Query 028489
Match_columns 208
No_of_seqs 136 out of 264
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 12:18:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028489.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028489hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00353 HLH helix loop heli 98.0 1E-05 2.2E-10 54.2 4.9 42 141-182 8-52 (53)
2 cd00083 HLH Helix-loop-helix d 98.0 1.1E-05 2.4E-10 54.8 4.3 41 141-181 16-59 (60)
3 PF00010 HLH: Helix-loop-helix 97.6 8E-05 1.7E-09 50.7 3.7 38 141-178 13-55 (55)
4 PLN03217 transcription factor 96.3 0.012 2.6E-07 45.6 5.6 55 139-193 17-78 (93)
5 KOG1319 bHLHZip transcription 93.5 0.069 1.5E-06 46.9 3.1 58 137-194 70-148 (229)
6 KOG1318 Helix loop helix trans 91.2 0.25 5.4E-06 47.4 4.0 39 141-179 245-287 (411)
7 KOG0561 bHLH transcription fac 90.9 0.19 4.1E-06 47.0 2.9 39 143-181 74-114 (373)
8 KOG2483 Upstream transcription 74.2 7.9 0.00017 34.6 5.6 46 141-186 71-119 (232)
9 KOG2588 Predicted DNA-binding 66.3 4 8.8E-05 43.0 2.3 43 141-183 288-331 (953)
10 KOG4304 Transcriptional repres 65.7 2.5 5.5E-05 37.9 0.7 42 141-182 44-93 (250)
11 KOG3561 Aryl-hydrocarbon recep 64.5 11 0.00025 39.2 5.1 40 141-180 32-75 (803)
12 KOG3960 Myogenic helix-loop-he 56.4 42 0.00091 31.0 6.7 40 140-179 129-170 (284)
13 KOG4029 Transcription factor H 43.5 24 0.00051 30.5 3.0 39 141-179 121-163 (228)
14 cd03199 GST_C_GRX2 GST_C famil 41.6 32 0.00069 28.1 3.3 34 162-195 50-83 (128)
15 PF10465 Inhibitor_I24: PinA p 39.1 25 0.00055 29.2 2.3 18 164-181 122-139 (140)
16 PF10047 DUF2281: Protein of u 33.9 45 0.00097 23.9 2.7 19 163-181 13-31 (66)
17 PF03555 Flu_C_NS2: Influenza 30.3 69 0.0015 22.6 3.0 26 164-189 12-37 (57)
18 cd00642 GTP_cyclohydro1 GTP cy 28.7 60 0.0013 28.0 3.1 41 154-194 91-131 (185)
19 PRK12606 GTP cyclohydrolase I; 27.7 77 0.0017 27.8 3.6 41 154-194 106-146 (201)
20 cd07664 BAR_SNX2 The Bin/Amphi 27.1 1.1E+02 0.0023 27.2 4.4 30 162-191 19-48 (234)
21 TIGR00063 folE GTP cyclohydrol 27.0 78 0.0017 27.2 3.5 41 154-194 86-126 (180)
22 PF04399 Glutaredoxin2_C: Glut 26.6 49 0.0011 27.0 2.1 28 162-189 49-76 (132)
23 COG5466 Predicted small metal- 26.2 76 0.0016 23.1 2.7 24 152-175 9-36 (59)
24 COG0302 FolE GTP cyclohydrolas 25.6 1.2E+02 0.0027 26.7 4.5 42 153-194 99-140 (195)
25 PF00374 NiFeSe_Hases: Nickel- 25.5 2.5E+02 0.0055 27.6 7.1 56 141-196 110-176 (507)
26 PRK09347 folE GTP cyclohydrola 25.2 89 0.0019 27.0 3.5 42 153-194 93-134 (188)
27 PLN03044 GTP cyclohydrolase I; 25.0 98 0.0021 26.8 3.7 41 154-194 91-132 (188)
28 PRK13237 tyrosine phenol-lyase 23.3 1.3E+02 0.0029 29.5 4.6 56 140-196 273-337 (460)
29 PF09427 DUF2014: Domain of un 21.7 2E+02 0.0043 26.5 5.2 52 46-97 187-238 (260)
30 COG5559 Uncharacterized conser 21.2 86 0.0019 23.1 2.2 15 163-177 12-26 (65)
31 smart00119 HECTc Domain Homolo 20.1 1.5E+02 0.0033 27.1 4.2 34 153-186 155-195 (336)
No 1
>smart00353 HLH helix loop helix domain.
Probab=98.03 E-value=1e-05 Score=54.19 Aligned_cols=42 Identities=24% Similarity=0.351 Sum_probs=37.9
Q ss_pred chHHHHHHHhhcccCC---CCCCCChhhHHHHHHHHHHHHHHHHH
Q 028489 141 LPAVQRKVRVLGRLVP---GCRKQPFPVILEEATDYIAALEMQVR 182 (208)
Q Consensus 141 ~~~V~~k~r~LrrLVP---Gg~~m~~~~LL~Et~dYI~~Lq~QV~ 182 (208)
+..++..+..|+.||| ++.+++...+|++|++||..|+.+++
T Consensus 8 R~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 8 RRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred HHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 4578999999999999 56788999999999999999999874
No 2
>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=97.97 E-value=1.1e-05 Score=54.83 Aligned_cols=41 Identities=27% