Query psy11625
Match_columns 314
No_of_seqs 188 out of 536
Neff 4.2
Searched_HMMs 46136
Date Fri Aug 16 23:26:52 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11625.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11625hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4304|consensus 100.0 3.5E-33 7.5E-38 260.1 8.4 108 206-313 25-133 (250)
2 PF00010 HLH: Helix-loop-helix 99.4 3.8E-13 8.1E-18 97.5 4.0 55 213-270 1-55 (55)
3 cd00083 HLH Helix-loop-helix d 99.3 5.4E-12 1.2E-16 91.4 4.9 56 212-272 3-58 (60)
4 smart00353 HLH helix loop heli 99.1 5.1E-11 1.1E-15 85.0 4.5 49 219-272 2-50 (53)
5 KOG1318|consensus 98.9 1.4E-09 3E-14 108.3 4.4 60 210-273 230-289 (411)
6 KOG3561|consensus 98.6 2.4E-08 5.1E-13 106.4 4.8 56 213-272 20-75 (803)
7 KOG1319|consensus 98.5 3.8E-07 8.3E-12 83.3 8.4 69 204-273 53-121 (229)
8 PF07527 Hairy_orange: Hairy O 98.5 4.3E-08 9.3E-13 68.9 0.9 28 286-313 1-28 (43)
9 smart00511 ORANGE Orange domai 98.4 1E-07 2.2E-12 67.4 1.7 28 286-313 1-28 (45)
10 KOG3560|consensus 97.4 6.3E-05 1.4E-09 77.8 1.3 47 218-268 30-76 (712)
11 KOG0561|consensus 97.1 0.00061 1.3E-08 66.5 5.0 49 219-273 66-114 (373)
12 KOG2483|consensus 96.8 0.0014 3.1E-08 61.6 4.4 54 214-272 60-113 (232)
13 KOG3960|consensus 96.7 0.0028 6E-08 60.6 5.7 55 211-271 116-170 (284)
14 KOG2588|consensus 96.6 0.0011 2.3E-08 72.3 2.7 54 212-272 275-328 (953)
15 PF07527 Hairy_orange: Hairy O 96.5 0.0015 3.3E-08 45.8 1.7 20 3-22 24-43 (43)
16 smart00511 ORANGE Orange domai 95.7 0.0072 1.6E-07 42.6 2.2 21 3-23 24-44 (45)
17 KOG4029|consensus 95.5 0.0082 1.8E-07 55.3 2.2 52 217-272 113-164 (228)
18 KOG3910|consensus 94.5 0.094 2E-06 54.5 6.8 65 206-274 519-583 (632)
19 KOG4304|consensus 93.9 0.22 4.8E-06 47.4 7.6 25 3-27 129-153 (250)
20 PLN03217 transcription factor 93.5 0.16 3.4E-06 41.7 5.0 47 225-273 19-65 (93)
21 KOG3558|consensus 93.2 0.076 1.7E-06 56.9 3.5 57 208-268 41-97 (768)
22 KOG3559|consensus 84.4 0.88 1.9E-05 46.8 3.2 46 220-269 8-53 (598)
23 KOG4395|consensus 81.4 2.2 4.8E-05 41.3 4.5 57 210-271 171-227 (285)
24 PF13490 zf-HC2: Putative zinc 63.1 4.9 0.00011 26.5 1.5 18 2-19 15-32 (36)
25 PF12644 DUF3782: Protein of u 60.5 56 0.0012 24.0 7.0 15 285-299 48-62 (64)
26 KOG3898|consensus 39.9 13 0.00029 35.4 0.9 58 210-272 69-126 (254)
27 PF04806 EspF: EspF protein re 39.6 17 0.00037 26.6 1.2 13 5-17 33-45 (47)
28 KOG1151|consensus 38.0 40 0.00087 35.9 4.1 60 223-293 272-331 (775)
29 PF06412 TraD: Conjugal transf 31.0 1.4E+02 0.003 22.8 5.1 42 222-270 4-45 (65)
30 KOG4571|consensus 30.9 4.1E+02 0.009 26.4 9.5 44 221-272 244-287 (294)
31 TIGR02949 anti_SigH_actin anti 26.1 51 0.0011 26.1 2.0 19 2-20 23-41 (84)
32 KOG4447|consensus 23.5 29 0.00064 31.6 0.3 53 213-271 78-130 (173)
33 PF02197 RIIa: Regulatory subu 22.3 2.2E+02 0.0048 19.5 4.4 18 256-273 20-37 (38)
34 PF08209 Sgf11: Sgf11 (transcr 20.5 54 0.0012 22.4 1.0 12 9-20 17-28 (33)
35 PF03362 Herpes_UL47: Herpesvi 20.1 51 0.0011 34.3 1.2 23 6-29 324-346 (452)
No 1
>KOG4304|consensus
Probab=99.98 E-value=3.5e-33 Score=260.11 Aligned_cols=108 Identities=49% Similarity=0.772 Sum_probs=97.5
Q ss_pred hhHHHHHhhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHhhhhhccc-CChhH
Q psy11625 206 NTVLIWIFQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQQLSVAVA-SDPTV 284 (314)
Q Consensus 206 ~~~~~~~RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~qq~~~~~~-~~~~~ 284 (314)
.....++||++|++||||||||||+||++||.||+++++++..++.||||||||||||+|||+|++.+...... .+...
T Consensus 25 ~~~~~~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~~~~~~~~~~~ 104 (250)
T KOG4304|consen 25 SSKTRQYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQAAAQAAPAALP 104 (250)
T ss_pred chhhHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccccccccccccc
Confidence 44667899999999999999999999999999999999999888999999999999999999999887654433 45677
Q ss_pred HhhHHHHHHHHHHHHhhccccCCCCCCCC
Q psy11625 285 LQKFKSGFGDCAVEINRYISRLDGLDTEV 313 (314)
Q Consensus 285 ~~~f~~Gf~~C~~EV~rFLs~~eg~d~~v 313 (314)
++.|++||++|+.||.+||+.+||+|.++
T Consensus 105 ~d~f~~Gf~ec~~EVsr~ls~~~~~~~~~ 133 (250)
T KOG4304|consen 105 VDSFRAGFRECAAEVSRYLSICPGMDAAK 133 (250)
T ss_pred chhhhccHHHHHHHHHHHHhhCCCCChHH
Confidence 89999999999999999999999999754
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=99.38 E-value=3.8e-13 Score=97.53 Aligned_cols=55 Identities=33% Similarity=0.558 Sum_probs=48.7
Q ss_pred hhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHH
Q psy11625 213 FQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQ 270 (314)
Q Consensus 213 RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq 270 (314)
||..|...||+||++||.+|++|+.|||.+.. ....|++|++||+.||+||+.||
T Consensus 1 rR~~h~~~Er~RR~~i~~~~~~L~~llp~~~~---~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 1 RRQKHNERERRRRDRINDCFDELRELLPSCSA---GSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCCSSHHC---CTTSSSSHHHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHhccchhc---cccccCCHHHHHHHHHHHHHHhC
Confidence 57789999999999999999999999998531 12578999999999999999986
No 3
>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=99.27 E-value=5.4e-12 Score=91.43 Aligned_cols=56 Identities=34% Similarity=0.494 Sum_probs=50.0
Q ss_pred HhhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHh
Q psy11625 212 IFQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQ 272 (314)
Q Consensus 212 ~RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~q 272 (314)
.+|..|.+.||+||++||.+|++|+.|||... ...|++|++||++||+||+.|+.+
T Consensus 3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~-----~~~k~~k~~iL~~a~~yI~~L~~~ 58 (60)
T cd00083 3 SRREAHNLRERRRRERINDAFDELRSLLPTLP-----PSKKLSKAEILRKAVDYIKSLQEL 58 (60)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCC-----CCCCCCHHHHHHHHHHHHHHHHHH
Confidence 46788999999999999999999999999742 257999999999999999999865
No 4
>smart00353 HLH helix loop helix domain.
Probab=99.14 E-value=5.1e-11 Score=84.97 Aligned_cols=49 Identities=35% Similarity=0.611 Sum_probs=44.0
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHh
Q psy11625 219 IMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQ 272 (314)
Q Consensus 219 liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~q 272 (314)
+.||+||++||++|++|+.|||.+. ...|++|++||++||+||+.|+.+
T Consensus 2 ~~Er~RR~~~n~~~~~L~~lip~~~-----~~~k~~k~~iL~~ai~yi~~L~~~ 50 (53)
T smart00353 2 ARERRRRRKINEAFDELRSLLPTLP-----NNKKLSKAEILRLAIEYIKSLQEE 50 (53)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCC-----CCCCCCHHHHHHHHHHHHHHHHHH
Confidence 5899999999999999999999642 257999999999999999999875
No 5
>KOG1318|consensus
Probab=98.87 E-value=1.4e-09 Score=108.35 Aligned_cols=60 Identities=27% Similarity=0.340 Sum_probs=53.0
Q ss_pred HHHhhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHhh
Q psy11625 210 IWIFQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQQ 273 (314)
Q Consensus 210 ~~~RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~qq 273 (314)
...||..|.+||||||+.||+.|.+|+.|||.|... ..|++|..||..+++|++.||+.+
T Consensus 230 dr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~----~~~~nKgtILk~s~dYIr~Lqq~~ 289 (411)
T KOG1318|consen 230 DRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSE----DMKSNKGTILKASCDYIRELQQTL 289 (411)
T ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcc----hhhcccchhhHHHHHHHHHHHHHH
Confidence 345778999999999999999999999999987443 479999999999999999998654
No 6
>KOG3561|consensus
Probab=98.64 E-value=2.4e-08 Score=106.38 Aligned_cols=56 Identities=30% Similarity=0.496 Sum_probs=50.4
Q ss_pred hhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHh
Q psy11625 213 FQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQ 272 (314)
Q Consensus 213 RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~q 272 (314)
.+.+|..+||||||.+|..|+||..||+.+.. ...|+||..||+|||+|||.++..
