Query psy6235
Match_columns 76
No_of_seqs 116 out of 466
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 21:13:52 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6235.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6235hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3898|consensus 99.3 3.5E-13 7.6E-18 99.9 1.9 43 33-75 68-111 (254)
2 KOG4029|consensus 99.2 2.6E-11 5.7E-16 87.3 4.7 46 30-75 102-149 (228)
3 KOG4447|consensus 99.1 3.4E-10 7.4E-15 81.1 6.4 62 14-75 48-116 (173)
4 KOG0561|consensus 99.0 1.3E-10 2.9E-15 90.4 3.2 47 29-75 52-98 (373)
5 KOG4395|consensus 98.9 8.3E-10 1.8E-14 84.0 3.5 43 32-74 169-212 (285)
6 KOG3960|consensus 98.6 1.3E-07 2.8E-12 72.1 5.7 70 5-74 76-155 (284)
7 PF00010 HLH: Helix-loop-helix 98.5 1.9E-07 4.1E-12 53.9 3.9 38 37-74 1-41 (55)
8 cd00083 HLH Helix-loop-helix d 98.2 3.5E-06 7.7E-11 48.2 4.3 39 36-74 3-42 (60)
9 smart00353 HLH helix loop heli 98.1 2.9E-06 6.2E-11 48.0 3.3 34 42-75 1-35 (53)
10 KOG3910|consensus 97.6 3.5E-05 7.6E-10 63.6 2.5 33 33-65 522-554 (632)
11 KOG4447|consensus 95.4 0.023 4.9E-07 41.1 3.8 40 35-74 19-59 (173)
12 KOG1319|consensus 95.0 0.062 1.4E-06 40.2 5.2 41 35-75 59-105 (229)
13 KOG1318|consensus 91.7 0.87 1.9E-05 36.8 7.0 43 31-73 227-271 (411)
14 KOG2483|consensus 75.5 5 0.00011 30.1 4.0 37 34-70 56-92 (232)
15 KOG3561|consensus 69.0 4.4 9.4E-05 35.4 2.6 44 31-74 14-59 (803)
16 PF15459 RRP14: 60S ribosome b 63.5 8.2 0.00018 23.5 2.4 19 47-65 2-20 (64)
17 KOG4304|consensus 48.9 13 0.00028 28.0 1.9 32 35-66 30-61 (250)
18 cd06257 DnaJ DnaJ domain or J- 46.0 19 0.00041 19.3 1.9 17 44-60 38-54 (55)
19 smart00271 DnaJ DnaJ molecular 44.0 21 0.00046 19.6 1.9 17 45-61 41-57 (60)
20 COG3755 Uncharacterized protei 35.0 12 0.00025 26.0 -0.2 20 51-70 52-71 (127)
21 PF12536 DUF3734: Patatin phos 31.8 1E+02 0.0022 20.0 3.9 29 38-66 6-34 (108)
22 KOG4005|consensus 30.5 90 0.002 24.4 3.9 38 22-59 57-102 (292)
23 PF11408 Helicase_Sgs1: Sgs1 R 29.6 45 0.00096 21.3 1.9 14 49-62 2-15 (80)
24 PF02464 CinA: Competence-dama 29.6 66 0.0014 22.0 2.8 23 41-63 132-154 (154)
25 PF00226 DnaJ: DnaJ domain; I 27.6 67 0.0014 17.9 2.2 16 46-61 41-56 (64)
26 PF05814 DUF843: Baculovirus p 24.3 86 0.0019 20.4 2.5 15 47-61 64-78 (83)
27 PHA03102 Small T antigen; Revi 24.2 61 0.0013 22.7 1.9 20 47-66 44-63 (153)
28 PF05687 DUF822: Plant protein 22.9 1.4E+02 0.0031 21.3 3.6 23 41-63 15-37 (150)
29 PF01267 F-actin_cap_A: F-acti 22.3 55 0.0012 24.6 1.5 19 50-68 237-256 (271)
30 PRK03657 hypothetical protein; 21.4 1E+02 0.0022 21.8 2.6 24 41-64 144-167 (170)
31 PF06401 Alpha-2-MRAP_C: Alpha 20.7 1E+02 0.0023 23.0 2.6 18 46-63 82-99 (214)
32 COG1062 AdhC Zn-dependent alco 20.3 54 0.0012 26.4 1.1 17 45-61 340-356 (366)
No 1
>KOG3898|consensus
Probab=99.34 E-value=3.5e-13 Score=99.93 Aligned_cols=43 Identities=40% Similarity=0.560 Sum_probs=39.7
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCC-CCCCccc
Q psy6235 33 EKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEG-EKLSKTI 75 (76)
Q Consensus 33 ~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~-~KLSKi~ 75 (76)
.++.+|.++|+|||+|||+||+|||.||.+||+.+. .|||||.
