Query psy8078
Match_columns 105
No_of_seqs 118 out of 718
Neff 5.7
Searched_HMMs 46136
Date Fri Aug 16 17:50:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8078.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8078hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4029|consensus 99.7 7.7E-18 1.7E-22 127.3 4.1 61 45-105 106-167 (228)
2 KOG3960|consensus 99.7 3.3E-17 7.1E-22 126.8 7.3 72 33-105 103-174 (284)
3 PF00010 HLH: Helix-loop-helix 99.6 8.1E-16 1.8E-20 92.9 7.3 53 48-100 1-55 (55)
4 KOG3898|consensus 99.6 1.8E-16 3.8E-21 122.5 4.2 59 46-104 70-128 (254)
5 cd00083 HLH Helix-loop-helix d 99.6 1.1E-14 2.3E-19 88.2 8.1 58 47-104 3-60 (60)
6 smart00353 HLH helix loop heli 99.5 6.9E-14 1.5E-18 83.3 7.2 53 53-105 1-53 (53)
7 KOG4395|consensus 99.4 7.5E-13 1.6E-17 102.7 5.7 59 46-104 172-230 (285)
8 KOG4447|consensus 99.3 9.3E-13 2E-17 95.8 3.1 58 46-104 76-133 (173)
9 KOG0561|consensus 99.3 5.8E-12 1.3E-16 100.1 6.9 53 48-101 60-112 (373)
10 KOG3910|consensus 99.0 3E-10 6.4E-15 95.1 5.4 60 46-105 524-584 (632)
11 KOG1319|consensus 98.9 5.8E-09 1.3E-13 78.5 7.1 55 47-101 61-119 (229)
12 KOG1318|consensus 98.6 2E-07 4.3E-12 76.7 8.1 57 48-104 233-290 (411)
13 KOG2483|consensus 98.5 1.6E-07 3.6E-12 72.2 6.0 58 46-103 57-114 (232)
14 KOG4304|consensus 97.6 5.1E-05 1.1E-09 58.9 3.5 52 51-102 35-91 (250)
15 KOG3561|consensus 97.6 0.00014 3E-09 64.3 5.6 54 49-102 21-75 (803)
16 KOG2588|consensus 97.6 6.1E-05 1.3E-09 67.2 3.4 54 47-102 275-328 (953)
17 KOG4447|consensus 96.9 0.00051 1.1E-08 50.5 1.7 54 48-102 21-75 (173)
18 PLN03217 transcription factor 96.8 0.0027 5.9E-08 42.5 4.5 43 61-103 20-65 (93)
19 KOG3558|consensus 93.5 0.16 3.5E-06 44.9 5.3 44 53-97 51-96 (768)
20 KOG3560|consensus 89.9 0.22 4.8E-06 43.3 2.2 36 61-97 38-75 (712)
21 KOG3559|consensus 70.5 4.9 0.00011 34.2 3.2 43 56-98 9-52 (598)
22 PF04839 PSRP-3_Ycf65: Plastid 58.8 4.7 0.0001 24.2 0.7 38 64-101 10-47 (49)
23 PRK02724 hypothetical protein; 56.8 13 0.00029 25.5 2.8 38 64-101 44-81 (104)
24 PF05687 DUF822: Plant protein 55.3 76 0.0016 23.2 6.6 31 44-74 7-37 (150)
25 CHL00163 ycf65 putative riboso 53.2 17 0.00036 24.9 2.8 39 64-102 39-77 (99)
26 PRK14056 phenylalanine 4-monoo 44.8 57 0.0012 28.6 5.4 87 1-92 446-537 (578)
27 KOG1748|consensus 34.7 16 0.00034 26.1 0.4 23 79-101 106-128 (131)
28 cd06257 DnaJ DnaJ domain or J- 29.2 50 0.0011 18.4 1.9 17 55-71 38-54 (55)
29 smart00271 DnaJ DnaJ molecular 28.7 51 0.0011 18.7 1.9 17 56-72 41-57 (60)
30 PHA01754 hypothetical protein 28.5 86 0.0019 19.8 2.9 41 61-102 16-56 (69)
31 PF13815 Dzip-like_N: Iguana/D 27.9 72 0.0016 21.6 2.8 22 83-104 57-79 (118)
32 COG3129 Predicted SAM-dependen 27.7 97 0.0021 24.8 3.8 13 93-105 58-70 (292)
33 PF10465 Inhibitor_I24: PinA p 24.1 81 0.0017 22.6 2.5 17 87-103 123-139 (140)
34 PTZ00037 DnaJ_C chaperone prot 23.8 1.5E+02 0.0032 24.7 4.4 15 58-72 65-79 (421)
35 PF15459 RRP14: 60S ribosome b 23.4 88 0.0019 19.4 2.3 18 59-76 3-20 (64)
36 KOG0869|consensus 21.6 1.5E+02 0.0033 22.0 3.6 49 52-100 24-72 (168)
37 KOG1164|consensus 21.5 1.9E+02 0.0042 22.2 4.4 32 67-102 107-138 (322)
38 PF11590 DNAPolymera_Pol: DNA 20.9 1.3E+02 0.0029 17.3 2.5 11 60-70 30-40 (41)
No 1
>KOG4029|consensus
Probab=99.70 E-value=7.7e-18 Score=127.31 Aligned_cols=61 Identities=61% Similarity=0.868 Sum_probs=57.6
Q ss_pred cHHHhHHhhHHHHHHHHHHHHHHHHHHhhCCCCCC-CCCCCHHHHHHHHHHHHHHHHHhhcC
Q psy8078 45 TQKYRTAHATRERVRVEAFNSAFGELRKLLPTLPP-DKKLSKIEILRLAICYIAYLNNVLET 105 (105)
