~~~~~k~W~vIDA~g 89 (218)
..-|+||+...+++ +.|+ +.|+| |+..||..|+-..+.-+-.+-||+++|..+
T Consensus 74 ~g~FlG~~~~~~~srhv~~lG~l~~~rFms~FRfK~WWmt~~vG~~G~Dip~ETQ~llle~~~ 136 (865)
T PLN02982 74 KGGFLGFTKESPSDRLTNSLGKFEGRDFLSIFRFKTWWSTMWIGSSGSDLQMETQWVLLKVPE 136 (865)
T ss_pred cceEEeeecCCCccceeeecccccCceEEeeeehhhhccchhhcCCCCCCChhheEEEEEcCC
Confidence 45699998777652 2332 33433 378899888776444345567999999986
No 17
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=29.24 E-value=56 Score=23.86 Aligned_cols=30 Identities=33% Similarity=0.488 Sum_probs=20.3
Q ss_pred ceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEe
Q 027797 80 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 125 (218)
Q Consensus 80 k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVIN 125 (218)
..|+=+-+ .|.+|..++..|. .||.|.|.-
T Consensus 47 ~~~~~v~~----~g~~A~~~~~~l~------------kG~~V~V~G 76 (104)
T PF00436_consen 47 TDWINVVA----WGKLAENVAEYLK------------KGDRVYVEG 76 (104)
T ss_dssp EEEEEEEE----EHHHHHHHHHH--------------TT-EEEEEE
T ss_pred eEEEEEEe----eeecccccceEEc------------CCCEEEEEE
Confidence 35666544 4889999999986 899888764
No 18
>PRK15393 NUDIX hydrolase YfcD; Provisional
Probab=27.79 E-value=55 Score=27.32 Aligned_cols=44 Identities=11% Similarity=0.198 Sum_probs=29.4
Q ss_pred CceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecc-eeeE
Q 027797 79 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAE-KVAV 131 (218)
Q Consensus 79 ~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINae-kI~i 131 (218)
..-|.|+|..|+++|+.....+.. .|. +| .+-.|+|+|.+ +|.+
T Consensus 9 ~e~~~~~d~~~~~~g~~~~~~~~~-~~~----~h----~~~~v~v~~~~g~iLL 53 (180)
T PRK15393 9 TEWVDIVNENNEVIAQASREQMRA-QCL----RH----RATYIVVHDGMGKILV 53 (180)
T ss_pred ceEEEEECCCCCEeeEEEHHHHhh-CCC----ce----EEEEEEEECCCCeEEE
Confidence 457999999999999986555553 222 12 34578888864 4444
No 19
>PHA02754 hypothetical protein; Provisional
Probab=26.34 E-value=61 Score=23.98 Aligned_cols=16 Identities=19% Similarity=0.557 Sum_probs=13.8
Q ss_pred CCCEEEEEecceeeEe
Q 027797 117 MGAYVIVVNAEKVAVS 132 (218)
Q Consensus 117 ~Gd~VVVINaekI~iT 132 (218)
.||++|||-|+.|.+.
T Consensus 43 SGdkIVVi~aD~I~i~ 58 (67)
T PHA02754 43 SGDKIVVITADAIKIE 58 (67)
T ss_pred cCCEEEEEEcceEEEE
Confidence 6999999999988774
No 20
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=25.48 E-value=64 Score=26.80 Aligned_cols=28 Identities=36% Similarity=0.544 Sum_probs=22.8
Q ss_pred eEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEE
Q 027797 81 TWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVV 124 (218)
Q Consensus 81 ~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVI 124 (218)
.|+=| -+.|++|..++++|+ .|+.|+|.
T Consensus 51 ~~~~v----v~wgk~Ae~~~~yl~------------KG~~V~Ve 78 (167)
T COG0629 51 DWIRV----VIWGKLAENAAEYLK------------KGSLVYVE 78 (167)
T ss_pred ceEEE----EEehHHHHHHHHHhc------------CCCEEEEE
Confidence 56655 367889999999997 79998886
No 21
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=24.39 E-value=79 Score=22.75 Aligned_cols=31 Identities=32% Similarity=0.516 Sum_probs=23.5
Q ss_pred CceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEe
Q 027797 79 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 125 (218)
Q Consensus 79 ~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVIN 125 (218)
...|+=+-+ -|.+|..+++.|+ .||.|+|.-
T Consensus 42 ~~~~~~v~~----~g~~a~~~~~~~~------------kG~~V~v~G 72 (100)
T cd04496 42 ETDWIRVVA----FGKLAENAAKYLK------------KGDLVYVEG 72 (100)
T ss_pred ccEEEEEEE----EhHHHHHHHHHhC------------CCCEEEEEE
Confidence 346776654 4569999999887 899998864
No 22
>PRK05853 hypothetical protein; Validated
Probab=22.57 E-value=77 Score=26.91 Aligned_cols=29 Identities=34% Similarity=0.508 Sum_probs=23.1
Q ss_pred eEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEe
Q 027797 81 TWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 125 (218)
Q Consensus 81 ~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVIN 125 (218)
.|+-|- +.|++|..++++|. .|+.|+|.-
T Consensus 43 ~wi~V~----~wg~lAe~v~~~L~------------KG~~V~V~G 71 (161)
T PRK05853 43 LFITVN----CWGRLVTGVGAALG------------KGAPVIVVG 71 (161)
T ss_pred cEEEEE----EEhHHHHHHHHHcC------------CCCEEEEEE
Confidence 565443 67889999999996 799998874
No 23
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=21.88 E-value=77 Score=24.58 Aligned_cols=29 Identities=10% Similarity=0.120 Sum_probs=22.6
Q ss_pred eEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEe
Q 027797 81 TWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 125 (218)
Q Consensus 81 ~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVIN 125 (218)
.|+=+ .+.|++|..++++|. .||.|.|.-
T Consensus 47 ~~~~v----~~wg~~Ae~~~~~l~------------KG~~V~V~G 75 (112)
T PRK06752 47 DFINC----VVWRKSAENVTEYCT------------KGSLVGITG 75 (112)
T ss_pred EEEEE----EEehHHHHHHHHhcC------------CCCEEEEEE
Confidence 67655 367789999999986 798888763
No 24
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=21.76 E-value=78 Score=27.49 Aligned_cols=22 Identities=32% Similarity=0.371 Sum_probs=19.4
Q ss_pred CchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEE
Q 027797 91 ILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVV 124 (218)
Q Consensus 91 iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVI 124 (218)
+.|++|..+|+.|. .||.|+|.