T Consensus 68 ~~~~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIe 111 (254)
T KOG3898|consen 68 ALTLRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIE 111 (254)
T ss_pred hhhhhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcch
Confidence 678999999999999999999999999999998774 5999984
No 2
>KOG4029|consensus
Probab=99.18 E-value=2.6e-11 Score=87.34 Aligned_cols=46 Identities=39% Similarity=0.621 Sum_probs=40.7
Q ss_pred ChHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC--CCCCCccc
Q psy6235 30 TDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHE--GEKLSKTI 75 (76)
Q Consensus 30 ~~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p--~~KLSKi~ 75 (76)
.......+|.++|+|||.||++||.||++||.+||+.+ ++|||||.
T Consensus 102 ~~~~~~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKve 149 (228)
T KOG4029|consen 102 KSSQTSAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVE 149 (228)
T ss_pred cccchhhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCccc
Confidence 34456778999999999999999999999999999987 46999985
No 3
>KOG4447|consensus
Probab=99.07 E-value=3.4e-10 Score=81.06 Aligned_cols=62 Identities=37% Similarity=0.468 Sum_probs=50.0
Q ss_pred CCCCCCCCCCCCCC-------CCChHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCccc
Q psy6235 14 ENESPPRGPSHLLT-------PCTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI 75 (76)
Q Consensus 14 e~~~~~~g~s~~~~-------~~~~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi~ 75 (76)
+..+|..|.+.... .....+.+.+|.-+|.|||.|.++||.||..||..||+.|.+|||||+
T Consensus 48 ~pgspa~gk~~~ktlr~~~~~~~~~dE~q~qrv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiq 116 (173)
T KOG4447|consen 48 EPGSPADGKRGKKTLRIGTDSIQSLDELQKQRVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQ 116 (173)
T ss_pred CCCCCCcccccccccccCCCchhhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCCCcccccccc
Confidence 44455555554431 112467788999999999999999999999999999999999999996
No 4
>KOG0561|consensus
Probab=99.04 E-value=1.3e-10 Score=90.42 Aligned_cols=47 Identities=79% Similarity=1.088 Sum_probs=44.2
Q ss_pred CChHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCccc
Q psy6235 29 CTDKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKTI 75 (76)
Q Consensus 29 ~~~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi~ 75 (76)
..+.+++.||.-||..||+||+.||.+|..||.+||...++||||.|
T Consensus 52 ~~D~erRmRReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAA 98 (373)
T KOG0561|consen 52 SLDPERRMRREIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAA 98 (373)
T ss_pred ccCHHHHHHHHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHH
Confidence 35788999999999999999999999999999999999999999975
No 5
>KOG4395|consensus
Probab=98.92 E-value=8.3e-10 Score=83.98 Aligned_cols=43 Identities=42% Similarity=0.633 Sum_probs=38.5
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCC-CCCCcc
Q psy6235 32 KEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEG-EKLSKT 74 (76)
Q Consensus 32 ~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~-~KLSKi 74 (76)
...+.+|.++|+|||+||+.||.|||.||.+||.... +||||-
T Consensus 169 ~v~~~rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSky 212 (285)
T KOG4395|consen 169 SVNSHRRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKY 212 (285)
T ss_pred hHHHhhhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhh
Confidence 3466889999999999999999999999999999875 699984
No 6
>KOG3960|consensus
Probab=98.56 E-value=1.3e-07 Score=72.08 Aligned_cols=70 Identities=23% Similarity=0.347 Sum_probs=53.0
Q ss_pred cccccCCCCCCCCCCCCC-CCCCCCCC---------hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCcc
Q psy6235 5 FFMKSNLGSENESPPRGP-SHLLTPCT---------DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74 (76)
Q Consensus 5 ~~~~~~~g~e~~~~~~g~-s~~~~~~~---------~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi 74 (76)
++-.++...|.+-.+.+- -|+.++|. +.....||.+|..|||+|.+.||.||+.|++.--..|+.+|-|+
T Consensus 76 ~p~~~~~Ede~v~ap~~~shh~~g~cl~wackackrks~svDRRKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKV 155 (284)
T KOG3960|consen 76 HPAPGSDEDEHVRAPSVDSHHQAGQCLLWACKACKRKSTSVDRRKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKV 155 (284)
T ss_pred ccCCCCcccccccCCCCCcccCCcchHHHhhhhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHH
Confidence 344455555666555553 34455552 33457799999999999999999999999999988999999886
No 7
>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=98.49 E-value=1.9e-07 Score=53.86 Aligned_cols=38 Identities=50% Similarity=0.699 Sum_probs=33.9
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHhhCCCC---CCCCCCcc
Q psy6235 37 RREIANSNERRRMQSINAGFQSLRTLLPHH---EGEKLSKT 74 (76)
Q Consensus 37 rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~---p~~KLSKi 74 (76)
+|...|.+||.|...||.+|+.|+.+||.. ...|++|+
T Consensus 1 rR~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~ 41 (55)
T PF00010_consen 1 RRQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKA 41 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHH
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHH
Confidence 578899999999999999999999999996 34588885
No 8
>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=98.18 E-value=3.5e-06 Score=48.23 Aligned_cols=39 Identities=51% Similarity=0.710 Sum_probs=34.6
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC-CCCCCcc
Q psy6235 36 IRREIANSNERRRMQSINAGFQSLRTLLPHHE-GEKLSKT 74 (76)
Q Consensus 36 ~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p-~~KLSKi 74 (76)
.+|...|..||.|...||.+|+.|+.+||... ..|++|+
T Consensus 3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~ 42 (60)
T cd00083 3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKA 42 (60)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHH
Confidence 46778999999999999999999999999987 5688875
No 9
>smart00353 HLH helix loop helix domain.
Probab=98.13 E-value=2.9e-06 Score=47.99 Aligned_cols=34 Identities=50% Similarity=0.730 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhhCCCCC-CCCCCccc
Q psy6235 42 NSNERRRMQSINAGFQSLRTLLPHHE-GEKLSKTI 75 (76)
Q Consensus 42 N~RER~Rm~~lN~AF~~LR~~lP~~p-~~KLSKi~ 75 (76)
|..||.|...+|.+|+.|+.+||... ..|++|+.
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~ 35 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAE 35 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHH
Confidence 67899999999999999999999975 66888753
No 10
>KOG3910|consensus
Probab=97.61 E-value=3.5e-05 Score=63.65 Aligned_cols=33 Identities=30% Similarity=0.471 Sum_probs=29.1
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCC
Q psy6235 33 EKRIRREIANSNERRRMQSINAGFQSLRTLLPH 65 (76)
Q Consensus 33 ~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~ 65 (76)
..+.||.+.|+|||.||+.||.||.+|-+++-.