T Consensus 20 ~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~----~~RK~DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 20 KRENRSEIEKRRRDQMNKYIEELSEMVPTNAS----LSRKPDKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred ccccchhHHHHHHHHHHHHHHHHHHhhhcchh----cccCchHHHHHHHHHHHHHHHhhh
Confidence 36789999999999999999999999998754 358999999999999999998765
No 7
>KOG1319|consensus
Probab=98.51 E-value=3.8e-07 Score=83.33 Aligned_cols=69 Identities=23% Similarity=0.296 Sum_probs=57.9
Q ss_pred hhhhHHHHHhhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHhh
Q psy11625 204 ALNTVLIWIFQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQQ 273 (314)
Q Consensus 204 ~~~~~~~~~RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~qq 273 (314)
+.+.--++.||..|...|++|||-||+..+.|+.|||.|...+. ..-|+.||-||..+++||..|.++.
T Consensus 53 a~k~syk~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds-~g~KlskA~ILqksidyi~~L~~~k 121 (229)
T KOG1319|consen 53 AYKESYKDRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDS-IGQKLSKAIILQKTIDYIQFLHKEK 121 (229)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccc-hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444556788899999999999999999999999999866553 2459999999999999999997653
No 8
>PF07527 Hairy_orange: Hairy Orange; InterPro: IPR003650 This domain confers specificity among members of the Hairy/E(SPL) family. HES-2 (hairy and enhancer of split 2) is a transcription factor, and the hairy protein is a pair-rule protein that regulates embryonic segmentation and adult bristle patterning. These proteins are transcriptional repressors of genes that require the BHLH protein for their transcription.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DB7_A.
Probab=98.47 E-value=4.3e-08 Score=68.91 Aligned_cols=28 Identities=36% Similarity=0.954 Sum_probs=22.6
Q ss_pred hhHHHHHHHHHHHHhhccccCCCCCCCC
Q psy11625 286 QKFKSGFGDCAVEINRYISRLDGLDTEV 313 (314)
Q Consensus 286 ~~f~~Gf~~C~~EV~rFLs~~eg~d~~v 313 (314)
++|++||++|+.||.+||+.++|+|+++
T Consensus 1 ~~y~~Gy~~C~~Ev~~fL~~~~~~~~~~ 28 (43)
T PF07527_consen 1 QKYRAGYSECLNEVSRFLSSVEGVDPGV 28 (43)
T ss_dssp -HHHHHHHHHHHHHHHHHHHTS---THH
T ss_pred CcHHHHHHHHHHHHHHHHhcCCCCChHH
Confidence 4799999999999999999999998765
No 9
>smart00511 ORANGE Orange domain. This domain confers specificity among members of the Hairy/E(SPL) family.
Probab=98.41 E-value=1e-07 Score=67.35 Aligned_cols=28 Identities=43% Similarity=0.960 Sum_probs=25.7
Q ss_pred hhHHHHHHHHHHHHhhccccCCCCCCCC
Q psy11625 286 QKFKSGFGDCAVEINRYISRLDGLDTEV 313 (314)
Q Consensus 286 ~~f~~Gf~~C~~EV~rFLs~~eg~d~~v 313 (314)
++|++||++|+.||.+||+.++|+|+++
T Consensus 1 ~~y~~Gy~~C~~Ev~~fLs~~~~~~~~~ 28 (45)
T smart00511 1 SSFRSGYRECANEVSRFLSQLPGTDPDV 28 (45)
T ss_pred ChHHHHHHHHHHHHHHHHhcCCCCChHH
Confidence 3799999999999999999999999764
No 10
>KOG3560|consensus
Probab=97.37 E-value=6.3e-05 Score=77.84 Aligned_cols=47 Identities=34% Similarity=0.395 Sum_probs=40.2
Q ss_pred chHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHH
Q psy11625 218 PIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQN 268 (314)
Q Consensus 218 ~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~ 268 (314)
.-=-||-|||+|..|+-|.+|||.. ..-.+||||.+||.+.|.|||.
T Consensus 30 SNPSKRHRdRLNaELD~lAsLLPfp----qdiisKLDkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 30 SNPSKRHRDRLNAELDHLASLLPFP----QDIISKLDKLSVLRLSVSYLRV 76 (712)
T ss_pred CCcchhHHHHhhhHHHHHHHhcCCC----HHHHhhhhhhhhhhhhHHHHHH
Confidence 3345899999999999999999963 2347999999999999999985
No 11
>KOG0561|consensus
Probab=97.11 E-value=0.00061 Score=66.50 Aligned_cols=49 Identities=29% Similarity=0.436 Sum_probs=42.9
Q ss_pred hHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHhh
Q psy11625 219 IMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQQ 273 (314)
Q Consensus 219 liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~qq 273 (314)
--||||=.-||..+..||.|||.. + ..||.||.||+.|.+||..|..++
T Consensus 66 sNERRRMQSINAGFqsLr~LlPr~---e---GEKLSKAAILQQTa~yI~~Le~~K 114 (373)
T KOG0561|consen 66 SNERRRMQSINAGFQSLRALLPRK---E---GEKLSKAAILQQTADYIHQLEGHK 114 (373)
T ss_pred chHHHHHHhhhHHHHHHHHhcCcc---c---chhhHHHHHHHHHHHHHHHHHhcc
Confidence 358999999999999999999963 2 479999999999999999997654
No 12
>KOG2483|consensus
Probab=96.80 E-value=0.0014 Score=61.60 Aligned_cols=54 Identities=26% Similarity=0.530 Sum_probs=43.5
Q ss_pred hhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHh
Q psy11625 214 QSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQ 272 (314)
Q Consensus 214 K~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~q 272 (314)
+..|..+||+|||.|-+|++.||.+||..-. ..+-.-+.||..++.|++.|+..
T Consensus 60 R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~-----~~~~t~lsiL~kA~~~i~~l~~~ 113 (232)
T KOG2483|consen 60 RAHHNALEKRRRAHLKDCFESLKDSVPLLNG-----ETRSTTLSILDKALEHIQSLERK 113 (232)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHhCCCCCC-----cchhhhhHhhhhHHHHHHHHHhH
Confidence 3568889999999999999999999996311 12223799999999999999754
No 13
>KOG3960|consensus
Probab=96.72 E-value=0.0028 Score=60.58 Aligned_cols=55 Identities=22% Similarity=0.393 Sum_probs=44.5
Q ss_pred HHhhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHH
Q psy11625 211 WIFQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQR 271 (314)
Q Consensus 211 ~~RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~ 271 (314)
-+||..-.|-||||=.++|+.++.||+=-- ..+ +-+|-|.|||.-+|+||..||+
T Consensus 116 vDRRKAATMRERRRLkKVNEAFE~LKRrT~----~NP--NQRLPKVEILRsAI~YIE~Lq~ 170 (284)
T KOG3960|consen 116 VDRRKAATMRERRRLKKVNEAFETLKRRTS----SNP--NQRLPKVEILRSAIRYIERLQA 170 (284)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhhcC----CCc--cccccHHHHHHHHHHHHHHHHH
Confidence 456666788899999999999999987422 222 4689999999999999999874
No 14
>KOG2588|consensus
Probab=96.65 E-value=0.0011 Score=72.31 Aligned_cols=54 Identities=30% Similarity=0.442 Sum_probs=49.6
Q ss_pred HhhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHh
Q psy11625 212 IFQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQ 272 (314)
Q Consensus 212 ~RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~q 272 (314)
-||..|.+||||=|--||+++.|||.+|+.. ..|+.|..+|..+++|++.++..
T Consensus 275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~-------~aKl~kSavLr~ai~~i~dl~~~ 328 (953)
T KOG2588|consen 275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGT-------EAKLNKSAVLRKAIDYIEDLQGY 328 (953)
T ss_pred cccchhhHHHHHhhcchhHHHHHHHHhcCcc-------HhhhhhhhhHHHHHHHHHHhhcc
Confidence 6889999999999999999999999999953 57999999999999999999754
No 15
>PF07527 Hairy_orange: Hairy Orange; InterPro: IPR003650 This domain confers specificity among members of the Hairy/E(SPL) family. HES-2 (hairy and enhancer of split 2) is a transcription factor, and the hairy protein is a pair-rule protein that regulates embryonic segmentation and adult bristle patterning. These proteins are transcriptional repressors of genes that require the BHLH protein for their transcription.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DB7_A.
Probab=96.46 E-value=0.0015 Score=45.83 Aligned_cols=20 Identities=45% Similarity=0.921 Sum_probs=16.2
Q ss_pred cchHHHHHHHHHHHhhhccc
Q psy11625 3 WNKGVKSRLLNHLNSCVSGL 22 (314)
Q Consensus 3 ~n~~VR~RLL~HLasC~~~i 22 (314)
+|+++++|||+||++|+++|
T Consensus 24 ~~~~~~~rLl~HL~~~~~~~ 43 (43)
T PF07527_consen 24 VDPGVRARLLSHLQSCLNQI 43 (43)
T ss_dssp --THHHHHHHHHHHHHHHH-
T ss_pred CChHHHHHHHHHHHHHhcCC
Confidence 57899999999999999864
No 16
>smart00511 ORANGE Orange domain. This domain confers specificity among members of the Hairy/E(SPL) family.
Probab=95.75 E-value=0.0072 Score=42.61 Aligned_cols=21 Identities=33% Similarity=0.540 Sum_probs=18.8
Q ss_pred cchHHHHHHHHHHHhhhcccc
Q psy11625 3 WNKGVKSRLLNHLNSCVSGLQ 23 (314)
Q Consensus 3 ~n~~VR~RLL~HLasC~~~i~ 23 (314)
+|+++|.|||+||++|++++.
T Consensus 24 ~~~~~~~~Ll~HL~~~~~~~~ 44 (45)
T smart00511 24 TDPDVRARLLSHLQTHLNQLL 44 (45)
T ss_pred CChHHHHHHHHHHHHHHHhhc
Confidence 588999999999999999763
No 17
>KOG4029|consensus
Probab=95.46 E-value=0.0082 Score=55.28 Aligned_cols=52 Identities=19% Similarity=0.370 Sum_probs=43.5
Q ss_pred cchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHh
Q psy11625 217 KPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQ 272 (314)
Q Consensus 217 k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~q 272 (314)
....||.|=.-+|..+.+|+.+||.... ...|+-|.|+|..||+||+.|+.-
T Consensus 113 ~n~RER~Rv~~vN~~f~~Lr~~lP~~~~----~~kklSKveTLr~A~~YI~~L~~l 164 (228)
T KOG4029|consen 113 RNARERQRVQSVNSAFAELRALLPTEPP----QSKKLSKVETLRLATSYIRYLTKL 164 (228)
T ss_pred hhhhhhhcccchhhhhHHHHhcCCCCCC----cccccCcccchHHHHHHHHHHHHH
Confidence 3344999989999999999999997422 157999999999999999999753
No 18
>KOG3910|consensus
Probab=94.50 E-value=0.094 Score=54.52 Aligned_cols=65 Identities=17% Similarity=0.141 Sum_probs=52.6
Q ss_pred hhHHHHHhhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHhhh
Q psy11625 206 NTVLIWIFQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQQL 274 (314)
Q Consensus 206 ~~~~~~~RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~qq~ 274 (314)
+......||+....-||-|=.-||+.|.||.+|...+++.+.. -.|.-||.++|..|-.|.+|..
T Consensus 519 kaeREkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKp----QTKLgILhqAVsVIlsLEQQVR 583 (632)
T KOG3910|consen 519 KAEREKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKP----QTKLGILHQAVSVILSLEQQVR 583 (632)
T ss_pred hhhHHHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCc----chhhhHHHHHHHHHHHHHHHHH
Confidence 3355566888888888888778999999999998887775532 5688999999999999987743
No 19
>KOG4304|consensus
Probab=93.90 E-value=0.22 Score=47.37 Aligned_cols=25 Identities=32% Similarity=0.464 Sum_probs=21.8
Q ss_pred cchHHHHHHHHHHHhhhcccccCcc
Q psy11625 3 WNKGVKSRLLNHLNSCVSGLQQLTP 27 (314)
Q Consensus 3 ~n~~VR~RLL~HLasC~~~i~~~~~ 27 (314)
+|.++++||++||.+|++++.+...
T Consensus 129 ~~~~~~~~L~~HL~~~~~~~~~~~~ 153 (250)
T KOG4304|consen 129 MDAAKGTRLLTHLQAHLAQLEQSTA 153 (250)
T ss_pred CChHHHhHHHHHHHHHhhcccCccC
Confidence 6789999999999999999977443
No 20
>PLN03217 transcription factor ATBS1; Provisional
Probab=93.48 E-value=0.16 Score=41.75 Aligned_cols=47 Identities=26% Similarity=0.400 Sum_probs=39.6
Q ss_pred HHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHhh
Q psy11625 225 RARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQQ 273 (314)
Q Consensus 225 ReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~qq 273 (314)
-|-||+-+..|+.|||+.... .+..|+--+.+|+.|-.|||.|++.-
T Consensus 19 ddqi~dLvsKLq~llPe~r~~--r~s~k~saskvLqEtC~YIrsLhrEv 65 (93)
T PLN03217 19 EDQINDLIIKLQQLLPELRDS--RRSDKVSAARVLQDTCNYIRNLHREV 65 (93)
T ss_pred HHHHHHHHHHHHHHChHHHhh--hccccccHHHHHHHHHHHHHHHHHHH
Confidence 367999999999999997441 23579999999999999999999863
No 21
>KOG3558|consensus
Probab=93.16 E-value=0.076 Score=56.88 Aligned_cols=57 Identities=26% Similarity=0.288 Sum_probs=45.4
Q ss_pred HHHHHhhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHH
Q psy11625 208 VLIWIFQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQN 268 (314)
Q Consensus 208 ~~~~~RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~ 268 (314)
+..+.||..-.-..|=||-+=|+-+.+|+.+||-- ..-.+.||||.|+.+||.|||.
T Consensus 41 ~~~~~rkEkSRdAARsRRsKEn~~FyeLa~~lPlp----~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 41 RLQELRKEKSRDAARSRRSKENEEFYELAKLLPLP----AAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hHHHHHhhhhhhhhhhhcccchHHHHHHHHhCCCc----chhhhhhhhHHHHHHHHHHHHH
Confidence 44556776666677889999999999999999931 1224689999999999999985
No 22
>KOG3559|consensus
Probab=84.37 E-value=0.88 Score=46.79 Aligned_cols=46 Identities=30% Similarity=0.338 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHH
Q psy11625 220 MEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNV 269 (314)
Q Consensus 220 iEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~L 269 (314)
..|-||++=|-.+-||..|||-+... .+.+|||.|..+|-.|||.-
T Consensus 8 aA~tRRekEN~EF~eLAklLPLa~AI----tsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 8 AARTRREKENYEFYELAKLLPLASAI----TSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred HHHHHHHhhcchHHHHHhhccchhhh----hhccchhhhhhHHHHHHHHH
Confidence 45779999999999999999965332 35699999999999999964
No 23
>KOG4395|consensus
Probab=81.43 E-value=2.2 Score=41.29 Aligned_cols=57 Identities=18% Similarity=0.208 Sum_probs=48.2
Q ss_pred HHHhhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHH
Q psy11625 210 IWIFQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQR 271 (314)
Q Consensus 210 ~~~RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~ 271 (314)
...|+..-+..||||=--+|..|+.|+..+++- ....||.|-+-|.|+-.|+-.|-.
T Consensus 171 ~~~rr~aanarErrrm~gLN~AfD~Lr~v~p~~-----~~d~~LSkyetLqmaq~yi~~l~~ 227 (285)
T KOG4395|consen 171 NSHRRLAANARERRRMNGLNSAFDRLRLVVPDG-----DSDKKLSKYETLQMAQGYILALGC 227 (285)
T ss_pred HHhhhcccchHHHHHhhhHHHHHHHHHHhcCCC-----CccchhhhhhHHHHHHHHHhhhHH
Confidence 446777788899999999999999999999862 235899999999999999987754
No 24
>PF13490 zf-HC2: Putative zinc-finger; PDB: 2Z2S_F 2Q1Z_B 3HUG_T.
Probab=63.10 E-value=4.9 Score=26.47 Aligned_cols=18 Identities=33% Similarity=0.540 Sum_probs=13.8
Q ss_pred CcchHHHHHHHHHHHhhh
Q psy11625 2 KWNKGVKSRLLNHLNSCV 19 (314)
Q Consensus 2 ~~n~~VR~RLL~HLasC~ 19 (314)
.|+.+-+.||-.||++|-
T Consensus 15 ~L~~~~~~~~~~HL~~C~ 32 (36)
T PF13490_consen 15 ELSPEERARLEAHLASCP 32 (36)
T ss_dssp -S-HHHHHHHHHHHCT-H
T ss_pred CCCHHHHHHHHHHHHcCH
Confidence 478899999999999995
No 25
>PF12644 DUF3782: Protein of unknown function (DUF3782); InterPro: IPR024271 This functionally uncharacterised family of proteins is found in bacteria and archaea. Proteins in this family are typically between 91 and 186 amino acids in length.
