Query psy13956
Match_columns 83
No_of_seqs 156 out of 1027
Neff 8.7
Searched_HMMs 46136
Date Fri Aug 16 15:53:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13956.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13956hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4389|consensus 99.8 2.9E-21 6.3E-26 134.0 5.8 73 2-83 436-508 (601)
2 cd00312 Esterase_lipase Estera 99.7 1.1E-17 2.4E-22 116.3 7.0 67 9-83 394-460 (493)
3 PF00135 COesterase: Carboxyle 99.7 4E-17 8.6E-22 113.5 4.0 74 3-83 422-495 (535)
4 COG2272 PnbA Carboxylesterase 99.5 4.4E-14 9.6E-19 98.5 6.7 68 8-83 377-444 (491)
5 KOG1516|consensus 98.6 1.7E-07 3.7E-12 66.4 6.7 72 4-83 427-499 (545)
6 COG2238 RPS19A Ribosomal prote 53.2 5.9 0.00013 24.2 0.5 9 75-83 30-38 (147)
7 PF10071 DUF2310: Zn-ribbon-co 43.2 26 0.00056 23.5 2.4 17 5-21 196-212 (258)
8 PRK09333 30S ribosomal protein 31.7 17 0.00037 22.4 0.2 9 75-83 30-38 (150)
9 PF13869 NUDIX_2: Nucleotide h 31.6 8.7 0.00019 24.5 -1.1 22 62-83 20-41 (188)
10 PF03369 Herpes_UL3: Herpesvir 28.5 38 0.00082 20.3 1.2 13 7-19 109-121 (134)
11 PF09236 AHSP: Alpha-haemoglob 27.5 1E+02 0.0022 17.3 2.7 10 70-79 34-43 (89)
12 KOG2350|consensus 27.5 54 0.0012 21.3 1.9 14 68-81 144-157 (221)
13 KOG1689|consensus 26.6 43 0.00094 21.3 1.3 22 62-83 46-67 (221)
14 TIGR03068 srtB_sig_NPQTN sorta 26.4 18 0.00038 16.5 -0.3 10 7-16 5-14 (33)
15 PF11294 DUF3095: Protein of u 26.4 88 0.0019 22.2 2.9 14 36-49 63-76 (373)
16 PF09936 Methyltrn_RNA_4: SAM- 25.6 89 0.0019 20.0 2.6 17 62-78 51-67 (185)
17 PF14293 YWFCY: YWFCY protein 25.6 65 0.0014 16.8 1.7 13 71-83 45-57 (61)
18 cd02639 R3H_RRM R3H domain of 25.1 1.1E+02 0.0024 15.7 2.7 19 58-76 23-41 (60)
19 PHA01816 hypothetical protein 24.8 83 0.0018 18.8 2.2 23 59-81 33-55 (160)
20 PF01090 Ribosomal_S19e: Ribos 23.7 25 0.00055 21.4 -0.1 9 75-83 29-37 (139)
21 PF02315 MDH: Methanol dehydro 21.7 1E+02 0.0022 17.4 2.1 17 67-83 68-84 (93)
22 PTZ00095 40S ribosomal protein 21.5 34 0.00073 21.5 0.2 8 76-83 55-62 (169)
23 PF14475 Mso1_Sec1_bdg: Sec1-b 21.4 98 0.0021 14.8 1.7 17 62-78 16-32 (41)
24 COG5595 Zn-ribbon-containing, 20.2 93 0.002 20.4 1.9 16 3-18 192-207 (256)
No 1
>KOG4389|consensus
Probab=99.84 E-value=2.9e-21 Score=133.95 Aligned_cols=73 Identities=29% Similarity=0.424 Sum_probs=64.2
Q ss_pred hhHhhhcCCCeEEEEecCCCCcCcCCCCCCCCCCCCCCCCchhhcCCcCCCCCCCcCCCCCHHHHHHHHHHHHHHHhhhc
Q psy13956 2 LKAQKRLGSRTAVVDNNSNTEKRRKNTRKPKTDQSVSGEEVPYFLGVPLDGDLSYYKSKYTTREKLHSEVILTWVSNFAR 81 (83)
Q Consensus 2 ~~~~~~~~~~~y~Y~f~~~~~~~~~~~~~~~~~Ga~H~~dl~yvF~~~~~~~~~~~~~~~~~~d~~~s~~m~~~w~nFAk 81 (83)
