Query psy9718
Match_columns 70
No_of_seqs 101 out of 407
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 17:49:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9718.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9718hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4304|consensus 99.9 3.1E-25 6.7E-30 160.0 5.3 70 1-70 39-109 (250)
2 PF00010 HLH: Helix-loop-helix 99.5 1.2E-14 2.6E-19 82.3 4.3 48 1-51 8-55 (55)
3 smart00353 HLH helix loop heli 99.5 6.2E-14 1.3E-18 78.2 4.5 49 1-54 3-51 (53)
4 cd00083 HLH Helix-loop-helix d 99.4 1.9E-13 4.2E-18 77.2 4.7 49 1-54 11-59 (60)
5 KOG1318|consensus 99.1 7.5E-11 1.6E-15 90.6 4.1 51 1-55 240-290 (411)
6 KOG3561|consensus 99.0 4.2E-10 9E-15 92.0 4.9 50 1-54 27-76 (803)
7 KOG1319|consensus 98.4 4E-07 8.6E-12 65.3 5.0 53 2-55 70-122 (229)
8 KOG3560|consensus 98.1 2.6E-06 5.6E-11 68.6 2.9 42 3-48 34-75 (712)
9 KOG0561|consensus 97.9 1.8E-05 3.9E-10 60.2 4.4 48 2-55 68-115 (373)
10 KOG2483|consensus 97.4 0.00031 6.7E-09 50.9 4.8 50 1-55 66-115 (232)
11 KOG4029|consensus 97.1 0.00028 6E-09 49.7 1.6 50 2-55 117-166 (228)
12 KOG3960|consensus 97.0 0.0015 3.3E-08 48.5 5.3 47 2-54 126-172 (284)
13 PLN03217 transcription factor 96.8 0.006 1.3E-07 39.0 5.6 50 7-58 20-69 (93)
14 KOG2588|consensus 96.5 0.0019 4.1E-08 54.5 2.8 48 1-55 283-330 (953)
15 KOG3558|consensus 95.3 0.015 3.2E-07 48.2 2.8 42 4-49 56-97 (768)
16 KOG3910|consensus 94.0 0.14 3E-06 41.6 5.3 51 5-59 537-587 (632)
17 KOG3559|consensus 93.7 0.065 1.4E-06 42.8 2.9 44 3-50 10-53 (598)
18 KOG4395|consensus 85.2 1.5 3.3E-05 32.9 4.0 48 2-54 182-229 (285)
19 KOG3898|consensus 72.9 1.6 3.4E-05 31.8 0.7 49 2-55 80-128 (254)
20 PHA02078 hypothetical protein 44.8 57 0.0012 19.0 3.8 31 11-53 22-52 (54)
21 PF06412 TraD: Conjugal transf 37.0 86 0.0019 18.2 4.7 43 3-52 4-46 (65)
22 smart00394 RIIa RIIalpha, Regu 34.1 71 0.0015 16.3 3.9 16 38-53 21-36 (38)
23 PF02344 Myc-LZ: Myc leucine z 31.6 54 0.0012 17.2 2.1 15 3-17 14-28 (32)
24 KOG4571|consensus 28.9 1.8E+02 0.0038 22.2 5.2 23 32-54 265-288 (294)
25 PF15027 DUF4525: Domain of un 28.4 76 0.0017 21.7 2.9 25 32-56 40-64 (138)
26 PF02197 RIIa: Regulatory subu 27.4 1E+02 0.0022 16.1 4.2 17 38-54 21-37 (38)
27 PF04510 DUF577: Family of unk 23.8 88 0.0019 22.0 2.6 33 14-49 2-34 (174)
28 PF07743 HSCB_C: HSCB C-termin 23.7 1.6E+02 0.0034 16.9 5.9 40 6-54 37-76 (78)
29 PRK10613 hypothetical protein; 21.5 2.1E+02 0.0046 17.6 4.3 41 11-51 20-72 (74)
30 KOG4438|consensus 21.3 3.6E+02 0.0077 21.8 5.8 22 34-55 268-289 (446)
31 PF11458 Mistic: Membrane-inte 20.0 2.1E+02 0.0045 18.0 3.5 38 7-44 16-53 (84)
No 1
>KOG4304|consensus
Probab=99.91 E-value=3.1e-25 Score=160.02 Aligned_cols=70 Identities=60% Similarity=0.862 Sum_probs=63.6
Q ss_pred ChhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHHhHhhcC-CChhhhhhcC
Q psy9718 1 MEKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQLALSAA-TDPHVLKSFK 70 (70)
Q Consensus 1 iEkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~~~~~~~-~~~~~~~~~~ 70 (70)
||||||+|||+||++||+||++++++++..++|||||||||+||+||+.|++.+..+... .++.+.++|+