Probab=60.51 E-value=56 Score=24.04 Aligned_cols=15 Identities=27% Similarity=0.457 Sum_probs=12.5
Q ss_pred HhhHHHHHHHHHHHH
Q psy11625 285 LQKFKSGFGDCAVEI 299 (314)
Q Consensus 285 ~~~f~~Gf~~C~~EV 299 (314)
...|+.||..|+..+
T Consensus 48 e~afr~G~~d~l~~~ 62 (64)
T PF12644_consen 48 EEAFRQGFRDGLRLL 62 (64)
T ss_pred HHHHHHHHHHHHHHh
Confidence 468999999999764
No 26
>KOG3898|consensus
Probab=39.92 E-value=13 Score=35.39 Aligned_cols=58 Identities=17% Similarity=0.286 Sum_probs=45.4
Q ss_pred HHHhhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHh
Q psy11625 210 IWIFQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQ 272 (314)
Q Consensus 210 ~~~RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~q 272 (314)
...|+..-..=||+|=--+|+.|+.|+.+||.. . ...||-|++.|..+=.|+..|+.-
T Consensus 69 ~~~rR~kaNaRER~RMH~LNdAld~LReviP~~-~----~~~klskIetl~~a~~yi~als~~ 126 (254)
T KOG3898|consen 69 LTLRRLKANARERTRMHDLNDALDALREVIPHG-L----HPPKLSKIETLRLAANYIAALSEV 126 (254)
T ss_pred hhhhcccccchhhccccchhHHHHHhHhhccCc-C----CCCCCCcchhHHhhhcchhhhccc
Confidence 344555555668888788999999999999951 1 257999999999999999888743
No 27
>PF04806 EspF: EspF protein repeat; InterPro: IPR006891 Enteropathogenic Escherichia coli O127:H6 attaches to the intestinal muscosa through actin pedestals that are created after it has injected the Type III secretion protein EspF (E. coli secreted protein F-like protein from prophage U) into the cells. EspF recruits the actin machinery by activating the WASP (Wiscott-Aldrich syndrome protein) family of actin nucleating factors []. Subsequent cell-death (apoptosis) is caused by EspF being targeted to the mitochondria as a consequence of its mitochondrial targeting sequence. Import into mitochondria leads to a loss of membrane potential, leakage of cytochrome c and activation of the apoptotic caspase cascade. Mutation of leucine to glutamic at position 16 of EspF (L16E) resulted in the failure of EspF import into mitochondria; mitochondrial membrane potential was not affected and cell death abolished. This suggests that the targeting of EspF to mitochondria is essential for bacterial pathogenesis and apoptosis [, ].; PDB: 2KXC_B 2K42_B.
Probab=39.61 E-value=17 Score=26.58 Aligned_cols=13 Identities=38% Similarity=0.506 Sum_probs=11.3
Q ss_pred hHHHHHHHHHHHh
Q psy11625 5 KGVKSRLLNHLNS 17 (314)
Q Consensus 5 ~~VR~RLL~HLas 17 (314)
+.|+|||..|||.
T Consensus 33 p~vaq~l~~hla~ 45 (47)
T PF04806_consen 33 PPVAQRLKDHLAE 45 (47)
T ss_dssp SSHHHHHHHHHHT
T ss_pred chHHHHHHHHHHh
Confidence 4689999999985
No 28
>KOG1151|consensus
Probab=37.99 E-value=40 Score=35.93 Aligned_cols=60 Identities=22% Similarity=0.435 Sum_probs=33.8
Q ss_pred HHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHhhhhhcccCChhHHhhHHHHHH
Q psy11625 223 RRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQQLSVAVASDPTVLQKFKSGFG 293 (314)
Q Consensus 223 RRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~qq~~~~~~~~~~~~~~f~~Gf~ 293 (314)
||.+|+|+|+.-.|.||.+ .+|.||...-+.+..- .| +-+.-..+..+.+.-+.|.+||.
T Consensus 272 kyKerlnkcv~msKkLLIe--------Ks~qEk~a~RdKsmqD--rl-RlGhFtTvRhGaSFteQWtDG~A 331 (775)
T KOG1151|consen 272 KYKERLNKCVTMSKKLLIE--------KSKQEKMACRDKSMQD--RL-RLGHFTTVRHGASFTEQWTDGYA 331 (775)
T ss_pred HHHHHHHHHHHHHHHHhhh--------hhHHHHHhhhhhhhhh--cc-cccceeeeecCccHhhhhhhhHH
Confidence 4567888888888888876 3566665544433211 00 00111122334556678888884
No 29
>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=30.99 E-value=1.4e+02 Score=22.78 Aligned_cols=42 Identities=24% Similarity=0.385 Sum_probs=31.6
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHH
Q psy11625 222 KRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQ 270 (314)
Q Consensus 222 KRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq 270 (314)
+.||+| ++.+-+|..||..+ +...+|++.||..-+.....+.
T Consensus 4 ~~Rk~r-tr~~i~lGgLV~kA------Gl~~~d~~~LlG~Ll~~~~~~~ 45 (65)
T PF06412_consen 4 KARKAR-TRRKIQLGGLVIKA------GLDDLDRAELLGALLEAAELLD 45 (65)
T ss_pred HHHHHH-HHHHHHHHHHHHHh------CCCCCCHHHHHHHHHHHHHhcc
Confidence 345555 67889999999875 2567999999998888766543
No 30
>KOG4571|consensus
Probab=30.90 E-value=4.1e+02 Score=26.44 Aligned_cols=44 Identities=23% Similarity=0.326 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHHh
Q psy11625 221 EKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQRQ 272 (314)
Q Consensus 221 EKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~q 272 (314)
+|+|+++ -.-+.+|+.|=.. + ..=-|-|+=||.=|+|||+|-..