+.+.+..|+.||+|.|+| +++....|+|+||.||.||-|+||.|+.. ..+++++|+.+|++||++|+||||
T Consensus 436 A~~~~~~g~~v~~YyFth----rsSa~pWP~WmGVmHGYEIEyvFG~PL~~-----s~nYt~~E~~ls~rim~~WanFAk 506 (601)
T KOG4389|consen 436 ADALAEQGASVYYYYFTH----RSSANPWPKWMGVMHGYEIEYVFGIPLNY-----SRNYTKEEKILSRRIMRYWANFAK 506 (601)
T ss_pred HHHHHHhcCcEEEEEEec----cccCCCchhhhcCcccceEEEEecccccc-----cccccHHHHHHHHHHHHHHHHHhh
Confidence 456677888999999999 55555678999999999999999999862 468899999999999999999999
Q ss_pred cC
Q psy13956 82 SG 83 (83)
Q Consensus 82 tG 83 (83)
||
T Consensus 507 tG 508 (601)
T KOG4389|consen 507 TG 508 (601)
T ss_pred cC
Confidence 98
No 2
>cd00312 Esterase_lipase Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These catalytic residues are responsible for the nucleophilic attack on the carbonyl carbon atom of the ester bond. In contrast with other alpha/beta hydrolase fold family members, p-nitrobenzyl esterase and acetylcholine esterase have a Glu instead of Asp at the active site carboxylate.
Probab=99.73 E-value=1.1e-17 Score=116.32 Aligned_cols=67 Identities=24% Similarity=0.333 Sum_probs=52.1
Q ss_pred CCCeEEEEecCCCCcCcCCCCCCCCCCCCCCCCchhhcCCcCCCCCCCcCCCCCHHHHHHHHHHHHHHHhhhccC
Q psy13956 9 GSRTAVVDNNSNTEKRRKNTRKPKTDQSVSGEEVPYFLGVPLDGDLSYYKSKYTTREKLHSEVILTWVSNFARSG 83 (83)
Q Consensus 9 ~~~~y~Y~f~~~~~~~~~~~~~~~~~Ga~H~~dl~yvF~~~~~~~~~~~~~~~~~~d~~~s~~m~~~w~nFAktG 83 (83)
+.|||+|+|+|...... ...+.+.||+|++||+|||+++... ...+++|++|++.|+++|+||||+|
T Consensus 394 ~~~vY~Y~F~~~~~~~~--~~~~~~~Ga~H~~Dl~ylFg~~~~~------~~~~~~d~~ls~~m~~~w~nFaktG 460 (493)
T cd00312 394 GSPVYAYVFDHRSSLSV--GRWPPWLGTVHGDEIFFVFGNPLLK------EGLREEEEKLSRTMMKYWANFAKTG 460 (493)
T ss_pred CCCeEEEEeccCCcCCc--cccCCCCCcccCCceeeecCCCCCC------CCCCcHHHHHHHHHHHHHHHHhhhC
Confidence 78999999999543211 0124678999999999999986532 1225789999999999999999998
No 3
>PF00135 COesterase: Carboxylesterase family The prints entry is specific to acetylcholinesterase; InterPro: IPR002018 Higher eukaryotes have many distinct esterases. Among the different types are those which act on carboxylic esters (3.1.1 from EC). Carboxyl-esterases have been classified into three categories (A, B and C) on the basis of differential patterns of inhibition by organophosphates. The sequence of a number of type-B carboxylesterases indicates [, , ] that the majority are evolutionary related. As is the case for lipases and serine proteases, the catalytic apparatus of esterases involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.; PDB: 3B3Q_A 1CLE_B 1GQS_A 2VJD_A 1HBJ_A 2C5G_A 1U65_A 2WG1_A 1FSS_A 3M3D_A ....
