Query psy2928
Match_columns 744
No_of_seqs 96 out of 106
Neff 3.3
Searched_HMMs 46136
Date Fri Aug 16 21:11:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2928.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2928hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12237 PCIF1_WW: Phosphoryla 100.0 2E-64 4.2E-69 490.2 14.1 158 506-665 17-176 (176)
2 PF00397 WW: WW domain; Inter 97.8 2.8E-06 6E-11 62.1 -1.7 29 91-119 3-31 (31)
3 smart00456 WW Domain with 2 co 97.6 1.2E-05 2.6E-10 58.0 -0.2 29 91-120 3-31 (32)
4 cd00201 WW Two conserved trypt 97.6 1.4E-05 3.1E-10 56.8 -0.1 29 91-120 2-30 (31)
5 KOG3259|consensus 96.6 0.00062 1.4E-08 66.7 0.3 40 87-126 5-44 (163)
6 PF05869 Dam: DNA N-6-adenine- 95.5 0.049 1.1E-06 54.6 8.1 92 530-634 9-104 (181)
7 TIGR01712 phage_N6A_met phage 88.7 1.1 2.4E-05 45.1 6.4 88 531-634 10-101 (166)
8 PF12237 PCIF1_WW: Phosphoryla 84.5 0.13 2.9E-06 51.8 -2.5 90 491-596 2-97 (176)
9 KOG0100|consensus 79.7 1.9 4.2E-05 49.1 4.0 70 280-349 564-638 (663)
10 PTZ00009 heat shock 70 kDa pro 79.0 1.7 3.7E-05 50.8 3.5 73 277-349 533-609 (653)
11 PRK13411 molecular chaperone D 75.4 3.7 8.1E-05 48.2 4.9 69 281-350 527-597 (653)
12 COG5104 PRP40 Splicing factor 70.6 1.4 3E-05 50.3 -0.0 34 100-133 23-58 (590)
13 PF02198 SAM_PNT: Sterile alph 68.3 3.8 8.2E-05 36.2 2.2 16 311-326 17-32 (84)
14 PRK00290 dnaK molecular chaper 67.0 7.7 0.00017 45.1 5.0 68 280-350 524-593 (627)
15 KOG0150|consensus 64.4 3.4 7.5E-05 45.3 1.5 30 93-122 149-181 (336)
16 TIGR02350 prok_dnaK chaperone 56.0 15 0.00032 42.5 4.6 67 280-349 522-590 (595)
17 PTZ00400 DnaK-type molecular c 52.3 18 0.00039 42.8 4.7 68 279-349 564-633 (663)
18 PF00435 Spectrin: Spectrin re 50.4 56 0.0012 27.2 6.2 18 328-345 30-47 (105)
19 CHL00094 dnaK heat shock prote 48.3 23 0.00049 41.5 4.6 67 280-349 526-594 (621)
20 TIGR00496 frr ribosome recycli 47.8 81 0.0018 32.0 7.8 83 272-383 88-174 (176)
21 KOG0966|consensus 46.1 1.3E+02 0.0028 37.4 10.3 70 275-347 80-160 (881)
22 PF13769 Virulence_fact: Virul 44.6 22 0.00048 32.6 3.0 31 269-299 4-35 (86)
23 PF00012 HSP70: Hsp70 protein; 42.8 29 0.00063 39.3 4.3 65 281-347 529-595 (602)
24 PRK05183 hscA chaperone protei 40.7 41 0.00089 39.5 5.2 67 281-350 529-597 (616)
25 KOG0101|consensus 39.7 35 0.00076 40.8 4.4 70 282-351 540-611 (620)
26 PRK00083 frr ribosome recyclin 39.6 1.4E+02 0.003 30.6 8.1 19 273-291 98-116 (185)
27 KOG4603|consensus 37.2 97 0.0021 32.2 6.5 66 324-389 110-200 (201)
28 PRK01433 hscA chaperone protei 37.0 34 0.00073 40.2 3.8 73 281-364 507-581 (595)
29 cd00520 RRF Ribosome recycling 36.7 1.6E+02 0.0035 29.8 8.0 21 272-292 93-113 (179)
30 KOG0241|consensus 36.4 1.1E+02 0.0024 38.9 7.7 88 228-342 302-399 (1714)
31 PF01765 RRF: Ribosome recycli 33.9 2.1E+02 0.0046 28.3 8.2 76 273-377 80-155 (165)
32 KOG0155|consensus 32.9 53 0.0011 38.8 4.3 28 92-120 115-142 (617)
33 CHL00060 atpB ATP synthase CF1 30.8 84 0.0018 36.8 5.5 102 267-371 371-490 (494)
34 cd07636 BAR_GRAF The Bin/Amphi 29.1 1.2E+02 0.0026 31.8 5.9 94 281-377 59-169 (207)
35 PF06497 DUF1098: Protein of u 27.8 1.1E+02 0.0024 28.7 4.8 55 261-324 31-85 (95)
36 PF02444 HEV_ORF1: Hepatitis E 27.5 1E+02 0.0022 29.5 4.4 65 5-85 36-108 (114)
37 PRK14142 heat shock protein Gr 27.3 86 0.0019 33.3 4.5 69 322-392 56-130 (223)
38 TIGR01985 phasin_2 phasin. Mem 27.2 1.9E+02 0.0042 27.2 6.3 57 281-337 14-83 (112)
39 KOG3673|consensus 26.3 25 0.00053 41.8 0.4 29 89-117 756-784 (845)
40 COG5104 PRP40 Splicing factor 26.1 38 0.00083 39.3 1.8 46 81-127 38-92 (590)
41 PTZ00444 hypothetical protein; 26.0 1.3E+02 0.0028 31.3 5.3 85 356-456 55-147 (184)
42 COG4343 CRISPR-associated prot 26.0 50 0.0011 36.0 2.5 35 230-267 239-278 (281)
43 cd08535 SAM_PNT-Tel_Yan Steril 25.9 82 0.0018 27.6 3.4 14 313-326 5-18 (68)
44 PF14748 P5CR_dimer: Pyrroline 24.7 3.2E+02 0.0069 25.2 7.2 50 287-337 19-69 (107)
45 PF11788 MRP-L46: 39S mitochon 22.6 2E+02 0.0043 26.6 5.5 67 183-253 5-75 (111)
46 KOG4117|consensus 22.4 2.6E+02 0.0055 25.2 5.7 43 350-392 18-70 (73)
47 cd08533 SAM_PNT-ETS-1,2 Steril 22.2 1.1E+02 0.0024 27.1 3.5 13 313-325 6-18 (71)
48 PRK14164 heat shock protein Gr 20.1 1.3E+02 0.0028 31.8 4.1 69 322-392 93-167 (218)
No 1
>PF12237 PCIF1_WW: Phosphorylated CTD interacting factor 1 WW domain; InterPro: IPR022035 This domain is found in bacteria and eukaryotes, and is approximately 180 amino acids in length. It is the WW domain of PCIF1. PCIF1 interacts with phosphorylated RNA polymerase II carboxy-terminal domain (CTD). The WW domain of PCIF1 can directly and preferentially bind to the phosphorylated CTD compared to the unphosphorylated CTD. PCIF1 binds to the hyperphosphorylated RNAP II (RNAP IIO) in vitro and in vivo. Double immunofluorescence labeling in HeLa cells demonstrated that PCIF1 and endogenous RNAP IIO are co-localized in the cell nucleus. Thus, PCIF1 may play a role in mRNA synthesis by modulating RNAP IIO activity.
Probab=100.00 E-value=2e-64 Score=490.16 Aligned_cols=158 Identities=59% Similarity=1.080 Sum_probs=146.4
Q ss_pred hhhhhHHHHhhhhhhhcccccccCCCccccCCChhHHHHHHhccCceeeeccCccccccccccCcCCCccccCCCCCCcc
Q psy2928 506 ELFLPRVWCLLKRYTTFLGQVTAQSGKTQASLPGPVFECLNKHFGVTFECFASPLNCYFRQYCSMFPDTDSYFGSRGPIL 585 (744)
Q Consensus 506 ~~F~~rvf~LL~RY~tl~G~~~~~g~G~QaAlP~~VFd~L~~~fgV~~EcFASPLN~~f~~FCSaFpDTD~~FGSlGSFF 585 (744)
..|+.||||||+||+|++|++.+.|+|+|+|+|++||++|+++|||++|||||||||||++|||||||||.+|||+||||
T Consensus 17 ~~F~~~v~~lL~RY~tl~G~~~~~~~g~q~a~p~~vf~~L~~~f~v~~EcFASPlN~~~~~ycSaFpDtD~~FGS~GsFf 96 (176)
T PF12237_consen 17 QRFLSRVFCLLLRYQTLFGGQYQEGGGLQAALPPEVFDALHKRFGVSFECFASPLNCYFRQYCSAFPDTDAYFGSLGSFF 96 (176)
T ss_pred HHHHHHHHHHHHHHHHHcCCCcCCCCcccccCCHHHHHHHHHHcCCCEEEecChhhhhHHHhcCcCcCccccccCCcchh
Confidence 34455555666677777777777899999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCceEECCCCcHHHHHHHHHHHHHHh--hcCCCCeEEEEEeeCCCCCChhHHhhhhhcCCcccceeecCCCCccc
Q psy2928 586 DLKAVSGSFQAHPPYCEELMEATVGHFEHLL--ADSPEPLSFIVFVPDFRDPSPSALVKLEASHFKRKQVVVPAFEHEFR 663 (744)
Q Consensus 586 df~p~sGSFE~NPPF~eelm~~m~~hie~lL--~~s~~pLSFVVVvP~W~D~~~~a~~~L~~S~fkR~~vvl~a~eH~Y~ 663 (744)
+|.|++|+|||||||++++|++|++||+++| +++++|||||||||.|+|++ +|++|++|+|+|++++|++++|+|+
T Consensus 97 ~f~p~~Gsfe~NPPF~~elm~~~~~h~~~~L~~~~~~~~LsFvvvvP~w~~~~--~~~~l~~S~~~r~~~~l~~~~h~y~ 174 (176)
T PF12237_consen 97 DFEPVSGSFEANPPFDEELMERMVNHIERLLRAENSSEPLSFVVVVPEWRDPP--AWERLESSPYKRHHFVLPANEHGYR 174 (176)
T ss_pred cccCCCCceeeCCCCCHHHHHHHHHHHHHHHHhccccCceEEEEEecCCCCcH--HHHHHhcCCcCccceEeecCccccc
Confidence 9999999999999999999999999999999 34899999999999999986 4999999999999999999999999
Q ss_pred cC
Q psy2928 664 IG 665 (744)
Q Consensus 664 ~G 665 (744)
+|
T Consensus 175 ~G 176 (176)
T PF12237_consen 175 HG 176 (176)
T ss_pred CC
Confidence 98
No 2
>PF00397 WW: WW domain; InterPro: IPR001202 Synonym(s): Rsp5 or WWP domain The WW domain is a short conserved region in a number of unrelated proteins, which folds as a stable, triple stranded beta-sheet. This short domain of approximately 40 amino acids, may be repeated up to four times in some proteins [, , , ]. The name WW or WWP derives from the presence of two signature tryptophan residues that are spaced 20-23 amino acids apart and are present in most WW domains known to date, as well as that of a conserved Pro. The WW domain binds to proteins with particular proline-motifs, [AP]-P-P-[AP]-Y, and/or phosphoserine- phosphothreonine-containing motifs [, ]. It is frequently associated with other domains typical for proteins in signal transduction processes. A large variety of proteins containing the WW domain are known. These include; dystrophin, a multidomain cytoskeletal protein; utrophin, a dystrophin-like protein of unknown function; vertebrate YAP protein, substrate of an unknown serine kinase; Mus musculus (Mouse) NEDD-4, involved in the embryonic development and differentiation of the central nervous system; Saccharomyces cerevisiae (Baker's yeast) RSP5, similar to NEDD-4 in its molecular organisation; Rattus norvegicus (Rat) FE65, a transcription-factor activator expressed preferentially in liver; Nicotiana tabacum (Common tobacco) DB10 protein, amongst others.; GO: 0005515 protein binding; PDB: 2JXW_A 2DK1_A 2JOC_A 2JO9_A 1YIU_A 1O6W_A 2JMF_A 1TK7_A 2KYK_A 2L5F_A ....