Q Consensus 45 ~~~~R~~an~rER~R~~~in~af~~LR~~vP~~~~-~~klSKi~~Lr~Ai~YI~~L~~~L~~ 105 (105)
...+|..+|.|||.|++.||.+|..||.+||+.+. ++|+||++||+.||.||.+|+++|++
T Consensus 106 ~~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~ 167 (228)
T KOG4029|consen 106 TSAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLAT 167 (228)
T ss_pred hhhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcc
Confidence 45688899999999999999999999999999888 99999999999999999999999974
No 2
>KOG3960|consensus
Probab=99.70 E-value=3.3e-17 Score=126.76 Aligned_cols=72 Identities=35% Similarity=0.528 Sum_probs=63.6
Q ss_pred ccHHHHhhhhhhcHHHhHHhhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhcC
Q psy8078 33 LSREERRRRRRATQKYRTAHATRERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNVLET 105 (105)
Q Consensus 33 ~~~~~~r~~~~~~~~~R~~an~rER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~L~~ 105 (105)
.+.++-.+|+..+..+|++|..|||+|.++||+||++|++..-. .++++|.||||||.||+||..||.+|.+
T Consensus 103 ~wackackrks~svDRRKAATMRERRRLkKVNEAFE~LKRrT~~-NPNQRLPKVEILRsAI~YIE~Lq~LL~~ 174 (284)
T KOG3960|consen 103 LWACKACKRKSTSVDRRKAATMRERRRLKKVNEAFETLKRRTSS-NPNQRLPKVEILRSAIRYIERLQALLQE 174 (284)
T ss_pred HHhhhhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCC-CccccccHHHHHHHHHHHHHHHHHHHHH
Confidence 35566666777889999999999999999999999999888743 5789999999999999999999999964
No 3
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=99.65 E-value=8.1e-16 Score=92.91 Aligned_cols=53 Identities=47% Similarity=0.660 Sum_probs=49.0
Q ss_pred HhHHhhHHHHHHHHHHHHHHHHHHhhCCCC--CCCCCCCHHHHHHHHHHHHHHHH
Q psy8078 48 YRTAHATRERVRVEAFNSAFGELRKLLPTL--PPDKKLSKIEILRLAICYIAYLN 100 (105)
Q Consensus 48 ~R~~an~rER~R~~~in~af~~LR~~vP~~--~~~~klSKi~~Lr~Ai~YI~~L~ 100 (105)
+|..||.+||.|+..||.+|+.|+.+||.. ....+++|++||..||+||..||
T Consensus 1 rR~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 1 RRQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 478899999999999999999999999984 36789999999999999999996
No 4
>KOG3898|consensus
Probab=99.63 E-value=1.8e-16 Score=122.53 Aligned_cols=59 Identities=44% Similarity=0.543 Sum_probs=55.6
Q ss_pred HHHhHHhhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhc
Q psy8078 46 QKYRTAHATRERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNVLE 104 (105)
Q Consensus 46 ~~~R~~an~rER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~L~ 104 (105)
..+|..+|+|||.||++||+||+.||.+||+++.+.|++||+||++|-+||+.|+.++.
T Consensus 70 ~~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~~l 128 (254)
T KOG3898|consen 70 TLRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEVLL 128 (254)
T ss_pred hhhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhccccc
Confidence 34889999999999999999999999999999999999999999999999999998764
No 5
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=99.59 E-value=1.1e-14 Score=88.25 Aligned_cols=58 Identities=60% Similarity=0.836 Sum_probs=53.0
Q ss_pred HHhHHhhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhc
Q psy8078 47 KYRTAHATRERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNVLE 104 (105)
Q Consensus 47 ~~R~~an~rER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~L~ 104 (105)
..|..||..||.|+..||.+|+.|+..||....+.+++|+.||..|++||.+|+..++
T Consensus 3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 3577899999999999999999999999987668999999999999999999998653
No 6
>smart00353 HLH helix loop helix domain.