T Consensus 39 ~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~~~~~~~~~~~~d~f~ 109 (250)
T KOG4304|consen 39 LEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQAAAQAAPAALPVDSFR 109 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccccccccccccccchhhh
Confidence 799999999999999999999999998888999999999999999999999988776655 6677777774
No 2
>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=99.53 E-value=1.2e-14 Score=82.32 Aligned_cols=48 Identities=38% Similarity=0.660 Sum_probs=42.3
Q ss_pred ChhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHH
Q psy9718 1 MEKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQ 51 (70)
Q Consensus 1 iEkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq 51 (70)
.|++||++||.+|++|+.+||.+... ...|++|++||+.||+||+.||
T Consensus 8 ~Er~RR~~i~~~~~~L~~llp~~~~~---~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 8 RERRRRDRINDCFDELRELLPSCSAG---SSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHCCSSHHCC---TTSSSSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhccchhcc---ccccCCHHHHHHHHHHHHHHhC
Confidence 48999999999999999999996311 2478999999999999999987
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.48 E-value=6.2e-14 Score=78.15 Aligned_cols=49 Identities=33% Similarity=0.606 Sum_probs=44.0
Q ss_pred ChhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHH
Q psy9718 1 MEKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQ 54 (70)
Q Consensus 1 iEkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~ 54 (70)
.||+||++||.+|..|+.+||.+. ...|++|++||..||+||+.|+.+.
T Consensus 3 ~Er~RR~~~n~~~~~L~~lip~~~-----~~~k~~k~~iL~~ai~yi~~L~~~~ 51 (53)
T smart00353 3 RERRRRRKINEAFDELRSLLPTLP-----NNKKLSKAEILRLAIEYIKSLQEEL 51 (53)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCC-----CCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 489999999999999999999753 1378999999999999999999876
No 4
>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=99.44 E-value=1.9e-13 Score=77.20 Aligned_cols=49 Identities=37% Similarity=0.561 Sum_probs=43.8
Q ss_pred ChhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHH
Q psy9718 1 MEKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQ 54 (70)
Q Consensus 1 iEkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~ 54 (70)
.||+||++||.+|++|+.+||... ...|++|++||+.||+||+.|+.+.
T Consensus 11 ~Er~RR~~~n~~~~~L~~llp~~~-----~~~k~~k~~iL~~a~~yI~~L~~~~ 59 (60)
T cd00083 11 RERRRRERINDAFDELRSLLPTLP-----PSKKLSKAEILRKAVDYIKSLQELL 59 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCC-----CCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 489999999999999999999853 2479999999999999999999864
No 5
>KOG1318|consensus
Probab=99.10 E-value=7.5e-11 Score=90.64 Aligned_cols=51 Identities=29% Similarity=0.438 Sum_probs=46.2
Q ss_pred ChhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHHh
Q psy9718 1 MEKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQL 55 (70)
Q Consensus 1 iEkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~~ 55 (70)
||||||+.||..|.+|..|||.|... ..||+|..||..+++|++.||+...