Probab=97.75 E-value=2.8e-06 Score=62.14 Aligned_cols=29 Identities=41% Similarity=1.178 Sum_probs=27.2
Q ss_pred HhHHHHhhcccCCCcceeccCCcccccCC
Q psy2928 91 QGWRKFWSKRENRPYYWNRASGESLWDMP 119 (744)
Q Consensus 91 ~gw~k~wskre~rpy~~nk~t~~slwe~p 119 (744)
.||.++|++..+|+||||..||+|-||.|
T Consensus 3 ~gW~~~~~~~~g~~YY~N~~t~~s~W~~P 31 (31)
T PF00397_consen 3 PGWEEYFDPDSGRPYYYNHETGESQWERP 31 (31)
T ss_dssp TTEEEEEETTTSEEEEEETTTTEEESSST
T ss_pred cCCEEEEcCCCCCEEEEeCCCCCEEeCCC
Confidence 58999998778999999999999999998
No 3
>smart00456 WW Domain with 2 conserved Trp (W) residues. Also known as the WWP or rsp5 domain. Binds proline-rich polypeptides.
Probab=97.61 E-value=1.2e-05 Score=57.97 Aligned_cols=29 Identities=34% Similarity=0.924 Sum_probs=27.7
Q ss_pred HhHHHHhhcccCCCcceeccCCcccccCCC
Q psy2928 91 QGWRKFWSKRENRPYYWNRASGESLWDMPQ 120 (744)
Q Consensus 91 ~gw~k~wskre~rpy~~nk~t~~slwe~p~ 120 (744)
.||.++|++. +|+||+|..|++|-||-|.
T Consensus 3 ~gW~~~~~~~-g~~yy~n~~t~~s~W~~P~ 31 (32)
T smart00456 3 PGWEERKDPD-GRPYYYNHETKETQWEKPR 31 (32)
T ss_pred CCCEEEECCC-CCEEEEECCCCCEEcCCCC
Confidence 5999999999 9999999999999999996
No 4
>cd00201 WW Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other peptide recognition proteins such as antibodies and receptors; WW domains have a single groove formed by a conserved Trp and Tyr which recognizes a pair of residues of the sequence X-Pro; variable loops and neighboring domains confer specificity in this domain; there are five distinct groups based on binding: 1) PPXY motifs 2) the PPLP motif; 3) PGM motifs; 4) PSP or PTP motifs; 5) PR motifs.
Probab=97.58 E-value=1.4e-05 Score=56.76 Aligned_cols=29 Identities=34% Similarity=0.997 Sum_probs=27.3
Q ss_pred HhHHHHhhcccCCCcceeccCCcccccCCC
Q psy2928 91 QGWRKFWSKRENRPYYWNRASGESLWDMPQ 120 (744)
Q Consensus 91 ~gw~k~wskre~rpy~~nk~t~~slwe~p~ 120 (744)
.||+++|++. +|+||+|..|++|.||-|.
T Consensus 2 ~~W~~~~~~~-g~~yy~n~~t~~s~W~~P~ 30 (31)
T cd00201 2 PGWEERWDPD-GRVYYYNHNTKETQWEDPR 30 (31)
T ss_pred CCCEEEECCC-CCEEEEECCCCCEeCCCCC
Confidence 4899999998 9999999999999999985
No 5
>KOG3259|consensus
Probab=96.57 E-value=0.00062 Score=66.72 Aligned_cols=40 Identities=38% Similarity=0.814 Sum_probs=34.0
Q ss_pred HHHHHhHHHHhhcccCCCcceeccCCcccccCCCCCCCCC
Q psy2928 87 ELIQQGWRKFWSKRENRPYYWNRASGESLWDMPQGSGFDP 126 (744)
Q Consensus 87 el~q~gw~k~wskre~rpy~~nk~t~~slwe~p~~~~~d~ 126 (744)
|.+-.||.|--||--+||||||-.|++|.||-|.-...+.
T Consensus 5 ~~LP~~Wekr~Srs~gr~YyfN~~T~~SqWe~P~~t~~~~ 44 (163)
T KOG3259|consen 5 EKLPPGWEKRMSRSSGRPYYFNTETNESQWERPSGTSKSG 44 (163)
T ss_pred ccCCchhheeccccCCCcceeccccchhhccCCCcccccc
Confidence 3344699999999999999999999999999997765444
No 6
>PF05869 Dam: DNA N-6-adenine-methyltransferase (Dam); InterPro: IPR008593 This family consists of several bacterial and phage DNA N-6-adenine-methyltransferase (Dam) like sequences [].; GO: 0003677 DNA binding, 0009007 site-specific DNA-methyltransferase (adenine-specific) activity, 0032775 DNA methylation on adenine
Probab=95.55 E-value=0.049 Score=54.63 Aligned_cols=92 Identities=22% Similarity=0.303 Sum_probs=61.8
Q ss_pred CCccccCCChhHHHHHHhccC-ceeeeccCccccccccccCcCCCccccCCCCCCccccccC-C--CceEECCCCcHHHH
Q psy2928 530 SGKTQASLPGPVFECLNKHFG-VTFECFASPLNCYFRQYCSMFPDTDSYFGSRGPILDLKAV-S--GSFQAHPPYCEELM 605 (744)
Q Consensus 530 g~G~QaAlP~~VFd~L~~~fg-V~~EcFASPLN~~f~~FCSaFpDTD~~FGSlGSFFdf~p~-s--GSFE~NPPF~eelm 605 (744)
...-++..|+.+|+.|++.|| .+.+.||++-|+-..+|.+. +.| .+..+-. . |..=|||||..+ |
T Consensus 9 ~~~d~W~TP~~lf~~l~~~fg~f~LD~aa~~~Na~~~~y~T~--~~D--------gL~~~W~~~~~g~vf~NPPYs~~-i 77 (181)
T PF05869_consen 9 SDKDEWQTPPELFDALNREFGPFDLDPAASDENAKCPRYYTE--EDD--------GLAQDWSAELMGRVFCNPPYSRG-I 77 (181)
T ss_pred cCCCCCcCCHHHHHHHHHHhCCccccccCCCCChhhhhhcCc--ccc--------HhhhhhhhcccceEEecCchhhh-H
Confidence 356678999999999999999 89999999999988888875 333 2333322 2 788999999985 2
Q ss_pred HHHHHHHHHHhhcCCCCeEEEEEeeCCCC
Q psy2928 606 EATVGHFEHLLADSPEPLSFIVFVPDFRD 634 (744)
Q Consensus 606 ~~m~~hie~lL~~s~~pLSFVVVvP~W~D 634 (744)
...++++...-+ .+....|+++|.+.+
T Consensus 78 ~~wv~Ka~~e~~--~g~~~VvLL~~~~~s 104 (181)
T PF05869_consen 78 GPWVEKAIEEYE--RGNQTVVLLPPADTS 104 (181)
T ss_pred HHHHHHHHHHHH--hCCcEEEEEeccCCC
Confidence 333332222221 122345566666654
No 7
>TIGR01712 phage_N6A_met phage N-6-adenine-methyltransferase. This is a model for a phage-borne DNA N-6-adenine-methyltransferase.
Probab=88.68 E-value=1.1 Score=45.08 Aligned_cols=88 Identities=16% Similarity=0.199 Sum_probs=59.3
Q ss_pred CccccCCChhHHHHHHhccC-ceeeeccCccccccccccCcCCCccccCCCCCCccccccCC-CceEECCCCcHH--HHH
Q psy2928 531 GKTQASLPGPVFECLNKHFG-VTFECFASPLNCYFRQYCSMFPDTDSYFGSRGPILDLKAVS-GSFQAHPPYCEE--LME 606 (744)
Q Consensus 531 ~G~QaAlP~~VFd~L~~~fg-V~~EcFASPLN~~f~~FCSaFpDTD~~FGSlGSFFdf~p~s-GSFE~NPPF~ee--lm~ 606 (744)
-+-++..|..+|+.|++.+| .+.+.||++=|+-...|.++ -.+++..+-.. |..=|||||... .|.