Probab=99.52 E-value=6.9e-14 Score=83.27 Aligned_cols=53 Identities=60% Similarity=0.815 Sum_probs=48.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhcC
Q psy8078 53 ATRERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNVLET 105 (105)
Q Consensus 53 n~rER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~L~~ 105 (105)
|..||.|+..||.+|+.|+..||....+.+++|+.||..|++||..|+..+++
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~~ 53 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQK 53 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhC
Confidence 57899999999999999999999865689999999999999999999987753
No 7
>KOG4395|consensus
Probab=99.37 E-value=7.5e-13 Score=102.71 Aligned_cols=59 Identities=44% Similarity=0.583 Sum_probs=56.0
Q ss_pred HHHhHHhhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhc
Q psy8078 46 QKYRTAHATRERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNVLE 104 (105)
Q Consensus 46 ~~~R~~an~rER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~L~ 104 (105)
+.+|.++|+|||+||+.||.|||.||.+||....+++|||.+||+.|--||..|..+|.
T Consensus 172 ~~rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~ 230 (285)
T KOG4395|consen 172 SHRRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLD 230 (285)
T ss_pred HhhhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhc
Confidence 45789999999999999999999999999999999999999999999999999998874
No 8
>KOG4447|consensus
Probab=99.32 E-value=9.3e-13 Score=95.85 Aligned_cols=58 Identities=52% Similarity=0.798 Sum_probs=54.1
Q ss_pred HHHhHHhhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhc
Q psy8078 46 QKYRTAHATRERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNVLE 104 (105)
Q Consensus 46 ~~~R~~an~rER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~L~ 104 (105)
+++|.-||.+||+|.+.+|+||..||+.+|++|. .|+|||.||+.|..||.+|..+|.
T Consensus 76 q~qrv~anvrerqRtqsLn~AF~~lr~iiptlPs-dklSkiqtLklA~ryidfl~~vl~ 133 (173)
T KOG4447|consen 76 QKQRVMANVRERQRTQSLNEAFAALRKIIPTLPS-DKLSKIQTLKLAARYIDFLYQVLQ 133 (173)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCCCc-cccccccchhhcccCCchhhhccc
Confidence 4689999999999999999999999999999765 599999999999999999999875
No 9
>KOG0561|consensus
Probab=99.30 E-value=5.8e-12 Score=100.08 Aligned_cols=53 Identities=38% Similarity=0.529 Sum_probs=49.6
Q ss_pred HhHHhhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy8078 48 YRTAHATRERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNN 101 (105)
Q Consensus 48 ~R~~an~rER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~ 101 (105)
+|..||..||+||+.||.+|..||.+||.. .+.||||..||+.+.+||..|..
T Consensus 60 RReIANsNERRRMQSINAGFqsLr~LlPr~-eGEKLSKAAILQQTa~yI~~Le~ 112 (373)
T KOG0561|consen 60 RREIANSNERRRMQSINAGFQSLRALLPRK-EGEKLSKAAILQQTADYIHQLEG 112 (373)
T ss_pred HHHhhcchHHHHHHhhhHHHHHHHHhcCcc-cchhhHHHHHHHHHHHHHHHHHh
Confidence 588899999999999999999999999984 67899999999999999999975
No 10
>KOG3910|consensus
Probab=99.03 E-value=3e-10 Score=95.12 Aligned_cols=60 Identities=35% Similarity=0.463 Sum_probs=55.0
Q ss_pred HHHhHHhhHHHHHHHHHHHHHHHHH-HhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhcC
Q psy8078 46 QKYRTAHATRERVRVEAFNSAFGEL-RKLLPTLPPDKKLSKIEILRLAICYIAYLNNVLET 105 (105)
Q Consensus 46 ~~~R~~an~rER~R~~~in~af~~L-R~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~L~~ 105 (105)
+.+|++.|+|||.|+.+||+||.+| |.|.-++..+|.-+|+-||..|+..|..|++.++|
T Consensus 524 kERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRE 584 (632)
T KOG3910|consen 524 KERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRE 584 (632)
T ss_pred HHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHH
Confidence 4589999999999999999999999 77777788899999999999999999999998864
No 11
>KOG1319|consensus
Probab=98.89 E-value=5.8e-09 Score=78.53 Aligned_cols=55 Identities=36% Similarity=0.573 Sum_probs=48.8
Q ss_pred HHhHHhhHHHHHHHHHHHHHHHHHHhhCCCCC----CCCCCCHHHHHHHHHHHHHHHHH
Q psy8078 47 KYRTAHATRERVRVEAFNSAFGELRKLLPTLP----PDKKLSKIEILRLAICYIAYLNN 101 (105)
Q Consensus 47 ~~R~~an~rER~R~~~in~af~~LR~~vP~~~----~~~klSKi~~Lr~Ai~YI~~L~~ 101 (105)
.+|.+|..-||+|+.-||.+|++|+.+||.-. .+.|+||.-||+.+|+||.+|..
T Consensus 61 rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~ 119 (229)
T KOG1319|consen 61 RRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHK 119 (229)
T ss_pred HHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHH
Confidence 35678999999999999999999999999633 34699999999999999999975
No 12
>KOG1318|consensus
Probab=98.60 E-value=2e-07 Score=76.72 Aligned_cols=57 Identities=35% Similarity=0.431 Sum_probs=50.6
Q ss_pred HhHHhhHHHHHHHHHHHHHHHHHHhhCCCC-CCCCCCCHHHHHHHHHHHHHHHHHhhc
Q psy8078 48 YRTAHATRERVRVEAFNSAFGELRKLLPTL-PPDKKLSKIEILRLAICYIAYLNNVLE 104 (105)
Q Consensus 48 ~R~~an~rER~R~~~in~af~~LR~~vP~~-~~~~klSKi~~Lr~Ai~YI~~L~~~L~ 104 (105)
+|-.||+-||+|+..||..+..|...||.. ..+-+..|-.||..+++||..|++.++
T Consensus 233 Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q 290 (411)
T KOG1318|consen 233 KRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ 290 (411)
T ss_pred HHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence 467799999999999999999999999963 356788899999999999999998764
No 13
>KOG2483|consensus
Probab=98.55 E-value=1.6e-07 Score=72.20 Aligned_cols=58 Identities=22% Similarity=0.315 Sum_probs=50.8
Q ss_pred HHHhHHhhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHhh
Q psy8078 46 QKYRTAHATRERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNVL 103 (105)
Q Consensus 46 ~~~R~~an~rER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~L 103 (105)
...|..||+.|+.|+..|.+||+.|+..||.++..++-.-+.||..|..||..|+...
T Consensus 57 ~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~ 114 (232)
T KOG2483|consen 57 ASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKS 114 (232)
T ss_pred CcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHH
Confidence 4578999999999999999999999999998755544448999999999999998754
No 14
>KOG4304|consensus
Probab=97.62 E-value=5.1e-05 Score=58.95 Aligned_cols=52 Identities=27% Similarity=0.392 Sum_probs=44.6
Q ss_pred HhhHHHHHHHHHHHHHHHHHHhhCCCCC-----CCCCCCHHHHHHHHHHHHHHHHHh
Q psy8078 51 AHATRERVRVEAFNSAFGELRKLLPTLP-----PDKKLSKIEILRLAICYIAYLNNV 102 (105)
Q Consensus 51 ~an~rER~R~~~in~af~~LR~~vP~~~-----~~~klSKi~~Lr~Ai~YI~~L~~~ 102 (105)
.+-..||+|+.-||.|++.||.+||..- .-.||-|.+||.++.+|.+.|+..
T Consensus 35 ~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~ 91 (250)
T KOG4304|consen 35 RKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRS 91 (250)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcc
Confidence 3567899999999999999999999521 237999999999999999999863
No 15
>KOG3561|consensus
Probab=97.56 E-value=0.00014 Score=64.27 Aligned_cols=54 Identities=24% Similarity=0.415 Sum_probs=49.1
Q ss_pred hHHhhHHHHHHHHHHHHHHHHHHhhCCC-CCCCCCCCHHHHHHHHHHHHHHHHHh
Q psy8078 49 RTAHATRERVRVEAFNSAFGELRKLLPT-LPPDKKLSKIEILRLAICYIAYLNNV 102 (105)
Q Consensus 49 R~~an~rER~R~~~in~af~~LR~~vP~-~~~~~klSKi~~Lr~Ai~YI~~L~~~ 102 (105)
|..+|.-|++|+.++|.-+++|-..||+ ..-..|+.|..||+.|+..|+.+..+
T Consensus 21 Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 21 RENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence 7889999999999999999999999997 33579999999999999999988764
No 16
>KOG2588|consensus
Probab=97.55 E-value=6.1e-05 Score=67.22 Aligned_cols=54 Identities=37% Similarity=0.467 Sum_probs=49.8
Q ss_pred HHhHHhhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q psy8078 47 KYRTAHATRERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNV 102 (105)
Q Consensus 47 ~~R~~an~rER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~ 102 (105)
.+|.+||.-|++-+..||+-...|+..||. ...|+.|-++|+.||+||.+|+..
T Consensus 275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g--~~aKl~kSavLr~ai~~i~dl~~~ 328 (953)
T KOG2588|consen 275 EKRTAHNIIEKRYRSSINDKIIELKDLVPG--TEAKLNKSAVLRKAIDYIEDLQGY 328 (953)
T ss_pred cccchhhHHHHHhhcchhHHHHHHHHhcCc--cHhhhhhhhhHHHHHHHHHHhhcc
Confidence 579999999999999999999999999985 457999999999999999999864
No 17
>KOG4447|consensus
Probab=96.88 E-value=0.00051 Score=50.47 Aligned_cols=54 Identities=26% Similarity=0.254 Sum_probs=46.2
Q ss_pred HhHHhhHH-HHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q psy8078 48 YRTAHATR-ERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNV 102 (105)
Q Consensus 48 ~R~~an~r-ER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~ 102 (105)
.+..+|.+ |+.|.+.+|++|.-|++.+|..|. .+.+++.+|+.+.+||.+|.++
T Consensus 21 ~~~~~r~~~e~~R~~~ls~~s~l~g~l~pgspa-~gk~~~ktlr~~~~~~~~~dE~ 75 (173)
T KOG4447|consen 21 EEECDRQRKERGRKRRLSDASTLLGKLEPGSPA-DGKRGKKTLRIGTDSIQSLDEL 75 (173)
T ss_pred hhhhhhhHHHHhHHhhhhhhhhhccccCCCCCC-cccccccccccCCCchhhHHHH
Confidence 45556666 999999999999999999998654 5788999999999999999875
No 18
>PLN03217 transcription factor ATBS1; Provisional
Probab=96.80 E-value=0.0027 Score=42.49 Aligned_cols=43 Identities=28% Similarity=0.419 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHhhCCCCC---CCCCCCHHHHHHHHHHHHHHHHHhh
Q psy8078 61 EAFNSAFGELRKLLPTLP---PDKKLSKIEILRLAICYIAYLNNVL 103 (105)
Q Consensus 61 ~~in~af~~LR~~vP~~~---~~~klSKi~~Lr~Ai~YI~~L~~~L 103 (105)
..||+-...|+.++|... ...+.|-..+|+.+|.||..|+.-+
T Consensus 20 dqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEv 65 (93)
T PLN03217 20 DQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREV 65 (93)
T ss_pred HHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHH
Confidence 569999999999999743 3468888899999999999998654
No 19
>KOG3558|consensus
Probab=93.49 E-value=0.16 Score=44.90 Aligned_cols=44 Identities=43% Similarity=0.639 Sum_probs=37.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhhCCCCCC--CCCCCHHHHHHHHHHHHH
Q psy8078 53 ATRERVRVEAFNSAFGELRKLLPTLPP--DKKLSKIEILRLAICYIA 97 (105)
Q Consensus 53 n~rER~R~~~in~af~~LR~~vP~~~~--~~klSKi~~Lr~Ai~YI~ 97 (105)
-.--|.|+.+=|.-|.+|..+|| +|. ..-|.|+.|+|+||.|.+
T Consensus 51 RdAARsRRsKEn~~FyeLa~~lP-lp~aisshLDkaSimRLtISyLR 96 (768)
T KOG3558|consen 51 RDAARSRRSKENEEFYELAKLLP-LPAAISSHLDKASIMRLTISYLR 96 (768)
T ss_pred hhhhhhhcccchHHHHHHHHhCC-CcchhhhhhhhHHHHHHHHHHHH
Confidence 34468889999999999999999 553 578999999999999976
No 20
>KOG3560|consensus
Probab=89.88 E-value=0.22 Score=43.25 Aligned_cols=36 Identities=39% Similarity=0.783 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhhCCCCCCC--CCCCHHHHHHHHHHHHH
Q psy8078 61 EAFNSAFGELRKLLPTLPPD--KKLSKIEILRLAICYIA 97 (105)
Q Consensus 61 ~~in~af~~LR~~vP~~~~~--~klSKi~~Lr~Ai~YI~ 97 (105)
.-+|.-+|.|..+||. +++ .||.|+.|||+++.|++
T Consensus 38 dRLNaELD~lAsLLPf-pqdiisKLDkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 38 DRLNAELDHLASLLPF-PQDIISKLDKLSVLRLSVSYLR 75 (712)
T ss_pred HHhhhHHHHHHHhcCC-CHHHHhhhhhhhhhhhhHHHHH
Confidence 3489999999999995 554 79999999999999976
No 21
>KOG3559|consensus
Probab=70.53 E-value=4.9 Score=34.22 Aligned_cols=43 Identities=40% Similarity=0.519 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHhhCCCC-CCCCCCCHHHHHHHHHHHHHH
Q psy8078 56 ERVRVEAFNSAFGELRKLLPTL-PPDKKLSKIEILRLAICYIAY 98 (105)
Q Consensus 56 ER~R~~~in~af~~LR~~vP~~-~~~~klSKi~~Lr~Ai~YI~~ 98 (105)
-|.|+++=|.-|..|.+.+|-. .-...+.|..|+|++..||..
T Consensus 9 A~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKm 52 (598)
T KOG3559|consen 9 ARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKM 52 (598)
T ss_pred HHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHH
Confidence 4678888899999999999942 123459999999999999975
No 22
>PF04839 PSRP-3_Ycf65: Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); InterPro: IPR006924 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 small acidic protein is found in 30S ribosomal subunit of cyanobacteria and plant plastids. In plants it has been named plastid-specific ribosomal protein 3 (PSRP-3), and in cyanobacteria it is named Ycf65. Plastid-specific ribosomal proteins may mediate the effects of nuclear factors on plastid translation. The acidic PSRPs are thought to contribute to protein-protein interactions in the 30S subunit, and are not thought to bind RNA [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome, 0009536 plastid; PDB: 2KT9_A.
Probab=58.84 E-value=4.7 Score=24.25 Aligned_cols=38 Identities=26% Similarity=0.356 Sum_probs=26.8
Q ss_pred HHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy8078 64 NSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNN 101 (105)
Q Consensus 64 n~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~ 101 (105)
++|++.|+..+-+-+==....+|.+|-.|.+-|++=|+
T Consensus 10 ~DAWe~lk~eLe~K~WIs~~e~i~lLN~~TeiIN~Wqe 47 (49)
T PF04839_consen 10 EDAWEQLKNELESKPWISEKERIELLNQATEIINYWQE 47 (49)
T ss_dssp S-HHHHHHHHHHHSTTS-HHHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence 47888888887432222466789999999999988664
No 23
>PRK02724 hypothetical protein; Provisional
Probab=56.77 E-value=13 Score=25.55 Aligned_cols=38 Identities=24% Similarity=0.278 Sum_probs=29.7
Q ss_pred HHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q psy8078 64 NSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNN 101 (105)
Q Consensus 64 n~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~ 101 (105)
++|++.|+..+-+-+==....++.+|-.|.+-|++=|+
T Consensus 44 ~DAWe~LK~~LesK~WIs~~~~i~lLN~~TeiIN~WQe 81 (104)
T PRK02724 44 NDAWEQLKTELESKHWITENERVEVLNKATEVINYWQE 81 (104)
T ss_pred ccHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 47999999998553323456789999999999998776
No 24
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=55.30 E-value=76 Score=23.20 Aligned_cols=31 Identities=32% Similarity=0.258 Sum_probs=25.0
Q ss_pred hcHHHhHHhhHHHHHHHHHHHHHHHHHHhhC
Q psy8078 44 ATQKYRTAHATRERVRVEAFNSAFGELRKLL 74 (105)
Q Consensus 44 ~~~~~R~~an~rER~R~~~in~af~~LR~~v 74 (105)
.+.+.|.....|||.|+.---..|.-||.+=
T Consensus 7 pt~kErEnnk~RERrRRAIaakIfaGLR~~G 37 (150)
T PF05687_consen 7 PTWKERENNKRRERRRRAIAAKIFAGLRAHG 37 (150)
T ss_pred ccHhhhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3455666677899999999999999999874
No 25
>CHL00163 ycf65 putative ribosomal protein 3; Validated
Probab=53.19 E-value=17 Score=24.89 Aligned_cols=39 Identities=26% Similarity=0.236 Sum_probs=29.7
Q ss_pred HHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q psy8078 64 NSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNV 102 (105)
Q Consensus 64 n~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~ 102 (105)
++|++.|+..+-+-+==....++.+|-.|.+-|++=|+.
T Consensus 39 ~DAWe~LK~~LesK~WIs~~~~i~lLN~~TeiIN~Wqe~ 77 (99)
T CHL00163 39 TDAWELLKLELESKPWISEDERIEILNKTTEIINYWQEN 77 (99)
T ss_pred ccHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHc
Confidence 478999999885533234566899999999999987763
No 26
>PRK14056 phenylalanine 4-monooxygenase; Provisional
Probab=44.84 E-value=57 Score=28.62 Aligned_cols=87 Identities=21% Similarity=0.237 Sum_probs=51.9
Q ss_pred CCcCCCCCCCCCCCCchhhhhhhccCCCCcccccHHHHhhhhhhcHHHhHHhhHHHH-----HHHHHHHHHHHHHHhhCC
Q psy8078 1 MFLQREKFSETHGASRQNLFRLLDKSDGSTQALSREERRRRRRATQKYRTAHATRER-----VRVEAFNSAFGELRKLLP 75 (105)
Q Consensus 1 ~~~~~e~~s~~~g~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~R~~an~rER-----~R~~~in~af~~LR~~vP 75 (105)
|+.|.+--|--.|..+.+++..+............ .......-..-.....+.||. .....+...|+.|....|
T Consensus 446 mavg~~i~Svf~G~aD~~s~~~~~~~~~~~t~~~~-~~~~~~~l~~lY~~vr~~re~~~~~~~~~~~l~~~~~~~~~~~p 524 (578)
T PRK14056 446 MAVGSTITSVFPGPADAAAFFPMTHGPGEETIKIK-APLELNELERLYQTVRDIREGGILHDATIEQLVAIQEVLKKFHP 524 (578)
T ss_pred hhccccccccCCCccchhhhhhcccCccccccccc-cCcchHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHhcCc
Confidence 67788888888899999988777654222111000 000000111123444566666 567778888999988887
Q ss_pred CCCCCCCCCHHHHHHHH
Q psy8078 76 TLPPDKKLSKIEILRLA 92 (105)
Q Consensus 76 ~~~~~~klSKi~~Lr~A 92 (105)
. .=|-.+|||..+
T Consensus 525 ~----dWLl~~Ei~El~ 537 (578)
T PRK14056 525 K----DWLLRLEILELL 537 (578)
T ss_pred H----hHHHHHHHHHHH
Confidence 5 355666777665
No 27
>KOG1748|consensus
Probab=34.74 E-value=16 Score=26.15 Aligned_cols=23 Identities=39% Similarity=0.473 Sum_probs=20.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHH
Q psy8078 79 PDKKLSKIEILRLAICYIAYLNN 101 (105)
Q Consensus 79 ~~~klSKi~~Lr~Ai~YI~~L~~ 101 (105)
++.+.-|+.+.+.|++||..+.+
T Consensus 106 pd~dAdki~t~~da~~yI~~~~d 128 (131)
T KOG1748|consen 106 PDEDADKIKTVRDAADYIADKPD 128 (131)
T ss_pred CcchhhhhCCHHHHHHHHHhccc
Confidence 57889999999999999998754
No 28
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=29.18 E-value=50 Score=18.35 Aligned_cols=17 Identities=18% Similarity=0.325 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy8078 55 RERVRVEAFNSAFGELR 71 (105)
Q Consensus 55 rER~R~~~in~af~~LR 71 (105)
....++..||.||+.|.
T Consensus 38 ~~~~~~~~l~~Ay~~L~ 54 (55)
T cd06257 38 EAEEKFKEINEAYEVLS 54 (55)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 34567899999999986
No 29
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=28.68 E-value=51 Score=18.75 Aligned_cols=17 Identities=18% Similarity=0.327 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy8078 56 ERVRVEAFNSAFGELRK 72 (105)
Q Consensus 56 ER~R~~~in~af~~LR~ 72 (105)
-..++..||.||+.|..
T Consensus 41 ~~~~~~~l~~Ay~~L~~ 57 (60)
T smart00271 41 AEEKFKEINEAYEVLSD 57 (60)
T ss_pred HHHHHHHHHHHHHHHcC
Confidence 44578899999999975
No 30
>PHA01754 hypothetical protein
Probab=28.48 E-value=86 Score=19.80 Aligned_cols=41 Identities=17% Similarity=0.277 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q psy8078 61 EAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNV 102 (105)
Q Consensus 61 ~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~ 102 (105)
.++--|+++|-..+-+ ..+...-|-+|.+.|.+.|.-+..+
T Consensus 16 AKLylALdDLamaLAT-ee~EeVRkSevfqkA~EViKvvkem 56 (69)
T PHA01754 16 AKLYLALDDLTMALAT-EDKEEVRKSEVFQKALEVVKVVKEM 56 (69)
T ss_pred HHHHHHHHHHHHHHhh-cchHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577788999888865 4556788999999999999888765
No 31
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=27.93 E-value=72 Score=21.60 Aligned_cols=22 Identities=23% Similarity=0.393 Sum_probs=17.8
Q ss_pred CCHH-HHHHHHHHHHHHHHHhhc
Q psy8078 83 LSKI-EILRLAICYIAYLNNVLE 104 (105)
Q Consensus 83 lSKi-~~Lr~Ai~YI~~L~~~L~ 104 (105)
+-|+ .+++.+|+|+-+.++.|.
T Consensus 57 ~~klfrLaQl~ieYLl~~q~~L~ 79 (118)
T PF13815_consen 57 FLKLFRLAQLSIEYLLHCQEYLS 79 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3354 899999999999998774
No 32
>COG3129 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=27.71 E-value=97 Score=24.78 Aligned_cols=13 Identities=31% Similarity=0.462 Sum_probs=11.2
Q ss_pred HHHHHHHHHhhcC
Q psy8078 93 ICYIAYLNNVLET 105 (105)
Q Consensus 93 i~YI~~L~~~L~~ 105 (105)
.+||++|.++|.+
T Consensus 58 AdYih~laDLL~s 70 (292)
T COG3129 58 ADYIHHLADLLAS 70 (292)
T ss_pred hHHHHHHHHHHHh
Confidence 7999999999853
No 33
>PF10465 Inhibitor_I24: PinA peptidase inhibitor ; InterPro: IPR019506 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. PinA inhibits the endopeptidase La. It binds to the La homotetramer but does not interfere with the ATP binding site or the active site of La.