T Consensus 244 qKkRae~-E~l~ge~~~Le~r--N-----~~LK~qa~~lerEI~ylKqli~e 287 (294)
T KOG4571|consen 244 QKKRAEK-EALLGELEGLEKR--N-----EELKDQASELEREIRYLKQLILE 287 (294)
T ss_pred HHHHHHH-HHHHHHHHHHHHH--H-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455544 5566666665222 1 11247788999999999998654
No 31
>TIGR02949 anti_SigH_actin anti-sigma factor, TIGR02949 family. This group of anti-sigma factors are associated in an apparent operon with a family of sigma-70 family sigma factors (TIGR02947). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is restricted to the Actinobacteria.
Probab=26.12 E-value=51 Score=26.10 Aligned_cols=19 Identities=21% Similarity=0.455 Sum_probs=15.6
Q ss_pred CcchHHHHHHHHHHHhhhc
Q psy11625 2 KWNKGVKSRLLNHLNSCVS 20 (314)
Q Consensus 2 ~~n~~VR~RLL~HLasC~~ 20 (314)
.|+.+-+.+|-.||+.|-.
T Consensus 23 eL~~~e~~~~e~HL~~C~~ 41 (84)
T TIGR02949 23 EMGPSDREQLRRHLEACPE 41 (84)
T ss_pred CCCHHHHHHHHHHHHhCHH
Confidence 3678889999999998865
No 32
>KOG4447|consensus
Probab=23.55 E-value=29 Score=31.58 Aligned_cols=53 Identities=17% Similarity=0.305 Sum_probs=45.0
Q ss_pred hhhccchHHHHHHHHHHHhHHHHHHHHHHHHhcCCcccchhhHHHHHHHHHHHHHHHHH
Q psy11625 213 FQSNKPIMEKRRRARINNCLNELKSLILEAMRKDPARHSKLEKADILEMTVKHLQNVQR 271 (314)
Q Consensus 213 RK~~k~liEKRRReRIN~sL~eLk~Llp~~~~~~~~~~sKlEKAdILE~TV~yLk~Lq~ 271 (314)
.++.+.+-|++|=.-+|+.+..|+.+++.. -..|+.|.--|..+-+|+--|-+
T Consensus 78 qrv~anvrerqRtqsLn~AF~~lr~iiptl------PsdklSkiqtLklA~ryidfl~~ 130 (173)
T KOG4447|consen 78 QRVMANVRERQRTQSLNEAFAALRKIIPTL------PSDKLSKIQTLKLAARYIDFLYQ 130 (173)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHhhcCCC------CccccccccchhhcccCCchhhh
Confidence 668899999999999999999999999853 14689999999999888876643
No 33
>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=22.26 E-value=2.2e+02 Score=19.52 Aligned_cols=18 Identities=22% Similarity=0.549 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHhh
Q psy11625 256 ADILEMTVKHLQNVQRQQ 273 (314)
Q Consensus 256 AdILE~TV~yLk~Lq~qq 273 (314)
.||++-+.+|.++|.+++
T Consensus 20 ~Di~~F~a~yF~~L~~~R 37 (38)
T PF02197_consen 20 DDILQFAADYFEKLEKQR 37 (38)
T ss_dssp S-HHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHhh
Confidence 489999999999887664
No 34
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=20.45 E-value=54 Score=22.35 Aligned_cols=12 Identities=42% Similarity=0.869 Sum_probs=10.9
Q ss_pred HHHHHHHHhhhc
Q psy11625 9 SRLLNHLNSCVS 20 (314)
Q Consensus 9 ~RLL~HLasC~~ 20 (314)
.|.-.||..||+
T Consensus 17 ~RfA~HLekCmg 28 (33)
T PF08209_consen 17 SRFAPHLEKCMG 28 (33)
T ss_dssp GGHHHHHHHHTC
T ss_pred hhhHHHHHHHHc
Confidence 688999999998
No 35
>PF03362 Herpes_UL47: Herpesvirus UL47 protein; InterPro: IPR005029 The herpes simplex virus type 1 gene UL47 encodes the tegument proteins referred to collectively as VP13/14, which are believed to be differentially modified forms of the same protein. These proteins have been show to target to the nucleus. The function of this family is unknown but it contains a number of Herpesviridae proteins.; GO: 0006355 regulation of transcription, DNA-dependent
Probab=20.11 E-value=51 Score=34.34 Aligned_cols=23 Identities=35% Similarity=0.303 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHhhhcccccCcccC
Q psy11625 6 GVKSRLLNHLNSCVSGLQQLTPFS 29 (314)
Q Consensus 6 ~VR~RLL~HLasC~~~i~~~~~~~ 29 (314)
-|=||||+||+-|++.+ ....++
T Consensus 324 lvLQRllGhlN~~l~~l-a~aA~~ 346 (452)
T PF03362_consen 324 LVLQRLLGHLNFLLNCL-AGAALY 346 (452)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHc
Confidence 46799999999999977 334443
Done!