Probab=99.67 E-value=4e-17 Score=113.48 Aligned_cols=74 Identities=19% Similarity=0.302 Sum_probs=57.2
Q ss_pred hHhhhcCCCeEEEEecCCCCcCcCCCCCCCCCCCCCCCCchhhcCCcCCCCCCCcCCCCCHHHHHHHHHHHHHHHhhhcc
Q psy13956 3 KAQKRLGSRTAVVDNNSNTEKRRKNTRKPKTDQSVSGEEVPYFLGVPLDGDLSYYKSKYTTREKLHSEVILTWVSNFARS 82 (83)
Q Consensus 3 ~~~~~~~~~~y~Y~f~~~~~~~~~~~~~~~~~Ga~H~~dl~yvF~~~~~~~~~~~~~~~~~~d~~~s~~m~~~w~nFAkt 82 (83)
...++.+.|+|+|+|+|.... .....+.+.||+|++||+|||+.+.... ...+++|+.+++.|+++|+||||+
T Consensus 422 ~~~~~~~~~vY~Y~F~~~~~~--~~~~~~~~~ga~H~~Dl~ylFg~~~~~~-----~~~~~~~~~ls~~m~~~w~nFak~ 494 (535)
T PF00135_consen 422 NHLASGGSPVYLYRFDYPPPF--IFSPDPPWRGACHGDDLPYLFGNPFLSP-----PNPTEDDRKLSDQMQRYWTNFAKT 494 (535)
T ss_dssp HHHHHTTSCEEEEEEHHSSTT--STECSETTGTSBTTTTHHHHTTGCCHCH-----HHTCHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccccccccceeeccccccc--ccccccccccccchhhhhhhcCCCcccc-----cccccHHHHHHHHHHHHHHhcCCC
Confidence 345667789999999995432 1122346789999999999999876531 112789999999999999999999
Q ss_pred C
Q psy13956 83 G 83 (83)
Q Consensus 83 G 83 (83)
|
T Consensus 495 G 495 (535)
T PF00135_consen 495 G 495 (535)
T ss_dssp S
T ss_pred C
Confidence 7
No 4
>COG2272 PnbA Carboxylesterase type B [Lipid metabolism]
Probab=99.51 E-value=4.4e-14 Score=98.47 Aligned_cols=68 Identities=16% Similarity=0.080 Sum_probs=52.9
Q ss_pred cCCCeEEEEecCCCCcCcCCCCCCCCCCCCCCCCchhhcCCcCCCCCCCcCCCCCHHHHHHHHHHHHHHHhhhccC
Q psy13956 8 LGSRTAVVDNNSNTEKRRKNTRKPKTDQSVSGEEVPYFLGVPLDGDLSYYKSKYTTREKLHSEVILTWVSNFARSG 83 (83)
Q Consensus 8 ~~~~~y~Y~f~~~~~~~~~~~~~~~~~Ga~H~~dl~yvF~~~~~~~~~~~~~~~~~~d~~~s~~m~~~w~nFAktG 83 (83)
.+.|+|+|+|+|.. . .......||+|+.||++|||+.... ......+++++++|++|...|.||||+|
T Consensus 377 ~~ap~w~Yrf~~~~----~-~~~~~~~gA~H~~El~~Vfg~~~~~---~~~~~~~~~~~~~s~~~~~~w~nFArtg 444 (491)
T COG2272 377 AGAPTWLYRFDYAP----D-TVRVPGFGAPHATELSLVFGNLVAL---GSAAQTARATAKLSRQMQDAWANFARTG 444 (491)
T ss_pred cCCCeeEEEeccCC----c-ccccccCCCccccceeeeecccccc---ccccccchHHHHHHHHHHHHHHHHHhcC
Confidence 46899999999933 1 1124567999999999999987621 1233447778899999999999999997
No 5
>KOG1516|consensus
Probab=98.60 E-value=1.7e-07 Score=66.39 Aligned_cols=72 Identities=14% Similarity=0.193 Sum_probs=49.2
Q ss_pred HhhhcCCCeEEEEecCCCCcCcCCCC-CCCCCCCCCCCCchhhcCCcCCCCCCCcCCCCCHHHHHHHHHHHHHHHhhhcc
Q psy13956 4 AQKRLGSRTAVVDNNSNTEKRRKNTR-KPKTDQSVSGEEVPYFLGVPLDGDLSYYKSKYTTREKLHSEVILTWVSNFARS 82 (83)
Q Consensus 4 ~~~~~~~~~y~Y~f~~~~~~~~~~~~-~~~~~Ga~H~~dl~yvF~~~~~~~~~~~~~~~~~~d~~~s~~m~~~w~nFAkt 82 (83)
.+.+.+.++|+|.|+|.......... .....|+.|++|+.|+|+.+.... ....+..|..+ +.+|+|||++
T Consensus 427 ~~~~~~~~~~~y~f~~~~~~~~~~~~~~~~~~~~~h~~~~~~~~~~~~~~~----~~~~~~~~~~~----~~~~~~fa~~ 498 (545)
T KOG1516|consen 427 LRREYGNPVYLYSFDYDNPVNFGRPGEKDPDTGVEHADDLRYLFGENFLKR----PVMKSSFEKKL----IELWTNFAKT 498 (545)