T Consensus 522 REkERR~aNNARERlRVRDINeAfKELGRMCql 554 (632)
T KOG3910|consen 522 REKERRMANNARERLRVRDINEAFKELGRMCQL 554 (632)
T ss_pred HHHHHHhhhhhhhheehhhHHHHHHHHHHHHHH
Confidence 357799999999999999999999999887654
No 11
>KOG4447|consensus
Probab=95.42 E-value=0.023 Score=41.14 Aligned_cols=40 Identities=18% Similarity=0.165 Sum_probs=31.5
Q ss_pred HHHHHHHhHH-HHHHHHHHHHHHHHHHhhCCCCCCCCCCcc
Q psy6235 35 RIRREIANSN-ERRRMQSINAGFQSLRTLLPHHEGEKLSKT 74 (76)
Q Consensus 35 ~~rR~~aN~R-ER~Rm~~lN~AF~~LR~~lP~~p~~KLSKi 74 (76)
...+.-+|.| ||.|...+|.||+-|+.++|..|..+.+++
T Consensus 19 ~~~~~~~r~~~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ 59 (173)
T KOG4447|consen 19 VSEEECDRQRKERGRKRRLSDASTLLGKLEPGSPADGKRGK 59 (173)
T ss_pred hhhhhhhhhHHHHhHHhhhhhhhhhccccCCCCCCcccccc
Confidence 3345556666 999999999999999999999986655544
No 12
>KOG1319|consensus
Probab=95.00 E-value=0.062 Score=40.19 Aligned_cols=41 Identities=39% Similarity=0.639 Sum_probs=31.4
Q ss_pred HHHHHHH-hHHHHHHHHHHHHHHHHHHhhCCCC-CC----CCCCccc
Q psy6235 35 RIRREIA-NSNERRRMQSINAGFQSLRTLLPHH-EG----EKLSKTI 75 (76)
Q Consensus 35 ~~rR~~a-N~RER~Rm~~lN~AF~~LR~~lP~~-p~----~KLSKi~ 75 (76)
+.+|.++ ..=||.|-.-||.+|+.|..+||.. +. .||||.+
T Consensus 59 k~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ 105 (229)
T KOG1319|consen 59 KDRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAI 105 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHH
Confidence 3444444 4559999999999999999999996 32 3888853
No 13
>KOG1318|consensus
Probab=91.75 E-value=0.87 Score=36.80 Aligned_cols=43 Identities=33% Similarity=0.446 Sum_probs=34.5
Q ss_pred hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC--CCCCCc
Q psy6235 31 DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHE--GEKLSK 73 (76)
Q Consensus 31 ~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p--~~KLSK 73 (76)
....+.+|.--|+=||+|--+||....+|-++||... +.|+.|
T Consensus 227 ~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nK 271 (411)
T KOG1318|consen 227 LERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNK 271 (411)
T ss_pred hHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhccc
Confidence 4455667777899999999999999999999999973 235544
No 14
>KOG2483|consensus
Probab=75.54 E-value=5 Score=30.05 Aligned_cols=37 Identities=30% Similarity=0.432 Sum_probs=32.5
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCCCCC
Q psy6235 34 KRIRREIANSNERRRMQSINAGFQSLRTLLPHHEGEK 70 (76)
Q Consensus 34 ~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p~~K 70 (76)
....|..-|+=|++|-.+|-.-|+.|+..||..++.+
T Consensus 56 ~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~ 92 (232)
T KOG2483|consen 56 AASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGET 92 (232)
T ss_pred CCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcc
Confidence 3457888999999999999999999999999987654
No 15
>KOG3561|consensus
Probab=69.05 E-value=4.4 Score=35.36 Aligned_cols=44 Identities=27% Similarity=0.424 Sum_probs=37.1
Q ss_pred hHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCCC--CCCCCcc
Q psy6235 31 DKEKRIRREIANSNERRRMQSINAGFQSLRTLLPHHE--GEKLSKT 74 (76)
Q Consensus 31 ~~~~~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~p--~~KLSKi 74 (76)
+...+..|..+|.=|++|-.++|.-.++|-.+||... .+|+-|.