Probab=24.08 E-value=81 Score=22.59 Aligned_cols=17 Identities=29% Similarity=0.573 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHhh
Q psy8078 87 EILRLAICYIAYLNNVL 103 (105)
Q Consensus 87 ~~Lr~Ai~YI~~L~~~L 103 (105)
...+.|.+||..|+..|
T Consensus 123 nLMQAAAeYIewLE~ql 139 (140)
T PF10465_consen 123 NLMQAAAEYIEWLETQL 139 (140)
T ss_pred hHHHHHHHHHHHHHhhc
Confidence 57899999999998766
No 34
>PTZ00037 DnaJ_C chaperone protein; Provisional
Probab=23.79 E-value=1.5e+02 Score=24.68 Aligned_cols=15 Identities=13% Similarity=0.288 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHh
Q psy8078 58 VRVEAFNSAFGELRK 72 (105)
Q Consensus 58 ~R~~~in~af~~LR~ 72 (105)
.+.+.||.||+.|.+
T Consensus 65 e~F~~i~~AYevLsD 79 (421)
T PTZ00037 65 EKFKEISRAYEVLSD 79 (421)
T ss_pred HHHHHHHHHHHHhcc
Confidence 588999999999953
No 35
>PF15459 RRP14: 60S ribosome biogenesis protein Rrp14
Probab=23.35 E-value=88 Score=19.42 Aligned_cols=18 Identities=39% Similarity=0.615 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHhhCCC
Q psy8078 59 RVEAFNSAFGELRKLLPT 76 (105)
Q Consensus 59 R~~~in~af~~LR~~vP~ 76 (105)
|.+.=|.+|+.|=++||.
T Consensus 3 rl~~h~~~Fd~Ll~LIPA 20 (64)
T PF15459_consen 3 RLRAHSSFFDGLLSLIPA 20 (64)
T ss_pred HHHHHHHHHHHHHHhCCh
Confidence 567778999999999995
No 36
>KOG0869|consensus
Probab=21.61 E-value=1.5e+02 Score=21.99 Aligned_cols=49 Identities=18% Similarity=0.199 Sum_probs=33.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy8078 52 HATRERVRVEAFNSAFGELRKLLPTLPPDKKLSKIEILRLAICYIAYLN 100 (105)
Q Consensus 52 an~rER~R~~~in~af~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~ 100 (105)
.+.||..|.-=|.-----.++.||....-.|-+|--+=..+.+||.+..
T Consensus 24 ~~~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT 72 (168)
T KOG0869|consen 24 LSLREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVT 72 (168)
T ss_pred cccchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHh
Confidence 4678888877776666667888886433334444455567888888765
No 37
>KOG1164|consensus
Probab=21.53 E-value=1.9e+02 Score=22.17 Aligned_cols=32 Identities=31% Similarity=0.524 Sum_probs=24.5
Q ss_pred HHHHHhhCCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q psy8078 67 FGELRKLLPTLPPDKKLSKIEILRLAICYIAYLNNV 102 (105)
Q Consensus 67 f~~LR~~vP~~~~~~klSKi~~Lr~Ai~YI~~L~~~ 102 (105)
+.+|+...| ++++|+-.+|+.|++-|..|+.+
T Consensus 107 L~dl~~~~~----~~~fs~~T~l~ia~q~l~~l~~l 138 (322)
T KOG1164|consen 107 LEDLRKRNP----PGRFSRKTVLRIAIQNLNALEDL 138 (322)
T ss_pred HHHHHHhCC----CCCcCHhHHHHHHHHHHHHHHHH
Confidence 344555554 47999999999999998888753
No 38
>PF11590 DNAPolymera_Pol: DNA polymerase catalytic subunit Pol; InterPro: IPR021639 This family of proteins represents the catalytic subunit, Pol, of the Herpes simplex virus DNA polymerase. Pol binds UL42, making up the DNA polymerase. UL42 is a processivity subunit which binds to the C-terminal of Pol in a similar way that the cell cycle regulator p21 binds to PCNA []. ; GO: 0003887 DNA-directed DNA polymerase activity, 0004523 ribonuclease H activity; PDB: 1DML_H.
Probab=20.94 E-value=1.3e+02 Score=17.33 Aligned_cols=11 Identities=27% Similarity=0.371 Sum_probs=9.0
Q ss_pred HHHHHHHHHHH
Q psy8078 60 VEAFNSAFGEL 70 (105)
Q Consensus 60 ~~~in~af~~L 70 (105)
.+.+|.||+.|
T Consensus 30 ~qkL~~AF~iL 40 (41)
T PF11590_consen 30 RQKLRRAFDIL 40 (41)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHhh
Confidence 46689999987
Done!