T ss_pred HHHhcCCCeEEEEEEecCcccccccccccCccCCcccccceeecccccccc----CCCCChHHHHH----HHHHHHHHhh
Confidence 34445579999999996543222111 234569999999999999865421 22335666665 9999999998
Q ss_pred C
Q psy13956 83 G 83 (83)
Q Consensus 83 G 83 (83)
|
T Consensus 499 g 499 (545)
T KOG1516|consen 499 G 499 (545)
T ss_pred C
Confidence 7
No 6
>COG2238 RPS19A Ribosomal protein S19E (S16A) [Translation, ribosomal structure and biogenesis]
Probab=53.18 E-value=5.9 Score=24.21 Aligned_cols=9 Identities=11% Similarity=0.309 Sum_probs=8.0
Q ss_pred HHHhhhccC
Q psy13956 75 WVSNFARSG 83 (83)
Q Consensus 75 ~w~nFAktG 83 (83)
-|++|+|||
T Consensus 30 ~wa~~vKTG 38 (147)
T COG2238 30 EWADIVKTG 38 (147)
T ss_pred hhhhhhhcc
Confidence 399999998
No 7
>PF10071 DUF2310: Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); InterPro: IPR016908 This group represents uncharacterised conserved proteins.
Probab=43.19 E-value=26 Score=23.53 Aligned_cols=17 Identities=18% Similarity=-0.064 Sum_probs=13.3
Q ss_pred hhhcCCCeEEEEecCCC
Q psy13956 5 QKRLGSRTAVVDNNSNT 21 (83)
Q Consensus 5 ~~~~~~~~y~Y~f~~~~ 21 (83)
.+..+.|||+|.|.+-+
T Consensus 196 e~~T~iPtYYyLyrv~g 212 (258)
T PF10071_consen 196 EKLTGIPTYYYLYRVGG 212 (258)
T ss_pred HHHhCCCeEEEEEEccC
Confidence 35568899999999744
No 8
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=31.68 E-value=17 Score=22.40 Aligned_cols=9 Identities=22% Similarity=0.438 Sum_probs=7.6
Q ss_pred HHHhhhccC
Q psy13956 75 WVSNFARSG 83 (83)
Q Consensus 75 ~w~nFAktG 83 (83)
=|++|+|||
T Consensus 30 ~W~~~vKTg 38 (150)
T PRK09333 30 EWAAFVKTG 38 (150)
T ss_pred cchhhhccc
Confidence 499999987
No 9
>PF13869 NUDIX_2: Nucleotide hydrolase; PDB: 3MDG_B 2J8Q_B 3Q2S_A 3P5T_D 3BAP_A 2CL3_A 3P6Y_A 3Q2T_B 3BHO_A 3N9U_A ....
Probab=31.56 E-value=8.7 Score=24.51 Aligned_cols=22 Identities=9% Similarity=0.259 Sum_probs=17.1
Q ss_pred CHHHHHHHHHHHHHHHhhhccC
Q psy13956 62 TTREKLHSEVILTWVSNFARSG 83 (83)
Q Consensus 62 ~~~d~~~s~~m~~~w~nFAktG 83 (83)
.++|..+.+++.++-.+|.+.|
T Consensus 20 ~ekd~s~~~rl~rl~~~y~~~G 41 (188)
T PF13869_consen 20 PEKDPSVAARLQRLKENYEKEG 41 (188)
T ss_dssp --SSSSHHHHHHHHHHHHHHHS
T ss_pred cccccCHHHHHHHHHHHHHHhC
Confidence 3456678899999999999887
No 10
>PF03369 Herpes_UL3: Herpesvirus UL3 protein; InterPro: IPR005035 Herpes simplex viruses are large DNA viruses, the genome of which encode approximately 80 genes. The UL3 gene of Human herpesvirus 2 (HHV-2) is predicted to encode a 233 amino acid protein with a molecular mass of 26 kDa. Homologues of the UL3 protein are encoded only among alphaherpesviruses. The function of the UL3 protein of Herpes simplex viruses remains unknown but it is known to localize to the nucleus and is a phosphoprotein [].