T Consensus 240 VERRRR~nIN~~IkeLg~liP~~~~~----~~~~nKgtILk~s~dYIr~Lqq~~q 290 (411)
T KOG1318|consen 240 VERRRRENINDRIKELGQLIPKCNSE----DMKSNKGTILKASCDYIRELQQTLQ 290 (411)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCCcc----hhhcccchhhHHHHHHHHHHHHHHH
Confidence 79999999999999999999998543 3799999999999999999997765
No 6
>KOG3561|consensus
Probab=99.00 E-value=4.2e-10 Score=92.01 Aligned_cols=50 Identities=32% Similarity=0.539 Sum_probs=45.6
Q ss_pred ChhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHH
Q psy9718 1 MEKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQ 54 (70)
Q Consensus 1 iEkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~ 54 (70)
+||||||.+|..|++|.+|||.+.. ...|+||-.||++||+|||.++...
T Consensus 27 ~EKrRRdq~N~yI~ELs~Mvp~~~~----~~RK~DK~tVLr~aV~~lr~~k~~~ 76 (803)
T KOG3561|consen 27 IEKRRRDQMNKYIEELSEMVPTNAS----LSRKPDKLTVLRMAVDHLRLIKEQE 76 (803)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcchh----cccCchHHHHHHHHHHHHHHHhhhh
Confidence 6999999999999999999999753 3489999999999999999999875
No 7
>KOG1319|consensus
Probab=98.43 E-value=4e-07 Score=65.29 Aligned_cols=53 Identities=28% Similarity=0.452 Sum_probs=45.7
Q ss_pred hhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHHh
Q psy9718 2 EKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQL 55 (70)
Q Consensus 2 EkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~~ 55 (70)
|++||+-||...+.|+.|||.|..++. ..-|+.||-||..|++||..|.++..
T Consensus 70 EqkRRdAIk~GYddLq~LvP~cq~~ds-~g~KlskA~ILqksidyi~~L~~~k~ 122 (229)
T KOG1319|consen 70 EQKRRDAIKRGYDDLQTLVPTCQQQDS-IGQKLSKAIILQKTIDYIQFLHKEKK 122 (229)
T ss_pred HHHHHHHHHhchHHHHHhccccccccc-hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 788999999999999999999865442 23599999999999999999987764
No 8
>KOG3560|consensus
Probab=98.06 E-value=2.6e-06 Score=68.59 Aligned_cols=42 Identities=36% Similarity=0.476 Sum_probs=38.0
Q ss_pred hHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHH
Q psy9718 3 KRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLE 48 (70)
Q Consensus 3 krRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk 48 (70)
||-|||+|..|+.|.+|||-. .+.++||||.+||.++|.||+
T Consensus 34 KRHRdRLNaELD~lAsLLPfp----qdiisKLDkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 34 KRHRDRLNAELDHLASLLPFP----QDIISKLDKLSVLRLSVSYLR 75 (712)
T ss_pred hhHHHHhhhHHHHHHHhcCCC----HHHHhhhhhhhhhhhhHHHHH
Confidence 789999999999999999963 245799999999999999998
No 9
>KOG0561|consensus
Probab=97.88 E-value=1.8e-05 Score=60.16 Aligned_cols=48 Identities=29% Similarity=0.456 Sum_probs=41.8
Q ss_pred hhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHHh
Q psy9718 2 EKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQL 55 (70)
Q Consensus 2 EkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~~ 55 (70)
||||=.-||..|..|++|||.+ ++ .||.||.||..|-+|+-.|.++..
T Consensus 68 ERRRMQSINAGFqsLr~LlPr~---eG---EKLSKAAILQQTa~yI~~Le~~Kt 115 (373)
T KOG0561|consen 68 ERRRMQSINAGFQSLRALLPRK---EG---EKLSKAAILQQTADYIHQLEGHKT 115 (373)
T ss_pred HHHHHHhhhHHHHHHHHhcCcc---cc---hhhHHHHHHHHHHHHHHHHHhccc
Confidence 6677788999999999999985 22 799999999999999999987664
No 10
>KOG2483|consensus
Probab=97.40 E-value=0.00031 Score=50.89 Aligned_cols=50 Identities=26% Similarity=0.536 Sum_probs=40.8
Q ss_pred ChhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHHh
Q psy9718 1 MEKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQL 55 (70)
Q Consensus 1 iEkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~~ 55 (70)
.||+||+.|-.||+.|+.+||...+ ...-.-+.||..++.|++.|+....
T Consensus 66 LEk~RRahlk~~~~~Lk~~vP~~~~-----~~~~t~lsiL~kA~~~i~~l~~~~~ 115 (232)
T KOG2483|consen 66 LEKRRRAHLKDCFESLKDSVPLLNG-----ETRSTTLSILDKALEHIQSLERKSA 115 (232)
T ss_pred hhHHHHHHHHHHHHHHHHhCCCCCC-----cchhhhhHhhhhHHHHHHHHHhHHH
Confidence 4899999999999999999997521 1222378999999999999987664
No 11
>KOG4029|consensus
Probab=97.07 E-value=0.00028 Score=49.70 Aligned_cols=50 Identities=20% Similarity=0.370 Sum_probs=41.4
Q ss_pred hhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHHh
Q psy9718 2 EKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQL 55 (70)
Q Consensus 2 EkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~~ 55 (70)
||.|=.-+|..+.+|+.+||..... ..|+-|.++|..||+||+.|+.-..
T Consensus 117 ER~Rv~~vN~~f~~Lr~~lP~~~~~----~kklSKveTLr~A~~YI~~L~~lL~ 166 (228)
T KOG4029|consen 117 ERQRVQSVNSAFAELRALLPTEPPQ----SKKLSKVETLRLATSYIRYLTKLLA 166 (228)
T ss_pred hhhcccchhhhhHHHHhcCCCCCCc----ccccCcccchHHHHHHHHHHHHHhc
Confidence 4555567999999999999986321 4899999999999999999987654
No 12
>KOG3960|consensus
Probab=97.03 E-value=0.0015 Score=48.54 Aligned_cols=47 Identities=28% Similarity=0.515 Sum_probs=36.9
Q ss_pred hhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHH
Q psy9718 2 EKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQ 54 (70)
Q Consensus 2 EkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~ 54 (70)
||||=.++|+.|+.||.=--. .| +-+|-|.+||..+|+||..||.-.
T Consensus 126 ERRRLkKVNEAFE~LKRrT~~----NP--NQRLPKVEILRsAI~YIE~Lq~LL 172 (284)
T KOG3960|consen 126 ERRRLKKVNEAFETLKRRTSS----NP--NQRLPKVEILRSAIRYIERLQALL 172 (284)
T ss_pred HHHHHHHHHHHHHHHHhhcCC----Cc--cccccHHHHHHHHHHHHHHHHHHH
Confidence 677779999999999863222 22 367999999999999999888644
No 13
>PLN03217 transcription factor ATBS1; Provisional
Probab=96.75 E-value=0.006 Score=38.99 Aligned_cols=50 Identities=26% Similarity=0.385 Sum_probs=41.3
Q ss_pred HHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHHhHhh
Q psy9718 7 ARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQLALS 58 (70)
Q Consensus 7 ~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~~~~~ 58 (70)
+-||+-+..|+.|+|+....- +..|+.-+.||..|-.|++.|++.+-..+
T Consensus 20 dqi~dLvsKLq~llPe~r~~r--~s~k~saskvLqEtC~YIrsLhrEvDdLS 69 (93)
T PLN03217 20 DQINDLIIKLQQLLPELRDSR--RSDKVSAARVLQDTCNYIRNLHREVDDLS 69 (93)
T ss_pred HHHHHHHHHHHHHChHHHhhh--ccccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 569999999999999974312 24789999999999999999999885443
No 14
>KOG2588|consensus
Probab=96.54 E-value=0.0019 Score=54.48 Aligned_cols=48 Identities=33% Similarity=0.511 Sum_probs=43.6
Q ss_pred ChhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHHh
Q psy9718 1 MEKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQL 55 (70)
Q Consensus 1 iEkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~~ 55 (70)
||||=|--||+.+.+||.+||.. ..|+.|..+|.-+++|++.++....
T Consensus 283 IEKRYRsSINDKI~eLk~lV~g~-------~aKl~kSavLr~ai~~i~dl~~~nq 330 (953)
T KOG2588|consen 283 IEKRYRSSINDKIIELKDLVPGT-------EAKLNKSAVLRKAIDYIEDLQGYNQ 330 (953)
T ss_pred HHHHhhcchhHHHHHHHHhcCcc-------HhhhhhhhhHHHHHHHHHHhhcccc
Confidence 79999999999999999999975 4899999999999999999987653
No 15
>KOG3558|consensus
Probab=95.27 E-value=0.015 Score=48.20 Aligned_cols=42 Identities=33% Similarity=0.408 Sum_probs=35.1
Q ss_pred HHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHH
Q psy9718 4 RRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLEN 49 (70)
Q Consensus 4 rRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~ 49 (70)
=||-+=|.-|.+|..+||-. ....+.||||+|+..||.|||.
T Consensus 56 sRRsKEn~~FyeLa~~lPlp----~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 56 SRRSKENEEFYELAKLLPLP----AAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hhcccchHHHHHHHHhCCCc----chhhhhhhhHHHHHHHHHHHHH
Confidence 37888899999999999942 1235789999999999999985
No 16
>KOG3910|consensus
Probab=94.00 E-value=0.14 Score=41.61 Aligned_cols=51 Identities=22% Similarity=0.263 Sum_probs=40.3
Q ss_pred HHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHHhHhhc
Q psy9718 5 RRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQLALSA 59 (70)
Q Consensus 5 RR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~~~~~~ 59 (70)
|=.-||+.|.+|..|.-.+.+.+.. . .|.=||-++|..|=.|.+|+....+
T Consensus 537 RVRDINeAfKELGRMCqlHlkSeKp-Q---TKLgILhqAVsVIlsLEQQVRERNL 587 (632)
T KOG3910|consen 537 RVRDINEAFKELGRMCQLHLKSEKP-Q---TKLGILHQAVSVILSLEQQVRERNL 587 (632)
T ss_pred ehhhHHHHHHHHHHHHHHhhcccCc-c---hhhhHHHHHHHHHHHHHHHHHHccC
Confidence 3345999999999999887664421 2 5669999999999999999976653
No 17
>KOG3559|consensus
Probab=93.65 E-value=0.065 Score=42.84 Aligned_cols=44 Identities=32% Similarity=0.348 Sum_probs=37.4
Q ss_pred hHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHH
Q psy9718 3 KRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENM 50 (70)
Q Consensus 3 krRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~l 50 (70)
+-||+.=|-.+.+|..++|-+.. ..+.+|||+|..+|-.|||.-
T Consensus 10 ~tRRekEN~EF~eLAklLPLa~A----ItsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 10 RTRREKENYEFYELAKLLPLASA----ITSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred HHHHHhhcchHHHHHhhccchhh----hhhccchhhhhhHHHHHHHHH
Confidence 56999999999999999997532 235699999999999999953
No 18
>KOG4395|consensus
Probab=85.17 E-value=1.5 Score=32.89 Aligned_cols=48 Identities=23% Similarity=0.355 Sum_probs=38.1
Q ss_pred hhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHH
Q psy9718 2 EKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQ 54 (70)
Q Consensus 2 EkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~ 54 (70)
|++|=-.+|..|+.|+..+|+- ....||.|-+-|.|+-.|+-.|-.-.
T Consensus 182 Errrm~gLN~AfD~Lr~v~p~~-----~~d~~LSkyetLqmaq~yi~~l~~~l 229 (285)
T KOG4395|consen 182 ERRRMNGLNSAFDRLRLVVPDG-----DSDKKLSKYETLQMAQGYILALGCLL 229 (285)
T ss_pred HHHHhhhHHHHHHHHHHhcCCC-----CccchhhhhhHHHHHHHHHhhhHHhh
Confidence 5555577899999999999873 23589999999999999998765443
No 19
>KOG3898|consensus
Probab=72.90 E-value=1.6 Score=31.78 Aligned_cols=49 Identities=22% Similarity=0.426 Sum_probs=37.5
Q ss_pred hhHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHHh
Q psy9718 2 EKRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQL 55 (70)
Q Consensus 2 EkrRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~~ 55 (70)
||+|=.-+|+.|+.|+.+||... ...|+-|++.|..+=.|+-.|+.-..