T Consensus 14 d~k~r~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~ 59 (803)
T KOG3561|consen 14 DSKDRKKRENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKL 59 (803)
T ss_pred cchhhhccccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHH
Confidence 4445566999999999999999999999999999975 4677765
No 16
>PF15459 RRP14: 60S ribosome biogenesis protein Rrp14
Probab=63.51 E-value=8.2 Score=23.54 Aligned_cols=19 Identities=26% Similarity=0.532 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHhhCCC
Q psy6235 47 RRMQSINAGFQSLRTLLPH 65 (76)
Q Consensus 47 ~Rm~~lN~AF~~LR~~lP~ 65 (76)
.|++.=|.+|+.|-.+||.
T Consensus 2 erl~~h~~~Fd~Ll~LIPA 20 (64)
T PF15459_consen 2 ERLRAHSSFFDGLLSLIPA 20 (64)
T ss_pred cHHHHHHHHHHHHHHhCCh
Confidence 3788889999999999996
No 17
>KOG4304|consensus
Probab=48.93 E-value=13 Score=27.95 Aligned_cols=32 Identities=25% Similarity=0.398 Sum_probs=25.2
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHhhCCCC
Q psy6235 35 RIRREIANSNERRRMQSINAGFQSLRTLLPHH 66 (76)
Q Consensus 35 ~~rR~~aN~RER~Rm~~lN~AF~~LR~~lP~~ 66 (76)
..++...--=|++|-.-||.-+++|+.+||..
T Consensus 30 ~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~ 61 (250)
T KOG4304|consen 30 QYRKVRKPLLEKKRRARINRCLDELKDLIPEA 61 (250)
T ss_pred HHhhhcchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444455668889999999999999999974
No 18
>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=46.04 E-value=19 Score=19.35 Aligned_cols=17 Identities=18% Similarity=0.503 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy6235 44 NERRRMQSINAGFQSLR 60 (76)
Q Consensus 44 RER~Rm~~lN~AF~~LR 60 (76)
....+++.||.||+.|.
T Consensus 38 ~~~~~~~~l~~Ay~~L~ 54 (55)
T cd06257 38 EAEEKFKEINEAYEVLS 54 (55)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 34568999999999885
No 19
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=44.05 E-value=21 Score=19.60 Aligned_cols=17 Identities=18% Similarity=0.485 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy6235 45 ERRRMQSINAGFQSLRT 61 (76)
Q Consensus 45 ER~Rm~~lN~AF~~LR~ 61 (76)
-..++..||.||+.|..
T Consensus 41 ~~~~~~~l~~Ay~~L~~ 57 (60)
T smart00271 41 AEEKFKEINEAYEVLSD 57 (60)
T ss_pred HHHHHHHHHHHHHHHcC
Confidence 44589999999999975
No 20
>COG3755 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.02 E-value=12 Score=25.98 Aligned_cols=20 Identities=20% Similarity=0.333 Sum_probs=17.0
Q ss_pred HHHHHHHHHHhhCCCCCCCC
Q psy6235 51 SINAGFQSLRTLLPHHEGEK 70 (76)
Q Consensus 51 ~lN~AF~~LR~~lP~~p~~K 70 (76)
.||.||..|...++..|..+
T Consensus 52 ~LN~AY~~ll~~l~~~~~~~ 71 (127)
T COG3755 52 ELNKAYKALLKRLQDSPRTK 71 (127)
T ss_pred HHHHHHHHHHHHhccChHHH
Confidence 59999999999998777655
No 21
>PF12536 DUF3734: Patatin phospholipase ; InterPro: IPR021095 This entry represents bacterial proteins of approximately 110 amino acids in length. These proteins are found in association with PF01734 from PFAM. There are two completely conserved residues (F and G) that may be functionally important. The proteins in this family are frequently annotated as patatin family phospholipases however there is little accompanying literature to confirm this.