Probab=28.46 E-value=38 Score=20.28 Aligned_cols=13 Identities=8% Similarity=-0.036 Sum_probs=10.1
Q ss_pred hcCCCeEEEEecC
Q psy13956 7 RLGSRTAVVDNNS 19 (83)
Q Consensus 7 ~~~~~~y~Y~f~~ 19 (83)
+...|||+|+|.-
T Consensus 109 ~P~VPVfv~EF~a 121 (134)
T PF03369_consen 109 HPAVPVFVYEFSA 121 (134)
T ss_pred CCcceEEEEEEec
Confidence 3456999999965
No 11
>PF09236 AHSP: Alpha-haemoglobin stabilising protein; InterPro: IPR015317 Alpha-haemoglobin stabilising protein (AHSP) acts a molecular chaperone for free alpha-haemoglobin, preventing the harmful aggregation of alpha-haemoglobin during normal erythroid cell development: it specifically protects free alpha-haemoglobin from precipitation. AHSP adopts a helical secondary structure consisting of an elongated antiparallel three alpha-helix bundle []. ; GO: 0030492 hemoglobin binding, 0006457 protein folding, 0020027 hemoglobin metabolic process, 0030097 hemopoiesis, 0050821 protein stabilization; PDB: 1Y01_A 1XZY_A 3OVU_A 1W0A_A 3IA3_C 1Z8U_A 1W0B_A 1W09_A.
Probab=27.54 E-value=1e+02 Score=17.27 Aligned_cols=10 Identities=20% Similarity=0.185 Sum_probs=7.6
Q ss_pred HHHHHHHHhh
Q psy13956 70 EVILTWVSNF 79 (83)
Q Consensus 70 ~~m~~~w~nF 79 (83)
..+++=|+||
T Consensus 34 vtvV~Dwvnf 43 (89)
T PF09236_consen 34 VTVVNDWVNF 43 (89)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 5677888887
No 12
>KOG2350|consensus
Probab=27.52 E-value=54 Score=21.27 Aligned_cols=14 Identities=14% Similarity=0.342 Sum_probs=11.7
Q ss_pred HHHHHHHHHHhhhc
Q psy13956 68 HSEVILTWVSNFAR 81 (83)
Q Consensus 68 ~s~~m~~~w~nFAk 81 (83)
-.+++|.+|-.|+|
T Consensus 144 ~ekr~mkLWNsfVr 157 (221)
T KOG2350|consen 144 GEKRVMKLWNSFVR 157 (221)
T ss_pred HHHHHHHHHHHHHH
Confidence 35789999999987
No 13
>KOG1689|consensus
Probab=26.62 E-value=43 Score=21.31 Aligned_cols=22 Identities=5% Similarity=0.213 Sum_probs=18.0
Q ss_pred CHHHHHHHHHHHHHHHhhhccC
Q psy13956 62 TTREKLHSEVILTWVSNFARSG 83 (83)
Q Consensus 62 ~~~d~~~s~~m~~~w~nFAktG 83 (83)
-+.|..+++++.++=.+|-|-|
T Consensus 46 ~eKD~svadrf~rmk~ey~k~g 67 (221)
T KOG1689|consen 46 REKDESVADRFARMKIEYMKEG 67 (221)
T ss_pred hhccchHHHHHHHHHHHHHhhh
Confidence 5678889999999988887765
No 14
>TIGR03068 srtB_sig_NPQTN sortase B signal domain, NPQTN class. This model represents one of the boutique (rare) sortase signals, recognized by sortase B (SrtB) rather than by the housekeeping-type SrtA class sortase. This sequence, beginning NPQTN, shows little similarity to several other SrtB substrates.
Probab=26.44 E-value=18 Score=16.48 Aligned_cols=10 Identities=10% Similarity=0.215 Sum_probs=5.3
Q ss_pred hcCCCeEEEE
Q psy13956 7 RLGSRTAVVD 16 (83)
Q Consensus 7 ~~~~~~y~Y~ 16 (83)
..+.|+|.|.
T Consensus 5 s~gtp~y~y~ 14 (33)
T TIGR03068 5 NAGTPAYIYA 14 (33)
T ss_pred CCCCcchhhH
Confidence 3445666653
No 15
>PF11294 DUF3095: Protein of unknown function (DUF3095); InterPro: IPR021445 Some members in this bacterial family of proteins are annotated as adenylyl cyclase however this cannot be confirmed. Currently no function is known.