T Consensus 59 ~Wg~~Ae~va~~L~------------KGd~V~V~ 80 (186)
T PRK07772 59 IWRQAAENVAESLT------------KGMRVIVT 80 (186)
T ss_pred EecHHHHHHHHhcC------------CCCEEEEE
Confidence 67889999999986 89999987
No 25
>KOG0023 consensus Alcohol dehydrogenase, class V [Secondary metabolites biosynthesis, transport and catabolism]
Probab=21.34 E-value=1.3e+02 Score=29.00 Aligned_cols=34 Identities=26% Similarity=0.394 Sum_probs=29.7
Q ss_pred CceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecc
Q 027797 79 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAE 127 (218)
Q Consensus 79 ~k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINae 127 (218)
.-+|+-|-+-|= ||.+|.+.||- +|-+|+||-..
T Consensus 181 pG~~vgI~GlGG-LGh~aVq~AKA--------------MG~rV~vis~~ 214 (360)
T KOG0023|consen 181 PGKWVGIVGLGG-LGHMAVQYAKA--------------MGMRVTVISTS 214 (360)
T ss_pred CCcEEEEecCcc-cchHHHHHHHH--------------hCcEEEEEeCC
Confidence 568999998888 99999999996 59999999743
No 26
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=21.12 E-value=1e+02 Score=26.55 Aligned_cols=30 Identities=27% Similarity=0.485 Sum_probs=23.6
Q ss_pred ceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEe
Q 027797 80 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVN 125 (218)
Q Consensus 80 k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVIN 125 (218)
-.||=| .+.|++|..++++|+ .|+.|.|.-
T Consensus 53 t~w~~V----~~fgk~Ae~~~~~L~------------KGs~V~VeG 82 (177)
T PRK09010 53 TEWHRV----VLFGKLAEVAGEYLR------------KGSQVYIEG 82 (177)
T ss_pred eEEEEE----EEehhHHHHHHHhcC------------CCCEEEEEE
Confidence 368777 467789999999997 788887753
No 27
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=20.66 E-value=83 Score=25.29 Aligned_cols=29 Identities=24% Similarity=0.338 Sum_probs=23.3
Q ss_pred ceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEE
Q 027797 80 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVV 124 (218)
Q Consensus 80 k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVI 124 (218)
-.|+-|- +.|++|..++++|. .|+.|.|-
T Consensus 46 t~w~~v~----~fg~~Ae~v~~~l~------------KG~~V~V~ 74 (131)
T PRK07274 46 ADFINVV----LWGKLAETLASYAS------------KGSLISID 74 (131)
T ss_pred EEEEEEE----EehHHHHHHHHHcC------------CCCEEEEE
Confidence 4688774 45889999999986 79988875
No 28
>TIGR02150 IPP_isom_1 isopentenyl-diphosphate delta-isomerase, type 1. This model represents type 1 of two non-homologous families of the enzyme isopentenyl-diphosphate delta-isomerase (IPP isomerase). IPP is an essential building block for many compounds, including enzyme cofactors, sterols, and prenyl groups. This inzyme interconverts isopentenyl diphosphate and dimethylallyl diphosphate.
Probab=20.54 E-value=74 Score=25.79 Aligned_cols=41 Identities=17% Similarity=0.207 Sum_probs=28.2
Q ss_pred EEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecc-eeeE
Q 027797 83 YVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAE-KVAV 131 (218)
Q Consensus 83 ~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~d~Gd~VVVINae-kI~i 131 (218)
.|+|..|+.+|+.....+....|- ||. +-.|+|+|.+ +|.+
T Consensus 2 ~~~d~~~~~~g~~~r~~~~~~~g~----~h~----~v~v~v~~~~g~vLl 43 (158)
T TIGR02150 2 ILVDENDNPIGTASKAEVHLQETP----LHR----AFSVFLFNEEGQLLL 43 (158)
T ss_pred EEECCCCCEeeeeeHHHhhhcCCC----eEE----EEEEEEEcCCCeEEE
Confidence 589999999999887777544333 222 3358888875 5555
No 29
>KOG3974 consensus Predicted sugar kinase [Carbohydrate transport and metabolism]
Probab=20.31 E-value=24 Score=33.03 Aligned_cols=34 Identities=26% Similarity=0.213 Sum_probs=28.8
Q ss_pred ceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCC
Q 027797 80 KTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSV 115 (218)
Q Consensus 80 k~W~vIDA~g~iLGRLAS~VAk~L~GKhKp~ytP~~ 115 (218)
+.-+||||+|.-| ++....+.+.|-++.+.|||+
T Consensus 132 dvP~VIDaDGL~L--v~q~~e~l~~~~~~viLTPNv 165 (306)
T KOG3974|consen 132 DVPLVIDADGLWL--VEQLPERLIGGYPKVILTPNV 165 (306)
T ss_pred CCcEEEcCCceEe--hhhchhhhhccCceeeeCCcH
Confidence 4689999999654 667777799999999999996
Done!