Probab=31.84 E-value=1e+02 Score=20.00 Aligned_cols=29 Identities=28% Similarity=0.432 Sum_probs=24.8
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHhhCCCC
Q psy6235 38 REIANSNERRRMQSINAGFQSLRTLLPHH 66 (76)
Q Consensus 38 R~~aN~RER~Rm~~lN~AF~~LR~~lP~~ 66 (76)
|...+..-..+++.+-.++..|-..||..
T Consensus 6 Rtr~~td~~~~~~~lr~~i~~Ll~~lP~~ 34 (108)
T PF12536_consen 6 RTRLNTDRFRRIQRLRHAIRELLERLPEE 34 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCHH
Confidence 55667777789999999999999999984
No 22
>KOG4005|consensus
Probab=30.46 E-value=90 Score=24.37 Aligned_cols=38 Identities=24% Similarity=0.346 Sum_probs=21.5
Q ss_pred CCCCCCCCChHHHHHHHH------HHhHHHHH--HHHHHHHHHHHH
Q psy6235 22 PSHLLTPCTDKEKRIRRE------IANSNERR--RMQSINAGFQSL 59 (76)
Q Consensus 22 ~s~~~~~~~~~~~~~rR~------~aN~RER~--Rm~~lN~AF~~L 59 (76)
+......++..++..||. +.|+|.|+ ||..|..-..+|
T Consensus 57 Kr~RL~HLS~EEK~~RrKLKNRVAAQtaRDrKKaRm~eme~~i~dL 102 (292)
T KOG4005|consen 57 KRRRLDHLSWEEKVQRRKLKNRVAAQTARDRKKARMEEMEYEIKDL 102 (292)
T ss_pred HHHhhcccCHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence 333334555555555444 34566655 888887766555
No 23
>PF11408 Helicase_Sgs1: Sgs1 RecQ helicase; InterPro: IPR022758 RecQ helicases unwind DNA in an ATP-dependent manner. Sgs1 has a HRDC (helicase and RNaseD C-terminal) domain which modulates the helicase function via auxiliary contacts to DNA []. The proteins matching this entry are restricted to fungi (Saccharomycetaceae). ; PDB: 1D8B_A.
Probab=29.64 E-value=45 Score=21.32 Aligned_cols=14 Identities=21% Similarity=0.589 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHhh
Q psy6235 49 MQSINAGFQSLRTL 62 (76)
Q Consensus 49 m~~lN~AF~~LR~~ 62 (76)
+..||.||+.|+..
T Consensus 2 ~~~i~~aY~~Lr~~ 15 (80)
T PF11408_consen 2 QRHITSAYEKLREI 15 (80)
T ss_dssp --HHHHHHHHHHHH
T ss_pred cchHHHHHHHHHHH
Confidence 35789999999875
No 24
>PF02464 CinA: Competence-damaged protein; InterPro: IPR008136 CinA is the first gene in the competence-inducible (cin) operon, and is thought to be specifically required at some stage in the process of transformation []. This is a C-terminal region of putative competence-damaged proteins from the cin operon.; PDB: 2A9S_A.
Probab=29.60 E-value=66 Score=22.00 Aligned_cols=23 Identities=26% Similarity=0.434 Sum_probs=16.9
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhC
Q psy6235 41 ANSNERRRMQSINAGFQSLRTLL 63 (76)
Q Consensus 41 aN~RER~Rm~~lN~AF~~LR~~l 63 (76)
...|+..|.+..+.|++.|++.|
T Consensus 132 ~g~R~~ir~~~~~~al~~L~~~L 154 (154)
T PF02464_consen 132 PGDREEIRQRAVNQALDLLRRYL 154 (154)
T ss_dssp -S-HHHHHHHHHHHHHHHHH---
T ss_pred CCCHHHHHHHHHHHHHHHHHhhC
Confidence 44899999999999999999865
No 25
>PF00226 DnaJ: DnaJ domain; InterPro: IPR001623 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Such a structure is shown in the following schematic representation: +------------+-+-------+-----+-----------+--------------------------------+ | N-terminal | | Gly-R | | CXXCXGXG | C-terminal | +------------+-+-------+-----+-----------+--------------------------------+ It is thought that the 'J' domain of DnaJ mediates the interaction with the dnaK protein and consists of four helices, the second of which has a charged surface that includes at least one pair of basic residues that are essential for interaction with the ATPase domain of Hsp70. The J- and CRR-domains are found in many prokaryotic and eukaryotic proteins [], either together or separately. In yeast, J-domains have been classified into 3 groups; the class III proteins are functionally distinct and do not appear to act as molecular chaperones []. ; GO: 0031072 heat shock protein binding; PDB: 2GUZ_C 2L6L_A 1HDJ_A 2EJ7_A 1FPO_C 2CUG_A 2QSA_A 2OCH_A 3BVO_B 3APQ_A ....