Probab=26.43 E-value=88 Score=22.19 Aligned_cols=14 Identities=21% Similarity=0.726 Sum_probs=11.9
Q ss_pred CCCCCCchhhcCCc
Q psy13956 36 SVSGEEVPYFLGVP 49 (83)
Q Consensus 36 a~H~~dl~yvF~~~ 49 (83)
+..+.|+|||||.-
T Consensus 63 ~~~~~~~PFvFGGD 76 (373)
T PF11294_consen 63 ALGGRDFPFVFGGD 76 (373)
T ss_pred cccCCCCCeEecCC
Confidence 56899999999963
No 16
>PF09936 Methyltrn_RNA_4: SAM-dependent RNA methyltransferase; InterPro: IPR019230 This entry contains proteins that have no known function. They are found as separate proteins and as a C-terminal domain to tRNA (guanine-N(1)-)-methyltransferases to which they are structurally related. ; PDB: 3DCM_X.
Probab=25.60 E-value=89 Score=19.99 Aligned_cols=17 Identities=18% Similarity=0.100 Sum_probs=14.2
Q ss_pred CHHHHHHHHHHHHHHHh
Q psy13956 62 TTREKLHSEVILTWVSN 78 (83)
Q Consensus 62 ~~~d~~~s~~m~~~w~n 78 (83)
-++.++|+++++++|.+
T Consensus 51 l~~Q~~l~~ril~hW~~ 67 (185)
T PF09936_consen 51 LEAQRELAERILGHWQE 67 (185)
T ss_dssp -HHHHHHHHHHHHHHHT
T ss_pred hHHHHHHHHHHHHhccc
Confidence 46788999999999985
No 17
>PF14293 YWFCY: YWFCY protein
Probab=25.55 E-value=65 Score=16.82 Aligned_cols=13 Identities=38% Similarity=0.606 Sum_probs=7.9
Q ss_pred HHHHHHHhhhccC
Q psy13956 71 VILTWVSNFARSG 83 (83)
Q Consensus 71 ~m~~~w~nFAktG 83 (83)
..-++..||.|||
T Consensus 45 v~DrIL~n~~rt~ 57 (61)
T PF14293_consen 45 VVDRILLNFQRTG 57 (61)
T ss_pred HHHHHHHHHHhhc
Confidence 3345667777765
No 18
>cd02639 R3H_RRM R3H domain of mainly fungal proteins which are associated with a RNA recognition motif (RRM) domain. Present in this group is the RNA-binding post-transcriptional regulator Cip2 (Csx1-interacting protein 2) involved in counteracting Csx1 function. Csx1 plays a central role in controlling gene expression during oxidative stress. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=25.13 E-value=1.1e+02 Score=15.69 Aligned_cols=19 Identities=11% Similarity=0.162 Sum_probs=14.3
Q ss_pred CCCCCHHHHHHHHHHHHHH
Q psy13956 58 KSKYTTREKLHSEVILTWV 76 (83)
Q Consensus 58 ~~~~~~~d~~~s~~m~~~w 76 (83)
+...+++++++...+..-+
T Consensus 23 p~~ls~~eRriih~la~~l 41 (60)
T cd02639 23 PSSLSPAERRIVHLLASRL 41 (60)
T ss_pred CCCCCHHHHHHHHHHHHHc
Confidence 4566999999888877654
No 19
>PHA01816 hypothetical protein
Probab=24.83 E-value=83 Score=18.80 Aligned_cols=23 Identities=17% Similarity=0.200 Sum_probs=18.3
Q ss_pred CCCCHHHHHHHHHHHHHHHhhhc
Q psy13956 59 SKYTTREKLHSEVILTWVSNFAR 81 (83)
Q Consensus 59 ~~~~~~d~~~s~~m~~~w~nFAk 81 (83)
.++.-+|+.+.+..++.|-.|+.
T Consensus 33 infkfddkdlqeayid~wkhf~h 55 (160)
T PHA01816 33 VNFKFDDKDLQEAYIDTWKHFAH 55 (160)
T ss_pred CccccChhHHHHHHHHHHHHhhc
Confidence 34456678888999999999974
No 20
>PF01090 Ribosomal_S19e: Ribosomal protein S19e; InterPro: IPR001266 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 [, ]. This family includes a number of eukaryotic and archaebacterial ribosomal proteins; mammalian S19, Drosophila S19, Ascaris lumbricoides S19g (ALEP-1) and S19s, yeast YS16 (RP55A and RP55B), Aspergillus S16 and Haloarcula marismortui HS12.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZ6_S 3U5G_T 3U5C_T 3O30_M 3O2Z_M 3IZB_S 2XZN_T 2XZM_T 2V7F_A.