T Consensus 80 ER~RMH~LNdAld~LReviP~~~-----~~~klskIetl~~a~~yi~als~~~l 128 (254)
T KOG3898|consen 80 ERTRMHDLNDALDALREVIPHGL-----HPPKLSKIETLRLAANYIAALSEVLL 128 (254)
T ss_pred hhccccchhHHHHHhHhhccCcC-----CCCCCCcchhHHhhhcchhhhccccc
Confidence 34444567999999999999621 13789999999999999988875443
No 20
>PHA02078 hypothetical protein
Probab=44.84 E-value=57 Score=19.00 Aligned_cols=31 Identities=13% Similarity=0.312 Sum_probs=23.4
Q ss_pred HhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHH
Q psy9718 11 NCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQ 53 (70)
Q Consensus 11 ~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~ 53 (70)
-+|..+-.|+| +|+.-.|-+.++|+|.....
T Consensus 22 ySL~~ienMmP------------~ER~Iylsll~k~lkE~n~~ 52 (54)
T PHA02078 22 YSLHELENMMP------------WEREIYAALLIQYIQEKNKK 52 (54)
T ss_pred CCHHHHHHHhH------------HHHHHHHHHHHHHHHHHHHh
Confidence 35666777777 68888999999999865543
No 21
>PF06412 TraD: Conjugal transfer protein TraD; InterPro: IPR009444 This family consists of a group of TraD conjugal transfer proteins found primarily, though not exclusively, in the alphaproteobacteria [].; GO: 0000746 conjugation
Probab=37.04 E-value=86 Score=18.16 Aligned_cols=43 Identities=26% Similarity=0.359 Sum_probs=32.4
Q ss_pred hHHHHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHH
Q psy9718 3 KRRRARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQR 52 (70)
Q Consensus 3 krRR~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~ 52 (70)
+.|++| ++.+-+|..||-.+- ...+|++.||..-+.....+..
T Consensus 4 ~~Rk~r-tr~~i~lGgLV~kAG------l~~~d~~~LlG~Ll~~~~~~~~ 46 (65)
T PF06412_consen 4 KARKAR-TRRKIQLGGLVIKAG------LDDLDRAELLGALLEAAELLDD 46 (65)
T ss_pred HHHHHH-HHHHHHHHHHHHHhC------CCCCCHHHHHHHHHHHHHhccc
Confidence 346666 788899999998762 4678999999988877655443
No 22
>smart00394 RIIa RIIalpha, Regulatory subunit portion of type II PKA R-subunit. RIIalpha, Regulatory subunit portion of type II PKA R-subunit. Contains dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).
Probab=34.12 E-value=71 Score=16.32 Aligned_cols=16 Identities=19% Similarity=0.534 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHH
Q psy9718 38 DILEMTVKHLENMQRQ 53 (70)
Q Consensus 38 ~ILe~TV~ylk~lq~~ 53 (70)
++++-+.+|...|+.+
T Consensus 21 d~~~f~~~yF~kL~~~ 36 (38)
T smart00394 21 DLVQFAADYFEKLEEQ 36 (38)
T ss_pred cHHHHHHHHHHHHHHc
Confidence 8999999999888764
No 23
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=31.56 E-value=54 Score=17.22 Aligned_cols=15 Identities=33% Similarity=0.747 Sum_probs=10.6
Q ss_pred hHHHHHHHHhHHHHH
Q psy9718 3 KRRRARINNCLNELK 17 (70)
Q Consensus 3 krRR~RIN~~l~~Lk 17 (70)
|+||+-+...|++|+
T Consensus 14 rrr~eqLK~kLeqlr 28 (32)
T PF02344_consen 14 RRRREQLKHKLEQLR 28 (32)
T ss_dssp HHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHh
Confidence 567777777777775
No 24
>KOG4571|consensus
Probab=28.86 E-value=1.8e+02 Score=22.20 Aligned_cols=23 Identities=22% Similarity=0.349 Sum_probs=18.0
Q ss_pred chh-hHHHHHHHHHHHHHHHHHHH
Q psy9718 32 SKL-EKADILEMTVKHLENMQRQQ 54 (70)
Q Consensus 32 ~Kl-eKA~ILe~TV~ylk~lq~~~ 54 (70)
.+| +-|+=||.=|.|||++-...
T Consensus 265 ~~LK~qa~~lerEI~ylKqli~e~ 288 (294)
T KOG4571|consen 265 EELKDQASELEREIRYLKQLILEV 288 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344 88999999999999876543
No 25
>PF15027 DUF4525: Domain of unknown function (DUF4525)
Probab=28.41 E-value=76 Score=21.66 Aligned_cols=25 Identities=12% Similarity=0.259 Sum_probs=19.5
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHhH
Q psy9718 32 SKLEKADILEMTVKHLENMQRQQLA 56 (70)
Q Consensus 32 ~KleKA~ILe~TV~ylk~lq~~~~~ 56 (70)
+=.=+..||+++=+|+|.|-.....
T Consensus 40 s~~LR~QILdLSkrYVKaLAeEn~~ 64 (138)
T PF15027_consen 40 SAELREQILDLSKRYVKALAEENKN 64 (138)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 3445789999999999998765543
No 26
>PF02197 RIIa: Regulatory subunit of type II PKA R-subunit; InterPro: IPR003117 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. In the absence of cAMP, Protein Kinase A (PKA) exists as an equimolar tetramer of regulatory (R) and catalytic (C) subunits []. In addition to its role as an inhibitor of the C subunit, the R subunit anchors the holoenzyme to specific intracellular locations and prevents the C subunit from entering the nucleus. All R subunits have a conserved domain structure consisting of the N-terminal dimerization domain, inhibitory region, cAMP-binding domain A and cAMP-binding domain B. R subunits interact with C subunits primarily through the inhibitory site. The cAMP-binding domains show extensive sequence similarity and bind cAMP cooperatively. Two types of regulatory (R) subunits exist - types I and I - which differ in molecular weight, sequence, autophosphorylation cabaility, cellular location and tissue distribution. Types I and II were further sub-divided into alpha and beta subtypes, based mainly on sequence similarity. This entry represents types I-alpha, I-beta, II-alpha and II-beta regulatory subunits of PKA proteins. These subunits contain the dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).; GO: 0008603 cAMP-dependent protein kinase regulator activity, 0007165 signal transduction; PDB: 2IZY_E 1R2A_A 1L6E_A 2IZX_B 2KYG_A 2EZW_B 3IM4_B 3IM3_A 4F9K_C 2HWN_B ....
Probab=27.40 E-value=1e+02 Score=16.06 Aligned_cols=17 Identities=29% Similarity=0.644 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy9718 38 DILEMTVKHLENMQRQQ 54 (70)
Q Consensus 38 ~ILe~TV~ylk~lq~~~ 54 (70)
||++-+.+|...|.++.
T Consensus 21 Di~~F~a~yF~~L~~~R 37 (38)
T PF02197_consen 21 DILQFAADYFEKLEKQR 37 (38)
T ss_dssp -HHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHhh
Confidence 89999999999888763
No 27
>PF04510 DUF577: Family of unknown function (DUF577); InterPro: IPR007598 This is a family of Arabidopsis thaliana (Mouse-ear cress) proteins. Many of these members contain a repeated region.
Probab=23.84 E-value=88 Score=22.04 Aligned_cols=33 Identities=24% Similarity=0.398 Sum_probs=24.8
Q ss_pred HHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHH
Q psy9718 14 NELKTLILDAMKKDPARHSKLEKADILEMTVKHLEN 49 (70)
Q Consensus 14 ~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~ 49 (70)
.+||.|+-+|...++ .|-.---||..+|.++-.
T Consensus 2 ~eikplLIsCL~~q~---~k~s~~KiL~~iVs~Va~ 34 (174)
T PF04510_consen 2 REIKPLLISCLTMQE---TKESDFKILRRIVSHVAY 34 (174)
T ss_pred cchHHHHHHHHHhhc---ccHhHHHHHHHHHHHHHH
Confidence 478899999987664 344555789999998753
No 28
>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein). HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.