T Consensus 10 ~~D~W~TP~~lf~~L~~~~g~F~LD~~A~~~Na~c~~~~T~----------edd~L~~~W~~~~~vf~NPPYS~~~~~v~ 79 (166)
T TIGR01712 10 VRDLWSTPREVFAYLEGRYGKFDLDAAASEENAVCAKFYTQ----------EDNALKRWWGKNKAVWLNPPYSRPDIFVN 79 (166)
T ss_pred hCCcCCChHHHHHHHHhhcCceEEecCCCCCccchhhhcCc----------ccchhhhccccCceEEecCCCCcHHHHHH
Confidence 45678899999999996665 79999999999977766663 33555555433 578899999743 222
Q ss_pred HHHHHHHHHhhcCCCCeEEEEEeeCCCC
Q psy2928 607 ATVGHFEHLLADSPEPLSFIVFVPDFRD 634 (744)
Q Consensus 607 ~m~~hie~lL~~s~~pLSFVVVvP~W~D 634 (744)
+++++ +++.. -..|+.||.=.+
T Consensus 80 kaae~----~~~~g--~~~VmLlpa~ts 101 (166)
T TIGR01712 80 KTAWF----TEARQ--AAEVILIEADLS 101 (166)
T ss_pred HHHHH----HHhhC--CeEEEEEecCCc
Confidence 22222 22222 357888886554
No 8
>PF12237 PCIF1_WW: Phosphorylated CTD interacting factor 1 WW domain; InterPro: IPR022035 This domain is found in bacteria and eukaryotes, and is approximately 180 amino acids in length. It is the WW domain of PCIF1. PCIF1 interacts with phosphorylated RNA polymerase II carboxy-terminal domain (CTD). The WW domain of PCIF1 can directly and preferentially bind to the phosphorylated CTD compared to the unphosphorylated CTD. PCIF1 binds to the hyperphosphorylated RNAP II (RNAP IIO) in vitro and in vivo. Double immunofluorescence labeling in HeLa cells demonstrated that PCIF1 and endogenous RNAP IIO are co-localized in the cell nucleus. Thus, PCIF1 may play a role in mRNA synthesis by modulating RNAP IIO activity.
Probab=84.48 E-value=0.13 Score=51.81 Aligned_cols=90 Identities=24% Similarity=0.240 Sum_probs=53.5
Q ss_pred CCCCCCcccccchhhhhhhhHHHHhhhhhhhcc-cccccCCCccccCCChhHHHHHHhccCc-eeeeccCcccccccccc
Q psy2928 491 LSTWPRNSCFDDKKFELFLPRVWCLLKRYTTFL-GQVTAQSGKTQASLPGPVFECLNKHFGV-TFECFASPLNCYFRQYC 568 (744)
Q Consensus 491 l~~~~R~sC~Dd~~~~~F~~rvf~LL~RY~tl~-G~~~~~g~G~QaAlP~~VFd~L~~~fgV-~~EcFASPLN~~f~~FC 568 (744)
|..+||++|.||+ +.=..+.|=-+++ -=....|++.+.+- .++..... .||+...=|++.+++|.
T Consensus 2 L~~ly~~~~~~~~-------~~~~F~~~v~~lL~RY~tl~G~~~~~~~------g~q~a~p~~vf~~L~~~f~v~~EcFA 68 (176)
T PF12237_consen 2 LRQLYRYSCEDDK-------KDQRFLSRVFCLLLRYQTLFGGQYQEGG------GLQAALPPEVFDALHKRFGVSFECFA 68 (176)
T ss_pred HHHHHHHhcCCcH-------HHHHHHHHHHHHHHHHHHHcCCCcCCCC------cccccCCHHHHHHHHHHcCCCEEEec
Confidence 3456777888755 2222244433333 11123344443222 44666666 79999999999999999
Q ss_pred CcC----CCccccCCCCCCccccccCCCceEE
Q psy2928 569 SMF----PDTDSYFGSRGPILDLKAVSGSFQA 596 (744)
Q Consensus 569 SaF----pDTD~~FGSlGSFFdf~p~sGSFE~ 596 (744)
|.| +++++.|..+..| ..+.|+|--
T Consensus 69 SPlN~~~~~ycSaFpDtD~~---FGS~GsFf~ 97 (176)
T PF12237_consen 69 SPLNCYFRQYCSAFPDTDAY---FGSLGSFFD 97 (176)
T ss_pred ChhhhhHHHhcCcCcCcccc---ccCCcchhc
Confidence 995 4555555555444 457788754
No 9
>KOG0100|consensus
Probab=79.70 E-value=1.9 Score=49.10 Aligned_cols=70 Identities=24% Similarity=0.448 Sum_probs=56.1
Q ss_pred CchhHHHHHHHHHHHHHHHHhhh-----cCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccch
Q psy2928 280 YTGDARKQLSKYAEAAKKLIESR-----NANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHL 349 (744)
Q Consensus 280 ~~~eark~l~~yaeaakk~iesr-----~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~ 349 (744)
-.-|||..|..||-..|.-|.-. ..++|-++-+.--+|+..+||..+..|+.|||-+.+++|-.-|||-+
T Consensus 564 ekieaRN~LE~YayslKnqi~dkekLg~Kl~~edKe~~e~av~e~~eWL~~n~~a~~Ee~~ek~kele~vv~Pii 638 (663)
T KOG0100|consen 564 EKIEARNELESYAYSLKNQIGDKEKLGGKLSDEDKETIEDAVEEALEWLESNQDASKEEFKEKKKELEAVVQPII 638 (663)
T ss_pred HHHHhHHHHHHHHHHhhhccCchhHhcccCChhHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHH
Confidence 34688888999988887777554 23666666667789999999999999999999999999887777633
No 10
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=78.98 E-value=1.7 Score=50.80 Aligned_cols=73 Identities=15% Similarity=0.401 Sum_probs=59.8
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHhhh----cCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccch
Q psy2928 277 KPKYTGDARKQLSKYAEAAKKLIESR----NANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHL 349 (744)
Q Consensus 277 ~~k~~~eark~l~~yaeaakk~iesr----~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~ 349 (744)
.-+-+.||+.+|..|...+++.++.. ..+++-|+=++--++++-+||.....++.++|.+||+.|+..|+|..
T Consensus 533 ~~~~~~eakN~lEs~Iy~~r~~L~~~~~~~~~t~ee~~~l~~~l~~~~~wL~~~~~~~~~~~~~kl~eL~~~~~pi~ 609 (653)
T PTZ00009 533 ANRERVEAKNGLENYCYSMKNTLQDEKVKGKLSDSDKATIEKAIDEALEWLEKNQLAEKEEFEHKQKEVESVCNPIM 609 (653)
T ss_pred HHHHHHHHHhhhHHHHHHHHHHHhhhhhhccCCHHHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHH
Confidence 33446789999999999999999742 55677777777788889999997777899999999999999887644
No 11
>PRK13411 molecular chaperone DnaK; Provisional
Probab=75.40 E-value=3.7 Score=48.18 Aligned_cols=69 Identities=7% Similarity=0.057 Sum_probs=56.1
Q ss_pred chhHHHHHHHHHHHHHHHHhhh--cCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccchh
Q psy2928 281 TGDARKQLSKYAEAAKKLIESR--NANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHLT 350 (744)
Q Consensus 281 ~~eark~l~~yaeaakk~iesr--~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~~ 350 (744)
+.|||.+|..|...+++.++.. -.+++-|+=++--++++..||.. ..++.++|+++++.|++.|.+...
T Consensus 527 ~~eakN~lEs~iy~~r~~l~~~~~~~~~~er~~i~~~l~~~~~wL~~-~~~~~~~~~~~~~el~~~~~~i~~ 597 (653)
T PRK13411 527 LIELKNQADSLLYSYESTLKENGELISEELKQRAEQKVEQLEAALTD-PNISLEELKQQLEEFQQALLAIGA 597 (653)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHHHHHHHH
Confidence 5689999999999999999742 44666677777788899999987 456899999999999988877553
No 12
>COG5104 PRP40 Splicing factor [RNA processing and modification]
Probab=70.58 E-value=1.4 Score=50.27 Aligned_cols=34 Identities=29% Similarity=0.489 Sum_probs=27.4
Q ss_pred ccCCCcceeccCCcccccCC--CCCCCCCCCCCCCC
Q psy2928 100 RENRPYYWNRASGESLWDMP--QGSGFDPIGDPLGI 133 (744)
Q Consensus 100 re~rpy~~nk~t~~slwe~p--~~~~~d~i~dplgi 133 (744)
-.+|-||+|+.||+|.||-| .++|++-.-|-+|-
T Consensus 23 ~dgRiYYYN~~T~kS~weKPkell~~~e~~l~~~~W 58 (590)
T COG5104 23 PDGRIYYYNKRTGKSSWEKPKELLKGSEEDLDVDPW 58 (590)
T ss_pred CCCceEEEecccccccccChHHHhcchHhhhchhhH
Confidence 45899999999999999999 67788765554443
No 13
>PF02198 SAM_PNT: Sterile alpha motif (SAM)/Pointed domain; InterPro: IPR003118 Transcription factors are protein molecules that bind to specific DNA sequences in the genome, resulting in the induction or inhibition of gene transcription []. The ets oncogene is such a factor, possessing a region of 85-90 amino acids known as the ETS (erythroblast transformation specific) domain [, ]. This domain is rich in positively-charged and aromatic residues, and binds to purine-rich segments of DNA. The ETS domain IPR000418 from INTERPRO has been identified in other transcription factors such as PU.1, human erg, human elf-1, human elk-1, GA binding protein, and a number of others [, , ]. It is generally localized at the C terminus of the protein, with the exception of ELF-1, ELK-1, ELK-3, ELK-4 and ERF where it is found at the N terminus. This entry describes the highly conserved PNT (or Pointed) domain which is found within a subset of the ETs domain (IPR000418 from INTERPRO ), including mammalian Ets-1, Ets-2, Erg, Fli-1, GABPalpha, and Tel, as well as Drosophila Pnt-P2 and Yan. The PNT domain (IPR001660 from INTERPRO ) through a common tertiary arrangement of four alpha-helices. A role in protein-protein association has been established for the PNT domain [, ].; GO: 0043565 sequence-specific DNA binding, 0005634 nucleus; PDB: 1SXE_A 1SXD_A 2KMD_A 2JV3_A 2E8P_A 1SV4_B 1SV0_B 1LKY_F 1JI7_B 2DKX_A ....
Probab=68.26 E-value=3.8 Score=36.20 Aligned_cols=16 Identities=38% Similarity=0.761 Sum_probs=10.3
Q ss_pred ccccchhhHHHHHhhh
Q psy2928 311 VVKWNAEDTFLWLRKT 326 (744)
Q Consensus 311 vvkwn~ed~~~wlr~~ 326 (744)
-..|+.++..+||+-.
T Consensus 17 P~~Wt~~~V~~Wl~w~ 32 (84)
T PF02198_consen 17 PRLWTKEDVLQWLRWV 32 (84)
T ss_dssp GGG--HHHHHHHHHHH
T ss_pred hhhCCHHHHHHHHHHH
Confidence 3459999999999743
No 14
>PRK00290 dnaK molecular chaperone DnaK; Provisional
Probab=67.00 E-value=7.7 Score=45.14 Aligned_cols=68 Identities=10% Similarity=0.094 Sum_probs=55.6
Q ss_pred CchhHHHHHHHHHHHHHHHHhh--hcCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccchh
Q psy2928 280 YTGDARKQLSKYAEAAKKLIES--RNANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHLT 350 (744)
Q Consensus 280 ~~~eark~l~~yaeaakk~ies--r~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~~ 350 (744)
-..|||..|..|...+++.++. ...+++-|+-.+--++++.+||..+ +.++++++++.|+..|++...
T Consensus 524 ~~~eakN~le~~i~~~~~~l~~~~~~~~~~e~~~i~~~l~~~~~wL~~~---~~~~i~~k~~~L~~~~~~~~~ 593 (627)
T PRK00290 524 ELVEARNQADSLIYQTEKTLKELGDKVPADEKEKIEAAIKELKEALKGE---DKEAIKAKTEELTQASQKLGE 593 (627)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHHH
Confidence 3568999999999999999973 2567777787788889999999854 778999999999988877553
No 15
>KOG0150|consensus
Probab=64.44 E-value=3.4 Score=45.31 Aligned_cols=30 Identities=33% Similarity=0.609 Sum_probs=23.6
Q ss_pred HHHHhhcc---cCCCcceeccCCcccccCCCCC
Q psy2928 93 WRKFWSKR---ENRPYYWNRASGESLWDMPQGS 122 (744)
Q Consensus 93 w~k~wskr---e~rpy~~nk~t~~slwe~p~~~ 122 (744)
=.+-|+.- +.-+||||+.||+|.|.-|...
T Consensus 149 ~~k~wv~~Knes~~~yy~n~~t~esvwk~P~~~ 181 (336)
T KOG0150|consen 149 ETKEWVEGKNESGPTYYSNKRTNESVWKPPRIS 181 (336)
T ss_pred hhhhcccccCCCCCCcceecCCCccccCCCCcc
Confidence 35778754 3467999999999999999843
No 16
>TIGR02350 prok_dnaK chaperone protein DnaK. Members of this family are the chaperone DnaK, of the DnaK-DnaJ-GrpE chaperone system. All members of the seed alignment were taken from completely sequenced bacterial or archaeal genomes and (except for Mycoplasma sequence) found clustered with other genes of this systems. This model excludes DnaK homologs that are not DnaK itself, such as the heat shock cognate protein HscA (TIGR01991). However, it is not designed to distinguish among DnaK paralogs in eukaryotes. Note that a number of dnaK genes have shadow ORFs in the same reverse (relative to dnaK) reading frame, a few of which have been assigned glutamate dehydrogenase activity. The significance of this observation is unclear; lengths of such shadow ORFs are highly variable as if the presumptive protein product is not conserved.
Probab=56.01 E-value=15 Score=42.48 Aligned_cols=67 Identities=13% Similarity=0.142 Sum_probs=53.7
Q ss_pred CchhHHHHHHHHHHHHHHHHhh--hcCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccch
Q psy2928 280 YTGDARKQLSKYAEAAKKLIES--RNANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHL 349 (744)
Q Consensus 280 ~~~eark~l~~yaeaakk~ies--r~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~ 349 (744)
-+.|||.+|..|...+++.+++ ..++++-|+-.+--++++.+||... +.+++++.++.|++.|.+..
T Consensus 522 ~~~e~kn~lEs~iy~~r~~l~~~~~~~~~~e~~~l~~~l~~~~~wL~~~---d~~~i~~~~~~l~~~~~~~~ 590 (595)
T TIGR02350 522 EEIEARNNADSLAYQAEKTLKEAGDKLPAEEKEKIEKAVAELKEALKGE---DVEEIKAKTEELQQALQKLA 590 (595)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHH
Confidence 3567999999999999999964 3567777777777888999999854 66788888898888887644
No 17
>PTZ00400 DnaK-type molecular chaperone; Provisional
Probab=52.27 E-value=18 Score=42.83 Aligned_cols=68 Identities=12% Similarity=0.105 Sum_probs=54.4
Q ss_pred CCchhHHHHHHHHHHHHHHHHhh--hcCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccch
Q psy2928 279 KYTGDARKQLSKYAEAAKKLIES--RNANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHL 349 (744)
Q Consensus 279 k~~~eark~l~~yaeaakk~ies--r~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~ 349 (744)
+-..|||..|..|...+++.+++ ...+++-|+-.+--++++..||... +.+++.++++.|++.|.+..
T Consensus 564 ~~~~eakN~lEs~iy~~r~~l~e~~~~~s~~ere~i~~~l~~~~~WL~~~---d~~~i~~k~~eL~~~l~~l~ 633 (663)
T PTZ00400 564 KELVDAKNEAETLIYSVEKQLSDLKDKISDADKDELKQKITKLRSTLSSE---DVDSIKDKTKQLQEASWKIS 633 (663)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhCCHHHHHHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHH
Confidence 33578999999999999999965 3557777777788889999999854 57888888888888877644
No 18
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=50.35 E-value=56 Score=27.19 Aligned_cols=18 Identities=22% Similarity=0.455 Sum_probs=9.9
Q ss_pred CCChHHHHHHHHHHHhhc
Q psy2928 328 GATYDDFQERLNHLKTQC 345 (744)
Q Consensus 328 ~at~~d~~~rl~hl~~qc 345 (744)
+.++++..+.++.++.-+
T Consensus 30 ~~~~~~~~~~~~~~~~~~ 47 (105)
T PF00435_consen 30 GSDLEELEEQLKKHKELQ 47 (105)
T ss_dssp SSSHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhhhh
Confidence 456666665555554444
No 19
>CHL00094 dnaK heat shock protein 70
Probab=48.27 E-value=23 Score=41.47 Aligned_cols=67 Identities=13% Similarity=0.120 Sum_probs=54.8
Q ss_pred CchhHHHHHHHHHHHHHHHHhh--hcCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccch
Q psy2928 280 YTGDARKQLSKYAEAAKKLIES--RNANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHL 349 (744)
Q Consensus 280 ~~~eark~l~~yaeaakk~ies--r~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~ 349 (744)
-+.||+..|..|...++..++. ..++++-|+-++--++++-+||..+ ..++++++++.|++.|++..
T Consensus 526 ~~~~~kn~le~~i~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~wl~~~---~~~~~~~~~~~l~~~~~~~~ 594 (621)
T CHL00094 526 EKIDLKNQAESLCYQAEKQLKELKDKISEEKKEKIENLIKKLRQALQND---NYESIKSLLEELQKALMEIG 594 (621)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHH
Confidence 3568999999999999999974 3567777888888888999999854 55899999999998887654
No 20
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=47.84 E-value=81 Score=31.96 Aligned_cols=83 Identities=25% Similarity=0.412 Sum_probs=45.8
Q ss_pred cccccCCCCchhHHHHHHHHHHHHHHHHhhhcCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccchhh
Q psy2928 272 PLKLKKPKYTGDARKQLSKYAEAAKKLIESRNANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHLTE 351 (744)
Q Consensus 272 P~kl~~~k~~~eark~l~~yaeaakk~iesr~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~~e 351 (744)
-|++..|..|+|.|+.|.+-+.. +.| ++..=||.- --|.++.|+.++.... +
T Consensus 88 ~Iri~iP~lT~E~RkelvK~~k~---~~E-----------------~aKv~iRni----Rr~~~~~iKk~~k~~~--i-- 139 (176)
T TIGR00496 88 VIRVNFPPLTEERRKELVKHAKK---IAE-----------------QAKVAVRNV----RRDANDKVKKLEKDKE--I-- 139 (176)
T ss_pred EEEecCCCCCHHHHHHHHHHHHH---HHH-----------------HHHHHHHHH----HHHHHHHHHHHhhcCC--C--
Confidence 36899999999999887664432 222 222222211 1234444444433221 2
Q ss_pred HhhhhHHHHHHHHHHhhHHHHHHHHh----hhhhHH
Q psy2928 352 TVKDSVEKICLKIQHLSTEHAKKIRD----KNSDLL 383 (744)
Q Consensus 352 ~~k~sVe~ic~ki~~lS~e~~~ki~~----k~~~ll 383 (744)
.++.+..+=..|+.|--+|+++|.+ |-.+||
T Consensus 140 -seD~~k~~~~~iQkltd~~i~~id~~~~~Kekeim 174 (176)
T TIGR00496 140 -SEDEERRLQEEIQKLTDEYIKKIDEILKDKEKELM 174 (176)
T ss_pred -ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 2345555566777777788888755 555554
No 21
>KOG0966|consensus
Probab=46.11 E-value=1.3e+02 Score=37.39 Aligned_cols=70 Identities=21% Similarity=0.364 Sum_probs=52.8
Q ss_pred ccCCCCchhHHHHHH-------H--HHHHHHHHHhhhcCCcccccccccchhhHHHHHhhhcCCChHHHH--HHHHHHHh
Q psy2928 275 LKKPKYTGDARKQLS-------K--YAEAAKKLIESRNANSESRKVVKWNAEDTFLWLRKTVGATYDDFQ--ERLNHLKT 343 (744)
Q Consensus 275 l~~~k~~~eark~l~-------~--yaeaakk~iesr~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~--~rl~hl~~ 343 (744)
|+-|+.++||-+.+. + |+.+++-.++.|..++.|-.|-=-||-| -|...-++..++-+ .-|.+|.+
T Consensus 80 l~lprds~Da~rL~nwr~~~~~~Gdfs~i~~~vl~~R~~~~~s~alTi~evN~---lLD~LA~~~~~~~~~~~~l~~lv~ 156 (881)
T KOG0966|consen 80 LHLPRDSADAVRLKNWRASTGARGDFSLILYEVLQRRCENPSSGALTIKEVND---LLDSLASGPSEDGKKFKKLSQLVE 156 (881)
T ss_pred hcCCCCcHHHHHHHhhccCCCcCccHHHHHHHHHHHHhcCCCCCceeHHHHHH---HHHHHcCCchhhhhhhHHHHHHHH
Confidence 356788889988883 2 8889988888888888887665455555 67766677777766 56999999
Q ss_pred hccc
Q psy2928 344 QCQP 347 (744)
Q Consensus 344 qc~p 347 (744)
||-|
T Consensus 157 ~~S~ 160 (881)
T KOG0966|consen 157 QCSP 160 (881)
T ss_pred hCCH
Confidence 9963
No 22
>PF13769 Virulence_fact: Virulence factor
Probab=44.59 E-value=22 Score=32.64 Aligned_cols=31 Identities=32% Similarity=0.487 Sum_probs=24.6
Q ss_pred hcccccccCCCCchhHHHHHH-HHHHHHHHHH
Q psy2928 269 NDIPLKLKKPKYTGDARKQLS-KYAEAAKKLI 299 (744)
Q Consensus 269 ~DiP~kl~~~k~~~eark~l~-~yaeaakk~i 299 (744)
.|||+-+.--+-..++|.+|. +|.+|+.+..
T Consensus 4 rdIP~QVkv~~g~~e~r~~Lp~RF~~Aid~aA 35 (86)
T PF13769_consen 4 RDIPAQVKVTDGREEARVQLPERFEEAIDRAA 35 (86)
T ss_pred cCCceEEEEecCchhhhccCCHHHHHHHHHHH
Confidence 589998887777799999995 7888776554
No 23
>PF00012 HSP70: Hsp70 protein; InterPro: IPR013126 Heat shock proteins, Hsp70 chaperones help to fold many proteins. Hsp70 assisted folding involves repeated cycles of substrate binding and release. Hsp70 activity is ATP dependent. Hsp70 proteins are made up of two regions: the amino terminus is the ATPase domain and the carboxyl terminus is the substrate binding region []. Hsp70 proteins have an average molecular weight of 70 kDa [, , ]. In most species,there are many proteins that belong to the hsp70 family. Some of these are only expressed under stress conditions (strictly inducible), while some are present in cells under normal growth conditions and are not heat-inducible (constitutive or cognate) [, ]. Hsp70 proteins can be found in different cellular compartments(nuclear, cytosolic, mitochondrial, endoplasmic reticulum, for example).; PDB: 2P32_D 3D2F_A 2QXL_A 3D2E_C 3C7N_A 3FE1_C 4ANI_C 2V7Y_A 2KHO_A 3DPQ_B ....
Probab=42.81 E-value=29 Score=39.31 Aligned_cols=65 Identities=26% Similarity=0.435 Sum_probs=49.8
Q ss_pred chhHHHHHHHHHHHHHHHHhhhc-CCcccccccccchhhHHHHHhhhc-CCChHHHHHHHHHHHhhccc
Q psy2928 281 TGDARKQLSKYAEAAKKLIESRN-ANSESRKVVKWNAEDTFLWLRKTV-GATYDDFQERLNHLKTQCQP 347 (744)
Q Consensus 281 ~~eark~l~~yaeaakk~iesr~-as~esrkvvkwn~ed~~~wlr~~~-~at~~d~~~rl~hl~~qc~p 347 (744)
..+++..|..|....++.+++.. .-++..+ +-.++++..||.... .++.++|++||+.|++..+|
T Consensus 529 ~~e~kn~lE~~i~~~r~~l~~~~~~~~~~~~--~~~l~~~~~wl~~~~~~~~~~e~~~kl~~L~~~~~~ 595 (602)
T PF00012_consen 529 RAEAKNELESYIYELRDKLEEDKDFVSEEEK--KKKLKETSDWLEDNGEDADKEEYKEKLEELKKVIEP 595 (602)
T ss_dssp HHHHHHHHHHHHHHHHHHHTCCGGGSTHHHH--HHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHHHHHH
T ss_pred ccccHHHHHHHHHHHHHHHHhhhccCCHHHH--HHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHH
Confidence 47899999999998888887761 1111111 457889999999885 67999999999999886654
No 24
>PRK05183 hscA chaperone protein HscA; Provisional
Probab=40.65 E-value=41 Score=39.52 Aligned_cols=67 Identities=9% Similarity=0.077 Sum_probs=51.6
Q ss_pred chhHHHHHHHHHHHHHHHHhh--hcCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccchh
Q psy2928 281 TGDARKQLSKYAEAAKKLIES--RNANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHLT 350 (744)
Q Consensus 281 ~~eark~l~~yaeaakk~ies--r~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~~ 350 (744)
..|+|.++..|...+++.+++ ...+++-|+-++--++++-.||..+ ..+++.+.++.|+..|.+.+.
T Consensus 529 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~---d~~~~~~~~~~l~~~~~~~~~ 597 (616)
T PRK05183 529 LAEQKVEAERVLEALQAALAADGDLLSAAERAAIDAAMAALREVAQGD---DADAIEAAIKALDKATQEFAA 597 (616)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHHH
Confidence 457888999999999998864 3567777777777778888899743 667888888888888866654
No 25
>KOG0101|consensus
Probab=39.65 E-value=35 Score=40.80 Aligned_cols=70 Identities=23% Similarity=0.424 Sum_probs=48.2
Q ss_pred hhHHHHHHHHHHHHHHHHhhh--cCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccchhh
Q psy2928 282 GDARKQLSKYAEAAKKLIESR--NANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHLTE 351 (744)
Q Consensus 282 ~eark~l~~yaeaakk~iesr--~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~~e 351 (744)
-.++.+|-.|+=-.|--++.- ..+++-++=..=-++++++||...+.|..|+|..|+..|+.-|.|-++.
T Consensus 540 v~~~~~le~~~f~~~~~~~~~~~~i~~~~~~~~~~~~~~~i~wl~~~~~~~~~e~e~k~~el~~~~~p~~~~ 611 (620)
T KOG0101|consen 540 VAAKNSLESYAFNMKATVEDEKGKINEEDKQKILDKCNEVINWLDKNQLAEKEEFEHKQKELELVCNPIISK 611 (620)
T ss_pred HHHHhhHHHHHHhhhhhhhhhccccChhhhhhHHHHHHHHHHHhhhcccccccHHHHHHHHHHhhccHHHHh
Confidence 345556666665554444433 2333322222335788999999999999999999999999999987764
No 26
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=39.64 E-value=1.4e+02 Score=30.59 Aligned_cols=19 Identities=37% Similarity=0.557 Sum_probs=15.9
Q ss_pred ccccCCCCchhHHHHHHHH
Q psy2928 273 LKLKKPKYTGDARKQLSKY 291 (744)
Q Consensus 273 ~kl~~~k~~~eark~l~~y 291 (744)
|++..|+.|+|.|++|.|-
T Consensus 98 Iri~iP~lT~E~R~elvK~ 116 (185)
T PRK00083 98 IRLPIPPLTEERRKELVKQ 116 (185)
T ss_pred EEecCCCCCHHHHHHHHHH
Confidence 6889999999999877653
No 27
>KOG4603|consensus
Probab=37.24 E-value=97 Score=32.24 Aligned_cols=66 Identities=29% Similarity=0.374 Sum_probs=48.6
Q ss_pred hhhcCC-ChHHHHHHHHHHHhhcc-------------cchhhHhhhhHH-------HHHHHHHHhhHHHHHHHHh----h
Q psy2928 324 RKTVGA-TYDDFQERLNHLKTQCQ-------------PHLTETVKDSVE-------KICLKIQHLSTEHAKKIRD----K 378 (744)
Q Consensus 324 r~~~~a-t~~d~~~rl~hl~~qc~-------------ph~~e~~k~sVe-------~ic~ki~~lS~e~~~ki~~----k 378 (744)
+...+| |.++.|+-...|+.-|- .|++-.=|+-|+ .-|+|+-.+-+|..-++-+ +
T Consensus 110 k~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~k~g~~~vtpedk~~v~~~y~~~~~~wrk~krmf~ei~d~~~e~~pk~ 189 (201)
T KOG4603|consen 110 KELSSALTTEEMQEEIQELKKEVAGYRERLKNIKAGTNHVTPEDKEQVYREYQKYCKEWRKRKRMFREIIDKLLEGLPKK 189 (201)
T ss_pred HHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcch
Confidence 333444 88888888888888882 777776666666 5677887777777777765 6
Q ss_pred hhhHHhhcCCC
Q psy2928 379 NSDLLTANGIQ 389 (744)
Q Consensus 379 ~~~llke~gi~ 389 (744)
-+++..|-||+
T Consensus 190 ksel~eelGIE 200 (201)
T KOG4603|consen 190 KSELYEELGIE 200 (201)
T ss_pred HHHHHHHhCcC
Confidence 67888888886
No 28
>PRK01433 hscA chaperone protein HscA; Provisional
Probab=37.05 E-value=34 Score=40.21 Aligned_cols=73 Identities=8% Similarity=0.016 Sum_probs=45.5
Q ss_pred chhHHHHHHHHHHHHHHHHhh--hcCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccchhhHhhhhHH
Q psy2928 281 TGDARKQLSKYAEAAKKLIES--RNANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHLTETVKDSVE 358 (744)
Q Consensus 281 ~~eark~l~~yaeaakk~ies--r~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~~e~~k~sVe 358 (744)
..|++.++..|.+.+++++++ ...+++.|+-++--+++...||... ..+++.+.+++|+ +.++.++|
T Consensus 507 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~~~~~~~~~l~~~---~~~~~~~~~~~~~--------~~~~~~~~ 575 (595)
T PRK01433 507 LQEAVIEAEALIFNIERAIAELTTLLSESEISIINSLLDNIKEAVHAR---DIILINNSIKEFK--------SKIKKSMD 575 (595)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHhcC---CHHHHHHHHHHHH--------HHHHHHHH
Confidence 346677788899999999976 2356677776766677777888744 3344444444443 23344455
Q ss_pred HHHHHH
Q psy2928 359 KICLKI 364 (744)
Q Consensus 359 ~ic~ki 364 (744)
..|.-+
T Consensus 576 ~~~~~~ 581 (595)
T PRK01433 576 TKLNII 581 (595)
T ss_pred HHhhHH
Confidence 555444
No 29
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=36.69 E-value=1.6e+02 Score=29.79 Aligned_cols=21 Identities=33% Similarity=0.483 Sum_probs=17.2
Q ss_pred cccccCCCCchhHHHHHHHHH
Q psy2928 272 PLKLKKPKYTGDARKQLSKYA 292 (744)
Q Consensus 272 P~kl~~~k~~~eark~l~~ya 292 (744)
-|++..|+.|+|.|++|.|-+
T Consensus 93 ~iri~iP~lT~E~R~~lvK~~ 113 (179)
T cd00520 93 VIRVNLPPLTEERRKELVKDA 113 (179)
T ss_pred EEEecCCCCCHHHHHHHHHHH
Confidence 468889999999998876644
No 30
>KOG0241|consensus
Probab=36.42 E-value=1.1e+02 Score=38.93 Aligned_cols=88 Identities=19% Similarity=0.366 Sum_probs=55.8
Q ss_pred CChhhhhhhHHHhhhcccCCCCCCCCCCCC----CCCh--hHHHHHhhcccccccCCCCchhHHHHHHHHHHHHHHHHhh
Q psy2928 228 APHESFNRWLMERKVIDTGSDPLLPSQCYP----EISP--CMYREIMNDIPLKLKKPKYTGDARKQLSKYAEAAKKLIES 301 (744)
Q Consensus 228 aPreSFNRWl~ERkv~d~g~DPllPs~c~p----~~S~--sm~rEIm~DiP~kl~~~k~~~eark~l~~yaeaakk~ies 301 (744)
+=|+|.--||+.-.+ -.+|.- -||| .-|.|-++ -.|||++||+|++-
T Consensus 302 PYrDSVLTwLLkD~L---------GGNsrTvMiatvSPaAdnyeeTlS------------------tLRYadrAkrIvN~ 354 (1714)
T KOG0241|consen 302 PYRDSVLTWLLKDNL---------GGNSRTVMIATVSPAADNYEETLS------------------TLRYADRAKRIVNH 354 (1714)
T ss_pred cchhHHHHHHHHhhc---------CCCceeEEEEEecccccchHHHHH------------------HHHHHHHHHHhhcc
Confidence 558999999987432 122221 3455 44555443 46999999999998
Q ss_pred hcCCcc--ccccccc--chhhHHHHHhhhcCCChHHHHHHHHHHH
Q psy2928 302 RNANSE--SRKVVKW--NAEDTFLWLRKTVGATYDDFQERLNHLK 342 (744)
Q Consensus 302 r~as~e--srkvvkw--n~ed~~~wlr~~~~at~~d~~~rl~hl~ 342 (744)
-++|.+ .|-|-+- .||++..=|-+...+-..++.|||+.+-
T Consensus 355 avvNedpnarvirElReEve~lr~qL~~ae~~~~~el~e~l~ese 399 (1714)
T KOG0241|consen 355 AVVNEDPNARVIRELREEVEKLREQLEQAEAMKLPELKEKLEESE 399 (1714)
T ss_pred ccccCCchHHHHHHHHHHHHHHHHHHhhhhhccchHHHHHHHHHH
Confidence 877744 4444443 6777666665545556667777766654
No 31
>PF01765 RRF: Ribosome recycling factor; InterPro: IPR023584 The ribosome recycling factor or ribosome release factor (RRF) dissociates ribosomes from mRNA after termination of translation, and is essential for bacterial growth []. Thus ribosomes are 'recycled' and ready for another round of protein synthesis. This entry represents a domain found in ribosome recycling factors.; PDB: 3R8N_Y 1Y69_8 1ISE_A 1EK8_A 1DD5_A 1WIH_A 2Z4L_6 2QBE_6 2V46_Y 1EH1_A ....
Probab=33.93 E-value=2.1e+02 Score=28.28 Aligned_cols=76 Identities=30% Similarity=0.416 Sum_probs=39.3
Q ss_pred ccccCCCCchhHHHHHHHHHHHHHHHHhhhcCCcccccccccchhhHHHHHhhhcCCChHHHHHHHHHHHhhcccchhhH
Q psy2928 273 LKLKKPKYTGDARKQLSKYAEAAKKLIESRNANSESRKVVKWNAEDTFLWLRKTVGATYDDFQERLNHLKTQCQPHLTET 352 (744)
Q Consensus 273 ~kl~~~k~~~eark~l~~yaeaakk~iesr~as~esrkvvkwn~ed~~~wlr~~~~at~~d~~~rl~hl~~qc~ph~~e~ 352 (744)
|++..|+-|.|.|++|.+=+ |++.|. +..=||.- --++++.|+.++.... .
T Consensus 80 i~v~iP~~T~E~R~~l~k~~---k~~~E~-----------------~k~~iR~i----R~~~~~~lkk~~~~~~-----~ 130 (165)
T PF01765_consen 80 IRVPIPPPTEERRKELVKQA---KKIAEE-----------------AKVSIRNI----RRDAMKKLKKLKKSKE-----I 130 (165)
T ss_dssp EEEE--SSSHHHHHHHHHHH---HHHHHH-----------------HHHHHHHH----HHHHHHHHHHHHHTTS-----S
T ss_pred EEEECCCCCHHHHHHHHHHH---HHHHHH-----------------HHHHHHHH----HHHHHHHHHhhhccCC-----C
Confidence 67889999999998876533 333322 11222211 1244544444444322 2
Q ss_pred hhhhHHHHHHHHHHhhHHHHHHHHh
Q psy2928 353 VKDSVEKICLKIQHLSTEHAKKIRD 377 (744)
Q Consensus 353 ~k~sVe~ic~ki~~lS~e~~~ki~~ 377 (744)
.++.+..+=.+|+.+--+|.++|.+
T Consensus 131 s~D~~~~~~~~iq~l~~~~~~~id~ 155 (165)
T PF01765_consen 131 SEDDIKKLEKEIQKLTDKYIKKIDE 155 (165)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchhhHHHHHHHHHHHHHHHHHHHH
Confidence 3344555556666777777777654
No 32
>KOG0155|consensus
Probab=32.93 E-value=53 Score=38.82 Aligned_cols=28 Identities=29% Similarity=0.882 Sum_probs=24.7
Q ss_pred hHHHHhhcccCCCcceeccCCcccccCCC
Q psy2928 92 GWRKFWSKRENRPYYWNRASGESLWDMPQ 120 (744)
Q Consensus 92 gw~k~wskre~rpy~~nk~t~~slwe~p~ 120 (744)
-|-=.|-+ .||=||||..|-.|+||-|.
T Consensus 115 dWcVVwTg-D~RvFFyNpktk~S~We~P~ 142 (617)
T KOG0155|consen 115 DWCVVWTG-DNRVFFYNPKTKLSVWERPL 142 (617)
T ss_pred CeEEEEeC-CCceEEeCCccccccccCch
Confidence 38888876 58999999999999999985
No 33
>CHL00060 atpB ATP synthase CF1 beta subunit
Probab=30.81 E-value=84 Score=36.81 Aligned_cols=102 Identities=15% Similarity=0.145 Sum_probs=66.0
Q ss_pred HhhcccccccCCCCchhHHHHHHHHHHHHHHHH---hhhcCCcccccccccchhhHHHHHhhh------------cCCCh
Q psy2928 267 IMNDIPLKLKKPKYTGDARKQLSKYAEAAKKLI---ESRNANSESRKVVKWNAEDTFLWLRKT------------VGATY 331 (744)
Q Consensus 267 Im~DiP~kl~~~k~~~eark~l~~yaeaakk~i---esr~as~esrkvvkwn~ed~~~wlr~~------------~~at~ 331 (744)
+|++|=-+ ...+.....|+.|.+|.|+- .|| .-..-|++.++.++. .+.+..||++. ...++
T Consensus 371 ~~~~~v~~-~h~~~a~~~r~~la~y~e~e-~li~~~g~~~ls~~~~~~i~~-~~~i~~fL~Q~~f~~e~ft~~~~~~~~~ 447 (494)
T CHL00060 371 LQPRIVGE-EHYETAQRVKQTLQRYKELQ-DIIAILGLDELSEEDRLTVAR-ARKIERFLSQPFFVAEVFTGSPGKYVGL 447 (494)
T ss_pred cccccCCH-HHHHHHHHHHHHHHHhHHHH-HHHHHhCcccCCHHHHHHHHh-HHHHHHHhcCCcchhhcccCCCCcccCH
Confidence 45555111 23456678889999998876 333 334456888888873 45556799987 45577
Q ss_pred HHHHHHHHHHHhhcccchhhHhh---hhHHHHHHHHHHhhHHH
Q psy2928 332 DDFQERLNHLKTQCQPHLTETVK---DSVEKICLKIQHLSTEH 371 (744)
Q Consensus 332 ~d~~~rl~hl~~qc~ph~~e~~k---~sVe~ic~ki~~lS~e~ 371 (744)
+|-.+.|+.+-..=-.++.|... .+++.+-.|-.++..|.
T Consensus 448 ~~~~~~l~~i~~g~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 490 (494)
T CHL00060 448 AETIRGFQLILSGELDGLPEQAFYLVGNIDEATAKAANLEVES 490 (494)
T ss_pred HHHHHHHHHHhCCCccCCCHHHhhccCcHHHHHHHHHHHHHhh
Confidence 77777777776555566666655 47766666666665554
No 34
>cd07636 BAR_GRAF The Bin/Amphiphysin/Rvs (BAR) domain of GTPase Regulator Associated with Focal adhesion kinase. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. GTPase Regulator Associated with Focal adhesion kinase (GRAF), also called Rho GTPase activating protein 26 (ARHGAP26), is a GAP with activity towards RhoA and Cdc42 and is only weakly active towards Rac1. It influences Rho-mediated cytoskeletal rearrangements and binds focal adhesion kinase (FAK), which is a critical component of integrin signaling. GRAF contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, a Rho GAP domain, and a C-terminal SH3 domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domain of GRAF directly interacts with its Rho GAP domain and inhibits its activity. Autoinhibited GRAF is capable o
Probab=29.13 E-value=1.2e+02 Score=31.79 Aligned_cols=94 Identities=16% Similarity=0.209 Sum_probs=65.5
Q ss_pred chhHH---HHHHHHHHHHHHHHhhhcCC-cccccccccchhhHHHHHhhh-------------cCCChHHHHHHHHHHHh
Q psy2928 281 TGDAR---KQLSKYAEAAKKLIESRNAN-SESRKVVKWNAEDTFLWLRKT-------------VGATYDDFQERLNHLKT 343 (744)
Q Consensus 281 ~~ear---k~l~~yaeaakk~iesr~as-~esrkvvkwn~ed~~~wlr~~-------------~~at~~d~~~rl~hl~~ 343 (744)
+.|.. ..|.+|+.+...|.+.|..= .+.-..+.-+.+ .|+.++ .+..|+.=.+|..+|.+
T Consensus 59 ~dDe~~I~~~L~kF~~~L~ei~~~r~~L~~qa~~~l~~~L~---~F~kedi~~~Ke~kK~FdK~se~~~~al~k~~~ls~ 135 (207)
T cd07636 59 TDDEICIARSLQEFAAVLRNLEDERTRMIENASEVLITPLE---KFRKEQIGAAKEAKKKYDKETEKYCAVLEKHLNLSS 135 (207)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhhhHhhhhhHHHHHHHHHhcCcc
Confidence 44444 88999999998888888542 221111211111 132222 36678888888888887
Q ss_pred hcccchhhHhhhhHHHHHHHHHHhhHHHHHHHHh
Q psy2928 344 QCQPHLTETVKDSVEKICLKIQHLSTEHAKKIRD 377 (744)
Q Consensus 344 qc~ph~~e~~k~sVe~ic~ki~~lS~e~~~ki~~ 377 (744)
-.-||-.+.|-+.++..=+--+|.|.||+-+|.+
T Consensus 136 k~K~~~~eEA~~~L~~~r~~F~~~sLdYV~qi~~ 169 (207)
T cd07636 136 KKKESQLHEADSQVDLVRQHFYEVSLEYVFKVQE 169 (207)
T ss_pred cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888888888899998888899999999999854
No 35
>PF06497 DUF1098: Protein of unknown function (DUF1098); InterPro: IPR009477 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf102; it is a family of uncharacterised viral proteins.