Probab=23.73 E-value=25 Score=21.35 Aligned_cols=9 Identities=11% Similarity=0.309 Sum_probs=7.3
Q ss_pred HHHhhhccC
Q psy13956 75 WVSNFARSG 83 (83)
Q Consensus 75 ~w~nFAktG 83 (83)
-|++|+|||
T Consensus 29 ~w~d~vKTg 37 (139)
T PF01090_consen 29 EWADIVKTG 37 (139)
T ss_dssp SCGGGTSSS
T ss_pred chHHHHhhc
Confidence 488888887
No 21
>PF02315 MDH: Methanol dehydrogenase beta subunit; InterPro: IPR003420 Methanol dehydrogenase (MDH) (1.1.99.8 from EC), found in Gram-negative bacteria, is a pyrroloquinoline quinone (PQQ)-containing enzyme which oxidises methanol to formaldehyde. It is located in the periplasmic space and passes electrons derived from the oxidation of methanol to the soluble cytochrome cL []. The enzyme is a tetramer composed of two large alpha subunits and two smaller beta subunits. The alpha subunit binds the PQQ cofactor and contains the active site, while the function of the beta subunit is currently unknown []. The alpha subunit forms an eight-bladed propeller structure, with several novel tryptophan-docking motifs linking the individual blades together. This entry represents the beta subunit of methanol dehydrogenase.; GO: 0004022 alcohol dehydrogenase (NAD) activity, 0015946 methanol oxidation, 0055114 oxidation-reduction process; PDB: 1LRW_B 2D0V_J 2AD6_B 1G72_B 4AAH_D 2AD8_D 2AD7_D 1H4J_D 1H4I_B 1W6S_B ....
Probab=21.67 E-value=1e+02 Score=17.36 Aligned_cols=17 Identities=29% Similarity=0.366 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHhhhccC
Q psy13956 67 LHSEVILTWVSNFARSG 83 (83)
Q Consensus 67 ~~s~~m~~~w~nFAktG 83 (83)
.|-+|=..-+.||.+||
T Consensus 68 ~me~RN~kR~~~fkkTG 84 (93)
T PF02315_consen 68 AMEERNAKRVENFKKTG 84 (93)
T ss_dssp HHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHhcC
Confidence 45666677899999998
No 22
>PTZ00095 40S ribosomal protein S19; Provisional
Probab=21.52 E-value=34 Score=21.55 Aligned_cols=8 Identities=0% Similarity=0.339 Sum_probs=6.9
Q ss_pred HHhhhccC
Q psy13956 76 VSNFARSG 83 (83)
Q Consensus 76 w~nFAktG 83 (83)
|++|+|||
T Consensus 55 W~d~vKTg 62 (169)
T PTZ00095 55 CTEIVKTS 62 (169)
T ss_pred chhhhccc
Confidence 88899887
No 23
>PF14475 Mso1_Sec1_bdg: Sec1-binding region of Mso1
Probab=21.41 E-value=98 Score=14.81 Aligned_cols=17 Identities=12% Similarity=0.212 Sum_probs=14.6
Q ss_pred CHHHHHHHHHHHHHHHh
Q psy13956 62 TTREKLHSEVILTWVSN 78 (83)
Q Consensus 62 ~~~d~~~s~~m~~~w~n 78 (83)
+++|.-+++.|++|..+
T Consensus 16 teddT~v~r~l~~yY~~ 32 (41)
T PF14475_consen 16 TEDDTHVHRVLRKYYTE 32 (41)
T ss_pred CcchhHHHHHHHHHHHH
Confidence 78899999999998764
No 24
>COG5595 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]
Probab=20.16 E-value=93 Score=20.35 Aligned_cols=16 Identities=19% Similarity=0.007 Sum_probs=12.6
Q ss_pred hHhhhcCCCeEEEEec
Q psy13956 3 KAQKRLGSRTAVVDNN 18 (83)
Q Consensus 3 ~~~~~~~~~~y~Y~f~ 18 (83)
+.++..+.|||+|.+.
T Consensus 192 rIek~t~iptyYylyr 207 (256)
T COG5595 192 RIEKCTGIPTYYYLYR 207 (256)
T ss_pred HHHHHhCCCceEEEEE
Confidence 3456678899999997
Done!