Probab=23.66 E-value=1.6e+02 Score=16.89 Aligned_cols=40 Identities=20% Similarity=0.214 Sum_probs=26.2
Q ss_pred HHHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHHHHHHHHHHHH
Q psy9718 6 RARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTVKHLENMQRQQ 54 (70)
Q Consensus 6 R~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV~ylk~lq~~~ 54 (70)
..+++.+...|...+.. ..++.|..+=.=..|+..++...
T Consensus 37 ~~~~~~~~~~l~~~f~~---------~d~~~A~~~~~kLky~~kl~~~i 76 (78)
T PF07743_consen 37 EERIKELIKELAEAFDA---------KDWEEAKEALRKLKYLQKLLEEI 76 (78)
T ss_dssp HHHHHHHHHHHHHHHHT---------T-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcc---------CcHHHHHHHHHHHHHHHHHHHHh
Confidence 46777777777777732 45777766666667777776543
No 29
>PRK10613 hypothetical protein; Provisional
Probab=21.55 E-value=2.1e+02 Score=17.62 Aligned_cols=41 Identities=34% Similarity=0.491 Sum_probs=25.8
Q ss_pred HhHHHHHHHHHhhhhcC--CcccchhhH----------HHHHHHHHHHHHHHH
Q psy9718 11 NCLNELKTLILDAMKKD--PARHSKLEK----------ADILEMTVKHLENMQ 51 (70)
Q Consensus 11 ~~l~~Lk~Llp~~~~~~--~~~~~KleK----------A~ILe~TV~ylk~lq 51 (70)
.||..|=+++..+.+.- +.-.-|+|| |+|...||+-+|..-
T Consensus 20 ~CLK~llTlmLkamGQADAGkVii~mEr~ia~meD~~QA~vf~nTv~QIK~aY 72 (74)
T PRK10613 20 SCLKAMLTLMLKAMGQADAGRVILKMEKQIAQIEDETQAAVFSNTVKQIKQAY 72 (74)
T ss_pred HHHHHHHHHHHHHhcccccchHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHh
Confidence 47777777777776532 112345665 677778887777543
No 30
>KOG4438|consensus
Probab=21.28 E-value=3.6e+02 Score=21.79 Aligned_cols=22 Identities=36% Similarity=0.510 Sum_probs=18.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHh
Q psy9718 34 LEKADILEMTVKHLENMQRQQL 55 (70)
Q Consensus 34 leKA~ILe~TV~ylk~lq~~~~ 55 (70)
.+|+.||+.+|..++.++....
T Consensus 268 ~~K~~iL~ekv~~~qti~~e~~ 289 (446)
T KOG4438|consen 268 QEKAKILEEKVTNLQTIEKELK 289 (446)
T ss_pred HHHHHHHHhHhHHHHHHHHHHH
Confidence 4899999999999998776553
No 31
>PF11458 Mistic: Membrane-integrating protein Mistic; InterPro: IPR021078 Mistic is an integral membrane protein that folds autonomously into the membrane []. It is conserved in the Bacilli bacteria. The protein forms a helical bundle with a polar lipid-facing surface. Mistic can be used for high-level production of other membrane proteins in their native conformations [].
Probab=20.01 E-value=2.1e+02 Score=17.98 Aligned_cols=38 Identities=21% Similarity=0.324 Sum_probs=23.5
Q ss_pred HHHHHhHHHHHHHHHhhhhcCCcccchhhHHHHHHHHH
Q psy9718 7 ARINNCLNELKTLILDAMKKDPARHSKLEKADILEMTV 44 (70)
Q Consensus 7 ~RIN~~l~~Lk~Llp~~~~~~~~~~~KleKA~ILe~TV 44 (70)
+|||+.|+..=.|--+.-...|...---|-|+++..+.
T Consensus 16 D~mnEGLD~fI~lYNeSe~DepLiql~detael~~~A~ 53 (84)
T PF11458_consen 16 DRMNEGLDTFIQLYNESEKDEPLIQLEDETAELIRQAR 53 (84)
T ss_pred HHHHhhHHHHHHHHcccccccchhhcchhHHHHHHHHH
Confidence 78999999987766554333343223346666666554
Done!