Probab=27.59 E-value=67 Score=17.90 Aligned_cols=16 Identities=19% Similarity=0.455 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHh
Q psy6235 46 RRRMQSINAGFQSLRT 61 (76)
Q Consensus 46 R~Rm~~lN~AF~~LR~ 61 (76)
...+..||.||+.|..
T Consensus 41 ~~~~~~i~~Ay~~L~~ 56 (64)
T PF00226_consen 41 EEKFARINEAYEILSD 56 (64)
T ss_dssp HHHHHHHHHHHHHHHS
T ss_pred hHHHHHHHHHHHHhCC
Confidence 3589999999999875
No 26
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=24.29 E-value=86 Score=20.37 Aligned_cols=15 Identities=13% Similarity=0.510 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHh
Q psy6235 47 RRMQSINAGFQSLRT 61 (76)
Q Consensus 47 ~Rm~~lN~AF~~LR~ 61 (76)
+--++||+|||.+-+
T Consensus 64 KKK~~ln~afDAiLN 78 (83)
T PF05814_consen 64 KKKRDLNDAFDAILN 78 (83)
T ss_pred HHHHHHHHHHHHHHh
Confidence 345789999999854
No 27
>PHA03102 Small T antigen; Reviewed
Probab=24.20 E-value=61 Score=22.75 Aligned_cols=20 Identities=15% Similarity=0.371 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHhhCCCC
Q psy6235 47 RRMQSINAGFQSLRTLLPHH 66 (76)
Q Consensus 47 ~Rm~~lN~AF~~LR~~lP~~ 66 (76)
.+|+.||.||+.|.+-+...
T Consensus 44 e~~k~in~Ay~~L~d~~~r~ 63 (153)
T PHA03102 44 EKMKELNTLYKKFRESVKSL 63 (153)
T ss_pred HHHHHHHHHHHHHhhHHHhc
Confidence 49999999999999876543
No 28
>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=22.85 E-value=1.4e+02 Score=21.30 Aligned_cols=23 Identities=30% Similarity=0.274 Sum_probs=18.0
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhC
Q psy6235 41 ANSNERRRMQSINAGFQSLRTLL 63 (76)
Q Consensus 41 aN~RER~Rm~~lN~AF~~LR~~l 63 (76)
...|||+|-.---.-|..||.+=
T Consensus 15 nk~RERrRRAIaakIfaGLR~~G 37 (150)
T PF05687_consen 15 NKRRERRRRAIAAKIFAGLRAHG 37 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 33588888887788899999863
No 29
>PF01267 F-actin_cap_A: F-actin capping protein alpha subunit; InterPro: IPR002189 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. The actin filament system, a prominent part of the cytoskeleton in eukaryotic cells, is both a static structure and a dynamic network that can undergo rearrangements: it is thought to be involved in processes such as cell movement and phagocytosis [], as well as muscle contraction. The F-actin capping protein binds in a calcium-independent manner to the fast growing ends of actin filaments (barbed end) thereby blocking the exchange of subunits at these ends. Unlike gelsolin and severin this protein does not sever actin filaments. The F-actin capping protein is a heterodimer composed of two unrelated subunits: alpha and beta (see IPR001698 from INTERPRO). Neither of the subunits shows sequence similarity to other filament-capping proteins []. The alpha subunit is a protein of about 268 to 286 amino acid residues whose sequence is well conserved in eukaryotic species [].; GO: 0003779 actin binding, 0030036 actin cytoskeleton organization, 0008290 F-actin capping protein complex; PDB: 1MQ1_D 1MWN_X 2KBM_Y 2KZ7_A 3AAE_C 3AA6_A 3LK4_G 1IZN_A 3AA7_A 3AAA_A ....