Probab=27.84 E-value=1.1e+02 Score=28.67 Aligned_cols=55 Identities=33% Similarity=0.427 Sum_probs=44.4
Q ss_pred hhHHHHHhhcccccccCCCCchhHHHHHHHHHHHHHHHHhhhcCCcccccccccchhhHHHHHh
Q psy2928 261 PCMYREIMNDIPLKLKKPKYTGDARKQLSKYAEAAKKLIESRNANSESRKVVKWNAEDTFLWLR 324 (744)
Q Consensus 261 ~sm~rEIm~DiP~kl~~~k~~~eark~l~~yaeaakk~iesr~as~esrkvvkwn~ed~~~wlr 324 (744)
....+=||+|- +.. .-++=+-|++=.-+||||+++.....++-+| |+++|..-|+
T Consensus 31 ~tva~~IlnD~----S~~--K~~sl~~Ls~~S~~aK~il~~Ie~~~~~i~l---~~~~avnvL~ 85 (95)
T PF06497_consen 31 QTVARLILNDT----SEN--KRNSLKRLSPQSAGAKKILESIEDDDDSIKL---NTDDAVNVLR 85 (95)
T ss_pred ccHHHHHHcCC----CHh--HHHHHHHHhHhhHHHHHHHHHHhcCCcceee---cHHHHHHHHH
Confidence 35677888885 223 3677788888899999999999998888777 9999999887
No 36
>PF02444 HEV_ORF1: Hepatitis E virus ORF-2 (Putative capsid protein); InterPro: IPR003384 The Hepatitis E virus(HEV) genome is a single-stranded, positive-sense RNA molecule of approximately 7.5 kb []. Three open reading frames (ORF) were identified within the HEV genome: ORF1 encodes nonstructural proteins, ORF2 encodes the putative structural protein(s), and ORF3 encodes a protein of unknown function. ORF2 contains a consensus signal peptide sequence at its amino terminus and a capsid-like region with a high content of basic amino acids similar to that seen with other virus capsid proteins [].; GO: 0030430 host cell cytoplasm
Probab=27.47 E-value=1e+02 Score=29.49 Aligned_cols=65 Identities=25% Similarity=0.308 Sum_probs=31.5
Q ss_pred CCcccCCCCCCCCCCCCCCCCCCccccccCCCceecccccccCCCCCCCCCcCCC-----CCCCCCCCCCCCCCCC---C
Q psy2928 5 GGKHETPAPTTSWDSMSVPQGPPIPITHENIQQVMVPVPIKMQPPPNLNPMMEHG-----NPMQQGPMTPHQGVQM---G 76 (744)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~-----~~~~~~p~~~~~~~~~---~ 76 (744)
||...+|+-+|+-.-|.- ---|+||-|||.| +.||.... .+-++..+..+.|+-+ +
T Consensus 36 gg~aavp~vvsgvtgLiL---------------SPSpSPIFiQPTP-s~pt~~~~PGLELAlgSqPahsAPlGvt~PSAP 99 (114)
T PF02444_consen 36 GGAAAVPAVVSGVTGLIL---------------SPSPSPIFIQPTP-SHPTSQPNPGLELALGSQPAHSAPLGVTSPSAP 99 (114)
T ss_pred ccccccceeeecceeeee---------------CCCCCCeeecCCC-CCCccCCCCCcccccCCCCCCCCCCccCCCCCC
Confidence 777777776665443320 1124666677544 45555443 2333333333334432 2
Q ss_pred CCCCCCCCC
Q psy2928 77 GSYIDHELP 85 (744)
Q Consensus 77 ~~~~~~~l~ 85 (744)
+...+-|||
T Consensus 100 Plp~vVDLP 108 (114)
T PF02444_consen 100 PLPPVVDLP 108 (114)
T ss_pred CCCccccCc
Confidence 334466766
No 37
>PRK14142 heat shock protein GrpE; Provisional
Probab=27.30 E-value=86 Score=33.35 Aligned_cols=69 Identities=17% Similarity=0.235 Sum_probs=45.8
Q ss_pred HHhhhcCCChHHHHHH----HHHHHhhcccchhhHhhhhHHHHHHHHHHhhHH--HHHHHHhhhhhHHhhcCCCCCC
Q psy2928 322 WLRKTVGATYDDFQER----LNHLKTQCQPHLTETVKDSVEKICLKIQHLSTE--HAKKIRDKNSDLLTANGIQEPP 392 (744)
Q Consensus 322 wlr~~~~at~~d~~~r----l~hl~~qc~ph~~e~~k~sVe~ic~ki~~lS~e--~~~ki~~k~~~llke~gi~e~~ 392 (744)
||| .-|-++.|..| .+.+++-..-.+...+-.+++.+.+-|.+.+.+ -.+.|+++...+|+.+||.+..
T Consensus 56 ~lR--~~AEfEN~RKR~erE~e~~~~~A~e~~~kdLLpVlDnLERAL~~~~~~~~~v~~I~kqL~~iLek~GVe~I~ 130 (223)
T PRK14142 56 LQR--VQADFANYRKRALRDQQAAADRAKASVVSQLLGVLDDLERARKHGDLESGPLKSVADKLDSALTGLGLVAFG 130 (223)
T ss_pred HHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHhHHHHHHhccccccHHHHHHHHHHHHHHHHCCCEEeC
Confidence 566 45667777777 344444444455555556777777777665432 2456899999999999999874
No 38
>TIGR01985 phasin_2 phasin. Members of the seed for this model all contain the rest of the components believed to be essential for this system (see the "polyhydroxyalkanoic acid synthesis" property in the GenPropDB). Members of this family score below trusted to another phasin model, TIGR01841 and together may represent a subfamily or broader equivalog.
Probab=27.21 E-value=1.9e+02 Score=27.18 Aligned_cols=57 Identities=25% Similarity=0.324 Sum_probs=38.8
Q ss_pred chhHHHHHHHHHHHHHHHHhhhcC------------CcccccccccchhhHHHHHhhhcCC-ChHHHHHH
Q psy2928 281 TGDARKQLSKYAEAAKKLIESRNA------------NSESRKVVKWNAEDTFLWLRKTVGA-TYDDFQER 337 (744)
Q Consensus 281 ~~eark~l~~yaeaakk~iesr~a------------s~esrkvvkwn~ed~~~wlr~~~~a-t~~d~~~r 337 (744)
.+.+|+...++..++++.++..-. +-+.-...|-|+|+++.-+.+..+| |..++++=
T Consensus 14 ~~qa~~a~~~~~~~ae~~~~~~~~s~~~~~~g~~~i~~~~l~~~k~~~e~~~~~~~~L~~aKsp~e~~el 83 (112)
T TIGR01985 14 VDQAKEAFAKFKGAAEETTKALEDAASTSSLTANEISSKTIEFMQANAEAAFDFTQKLVGAKDPSEAFEI 83 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHH
Confidence 456777777777777777666321 1112234456999999999999888 88887743
No 39
>KOG3673|consensus
Probab=26.27 E-value=25 Score=41.81 Aligned_cols=29 Identities=45% Similarity=0.856 Sum_probs=25.8
Q ss_pred HHHhHHHHhhcccCCCcceeccCCccccc
Q psy2928 89 IQQGWRKFWSKRENRPYYWNRASGESLWD 117 (744)
Q Consensus 89 ~q~gw~k~wskre~rpy~~nk~t~~slwe 117 (744)
|.+-|+-=|||--+.|||||+.|-+|-..
T Consensus 756 i~~~w~mg~SkS~~k~y~~n~k~k~S~f~ 784 (845)
T KOG3673|consen 756 IKQEWRMGWSKSQQKPYLWNEKSKYSSFW 784 (845)
T ss_pred eccchhhhcchhcCCcceeeeccccchhh
Confidence 57889999999999999999999988544
No 40
>COG5104 PRP40 Splicing factor [RNA processing and modification]
Probab=26.12 E-value=38 Score=39.30 Aligned_cols=46 Identities=30% Similarity=0.730 Sum_probs=36.2
Q ss_pred CCCCCHHHHH--------HhHHHHhhcccCCCcceeccCCcccccCCCCC-CCCCC
Q psy2928 81 DHELPPELIQ--------QGWRKFWSKRENRPYYWNRASGESLWDMPQGS-GFDPI 127 (744)
Q Consensus 81 ~~~l~~el~q--------~gw~k~wskre~rpy~~nk~t~~slwe~p~~~-~~d~i 127 (744)
.-+=|.||+. -||..|=+++ ++-||+|-.|-||-|..|.-. .-|||
T Consensus 38 ~weKPkell~~~e~~l~~~~Wke~~Tad-GkvyyyN~~TREs~W~iP~e~KkVe~~ 92 (590)
T COG5104 38 SWEKPKELLKGSEEDLDVDPWKECRTAD-GKVYYYNSITRESRWKIPPERKKVEPI 92 (590)
T ss_pred cccChHHHhcchHhhhchhhHHHHhhcC-CceEEecCccccccccCChhhhccCcH
Confidence 4566767665 4899998876 788999999999999999876 43444
No 41
>PTZ00444 hypothetical protein; Provisional
Probab=26.03 E-value=1.3e+02 Score=31.32 Aligned_cols=85 Identities=15% Similarity=0.259 Sum_probs=58.1
Q ss_pred hHHHHHHHHHHhhHHHHHHH----HhhhhhHHhhcCCCCCCCCCCCCCcceeeeeeeeeecCCCCCCceEEeecCCeEEE
Q psy2928 356 SVEKICLKIQHLSTEHAKKI----RDKNSDLLTANGIQEPPPPPSTLNSRKVWCYPIQFSTPSCRMPSIEYHPDKEQIML 431 (744)
Q Consensus 356 sVe~ic~ki~~lS~e~~~ki----~~k~~~llke~gi~e~~~~~~~~~~~kv~cy~vq~~~~~p~~p~ve~~~d~d~v~L 431 (744)
+-|+|..||-+|..|..+|| ++.-.++++.+|.=..| ||.--.+.|||. .|....|..|+
T Consensus 55 t~~~v~~~~~~id~e~~~kl~~~i~~ee~~~~~k~~~C~~p------------~~kRDYS~~CP~----GW~k~~dg~Ci 118 (184)
T PTZ00444 55 TPEQVSAKIHRIDKEVIKKLDKDIIKEENEDKKKHHSCGEP------------SYERDYSYPCPE----GWTKNSNGQCW 118 (184)
T ss_pred CHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhcccCcccCc------------cccccCCCcCCc----cceecCCCeee
Confidence 44688899999999998886 44667778888875444 676667778874 56667777788
Q ss_pred --EEcCceEE-EcHHHHHHHHHH-HHhhc
Q psy2928 432 --RFQNDTVT-VNSLHFQKLEHL-YRYSC 456 (744)
Q Consensus 432 --ry~g~~v~-in~~h~~KL~~L-Y~~~c 456 (744)
.|.|.=-+ .+-.|+.+-+.. |...|
T Consensus 119 p~~Y~GpC~~~~~Fk~~se~EK~~fe~~C 147 (184)
T PTZ00444 119 GMDYKGPCEALQYFKWFSEEEKREFENNC 147 (184)
T ss_pred cCCcCCCcccccccccCCHHHHHHHHHhc
Confidence 78873222 255555544433 77777
No 42
>COG4343 CRISPR-associated protein, RecB family exonuclease [Defense mechanisms]
Probab=26.00 E-value=50 Score=36.01 Aligned_cols=35 Identities=29% Similarity=0.659 Sum_probs=27.3
Q ss_pred hhhhhhhHHHhh-----hcccCCCCCCCCCCCCCCChhHHHHH
Q psy2928 230 HESFNRWLMERK-----VIDTGSDPLLPSQCYPEISPCMYREI 267 (744)
Q Consensus 230 reSFNRWl~ERk-----v~d~g~DPllPs~c~p~~S~sm~rEI 267 (744)
.+|..+|++|++ +|++|.||=+|-.|.+ .+||.++
T Consensus 239 ~d~lRseFLe~RD~~~div~~g~DPG~a~~C~~---~C~F~~~ 278 (281)
T COG4343 239 DDSLRSEFLEERDRVADIVEYGSDPGLAKSCPS---GCPFYEV 278 (281)
T ss_pred ChHHHHHHHHHHHHHHHHHHcCCCCCCCCCCCC---CCchHHh
Confidence 358888888874 7889999999999975 3566655
No 43
>cd08535 SAM_PNT-Tel_Yan Sterile alpha motif (SAM)/Pointed domain of Tel/Yan protein. SAM Pointed domain of Tel (Translocation, Ets, Leukemia)/Yan subfamily of ETS transcriptional repressors is a protein-protein interaction domain. SAM Pointed domains of this type of regulators can interact with each other, forming head-to-tail homodimers or homooligomers, and/or interact with SAM Pointed domains of another subfamily of ETS factors forming heterodimers. The oligomeric form is able to block transcription of target genesand is involved in MAPK signaling. They participate in regulation of different processes during embryo development including hematopoietic differentiation and eye development. Tel/Yan transcriptional factors are frequent targets of chromosomal translocations resulting in fusions of SAM domain with new neighboring genes. Such chimeric proteins were found in different tumors. Members of this subfamily are potential targets for cancer therapy.