Probab=22.31 E-value=55 Score=24.63 Aligned_cols=19 Identities=26% Similarity=0.541 Sum_probs=12.3
Q ss_pred HHHHH-HHHHHHhhCCCCCC
Q psy6235 50 QSINA-GFQSLRTLLPHHEG 68 (76)
Q Consensus 50 ~~lN~-AF~~LR~~lP~~p~ 68 (76)
.+||. +|..||+.||....
T Consensus 237 ~~ls~~tFK~LRR~LPVTRs 256 (271)
T PF01267_consen 237 NNLSEKTFKALRRQLPVTRS 256 (271)
T ss_dssp HHHHHTHHHHHS-SS-TTTS
T ss_pred HHhhHHHHHHhhhhCCCCCC
Confidence 34555 78999999998653
No 30
>PRK03657 hypothetical protein; Validated
Probab=21.36 E-value=1e+02 Score=21.84 Aligned_cols=24 Identities=21% Similarity=0.192 Sum_probs=20.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhCC
Q psy6235 41 ANSNERRRMQSINAGFQSLRTLLP 64 (76)
Q Consensus 41 aN~RER~Rm~~lN~AF~~LR~~lP 64 (76)
...|+..|.+.++.|++.|++.|-
T Consensus 144 ~g~R~~ir~~a~~~al~~L~~~l~ 167 (170)
T PRK03657 144 AGDCETVLAKAVRFALAQLLQLLL 167 (170)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHH
Confidence 457999999999999999988763
No 31
>PF06401 Alpha-2-MRAP_C: Alpha-2-macroglobulin RAP, C-terminal domain ; InterPro: IPR010483 The alpha-2-macroglobulin receptor-associated protein (RAP) is a intracellular glycoprotein that binds to the 2-macroglobulin receptor and other members of the low density lipoprotein receptor family. The protein inhibits binding of all currently known ligands of these receptors []. Two different studies have provided conflicting domain boundaries.; GO: 0008201 heparin binding, 0050750 low-density lipoprotein particle receptor binding, 0005783 endoplasmic reticulum; PDB: 2FCW_A 2P03_A 2FTU_A 2P01_A.
Probab=20.71 E-value=1e+02 Score=22.97 Aligned_cols=18 Identities=28% Similarity=0.636 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHhhC
Q psy6235 46 RRRMQSINAGFQSLRTLL 63 (76)
Q Consensus 46 R~Rm~~lN~AF~~LR~~l 63 (76)
|..++.||..|+.|+.++
T Consensus 82 k~k~r~i~~~~drL~r~~ 99 (214)
T PF06401_consen 82 KEKHREINDGYDRLRRVS 99 (214)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 567889999999999765
No 32
>COG1062 AdhC Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]
Probab=20.28 E-value=54 Score=26.45 Aligned_cols=17 Identities=18% Similarity=0.380 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy6235 45 ERRRMQSINAGFQSLRT 61 (76)
Q Consensus 45 ER~Rm~~lN~AF~~LR~ 61 (76)
++....+||.||+.|.+
T Consensus 340 ~~~~Le~INeaf~~m~~ 356 (366)
T COG1062 340 HTIPLEDINEAFDLMHE 356 (366)
T ss_pred ccccHHHHHHHHHHHhC
Confidence 34578899999999864
Done!