Probab=25.89 E-value=82 Score=27.60 Aligned_cols=14 Identities=36% Similarity=0.957 Sum_probs=10.8
Q ss_pred ccchhhHHHHHhhh
Q psy2928 313 KWNAEDTFLWLRKT 326 (744)
Q Consensus 313 kwn~ed~~~wlr~~ 326 (744)
.|..++..+||+=.
T Consensus 5 ~Wt~~~V~~WL~wa 18 (68)
T cd08535 5 YWSRDDVLQWLRWA 18 (68)
T ss_pred hCCHHHHHHHHHHH
Confidence 48888888888754
No 44
>PF14748 P5CR_dimer: Pyrroline-5-carboxylate reductase dimerisation; PDB: 2RCY_D 3TRI_A 2IZZ_B 2GR9_B 2GRA_B 2GER_C 1YQG_A 2AG8_A 3GT0_A 2AMF_E ....
Probab=24.74 E-value=3.2e+02 Score=25.24 Aligned_cols=50 Identities=16% Similarity=0.187 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHhhhcCCcc-cccccccchhhHHHHHhhhcCCChHHHHHH
Q psy2928 287 QLSKYAEAAKKLIESRNANSE-SRKVVKWNAEDTFLWLRKTVGATYDDFQER 337 (744)
Q Consensus 287 ~l~~yaeaakk~iesr~as~e-srkvvkwn~ed~~~wlr~~~~at~~d~~~r 337 (744)
.++.|.++.-+-......+.+ ++++|...+.-+-+.|++. +.+.+++.++
T Consensus 19 ~~~~~~eal~~a~v~~Gl~~~~A~~lv~~t~~G~a~ll~~~-~~~~~~l~~~ 69 (107)
T PF14748_consen 19 YFFLFIEALADAAVAQGLPREEARKLVAQTFIGAAKLLEES-GRSPAELRDE 69 (107)
T ss_dssp HHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHC-SS-HHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHcc-CCCHHHHhhh
Confidence 456677766555666788855 9999999999999999843 3356665554
No 45
>PF11788 MRP-L46: 39S mitochondrial ribosomal protein L46 ; InterPro: IPR021757 This is the L46 subunit of the mammalian mitochondrial ribosome, conserved from plants and fungi.
Probab=22.55 E-value=2e+02 Score=26.59 Aligned_cols=67 Identities=22% Similarity=0.322 Sum_probs=39.1
Q ss_pred eEEEeecCCCCCCCCChhHHHHHH---HHHHHHHHHHHHHhhhhcCCCCChhhhhhhHHHhh-hcccCCCCCCCC
Q psy2928 183 NVIILERAPTSMPQPHPEIELFRC---NLTNKLRHLLQDMCHSREGIDAPHESFNRWLMERK-VIDTGSDPLLPS 253 (744)
Q Consensus 183 n~~i~er~p~~~~~p~peiE~~R~---~l~~klR~~y~elc~~re~i~aPreSFNRWl~ERk-v~d~g~DPllPs 253 (744)
-+||++|+|-..+.++|.-..+-. .|..+|-+-+-..+.-+.| -+.|. ||...++ +++...++..+-
T Consensus 5 aav~L~R~Pvit~~~t~~E~~y~~yq~~L~~rl~~~~s~~~~fe~~--~~~e~--~~~~~~~~~~~~~~~~~~~~ 75 (111)
T PF11788_consen 5 AAVCLSRPPVITPEPTPFEKAYYEYQKELLRRLEWEFSLYFYFELG--TLAEK--RFKAKQKKLIDKDEDVAFDK 75 (111)
T ss_pred EEEEEecCCccCCCCCHHHHHHHHHHHHHHHHHhccccHHHHHHhh--chHHH--HHHHHhcccccccccccccc
Confidence 379999999999999997666522 2333443333333333333 23334 8876654 666654544443
No 46
>KOG4117|consensus
Probab=22.45 E-value=2.6e+02 Score=25.17 Aligned_cols=43 Identities=28% Similarity=0.379 Sum_probs=28.6
Q ss_pred hhHhhhhHHHHHHHHHHhhHHHHHHHHh----------hhhhHHhhcCCCCCC
Q psy2928 350 TETVKDSVEKICLKIQHLSTEHAKKIRD----------KNSDLLTANGIQEPP 392 (744)
Q Consensus 350 ~e~~k~sVe~ic~ki~~lS~e~~~ki~~----------k~~~llke~gi~e~~ 392 (744)
+-.+......+--|.+|+|-....||.+ ....|+..+||++.+
T Consensus 18 Ts~vQ~lLQq~QDkFQtMSDQII~RiDDM~~riDDLEKnIaDLm~qagvE~~~ 70 (73)
T KOG4117|consen 18 TSVVQGLLQQTQDKFQTMSDQIIGRIDDMSSRIDDLEKNIADLMTQAGVEELE 70 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHccccCCC
Confidence 3344444555566677777777776644 456789999999874
No 47
>cd08533 SAM_PNT-ETS-1,2 Sterile alpha motif (SAM)/Pointed domain of ETS-1,2 family. SAM Pointed domain of ETS-1,2 family of transcriptional activators is a protein-protein interaction domain. It carries a kinase docking site and mediates interaction between ETS transcriptional activators and protein kinases. This group of transcriptional factors is involved in the Ras/MAP kinase signaling pathway. MAP kinases phosphorylate the transcription factors. Phosphorylated factors then recruit coactivators and enhance transactivation. Members of this group play a role in regulation of different embryonic developmental processes. ETS-1,2 transcriptional activators are proto-oncogenes involved in malignant transformation and tumor progression. They are potential molecular targets for selective cancer therapy.
Probab=22.24 E-value=1.1e+02 Score=27.15 Aligned_cols=13 Identities=23% Similarity=0.529 Sum_probs=8.6
Q ss_pred ccchhhHHHHHhh
Q psy2928 313 KWNAEDTFLWLRK 325 (744)
Q Consensus 313 kwn~ed~~~wlr~ 325 (744)
.|+.++..+||+=
T Consensus 6 ~Wt~~~V~~WL~W 18 (71)
T cd08533 6 LWTETHVRQWLLW 18 (71)
T ss_pred hCCHHHHHHHHHH
Confidence 3677777777763
No 48
>PRK14164 heat shock protein GrpE; Provisional
Probab=20.12 E-value=1.3e+02 Score=31.84 Aligned_cols=69 Identities=17% Similarity=0.245 Sum_probs=42.3
Q ss_pred HHhhhcCCChHHHHHH----HHHHHhhcccchhhHhhhhHHHHHHHHHHhhHH--HHHHHHhhhhhHHhhcCCCCCC
Q psy2928 322 WLRKTVGATYDDFQER----LNHLKTQCQPHLTETVKDSVEKICLKIQHLSTE--HAKKIRDKNSDLLTANGIQEPP 392 (744)
Q Consensus 322 wlr~~~~at~~d~~~r----l~hl~~qc~ph~~e~~k~sVe~ic~ki~~lS~e--~~~ki~~k~~~llke~gi~e~~ 392 (744)
||| ..|-++-|..| .+.+++...-.+....-.+++.+-+-+.|.+.+ -.+-|.++...+|+.+||....
T Consensus 93 llR--~~AE~eN~RkR~~rE~e~~~~~a~~~~~~~LLpVlDnLerAl~~~~~~~g~l~~i~~~l~~vL~k~Gve~I~ 167 (218)
T PRK14164 93 LQR--VTAEYANYRRRTERERQAIIETAKAGVATDLLPILDDLDLAEQHGDLNEGPLKAFSDKLTNVLAGLKVEKFG 167 (218)
T ss_pred HHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHhcccccccHHHHHHHHHHHHHHHCCCEEeC
Confidence 455 45566666666 333444443444444445666666666555432 2456888999999999998764
Done!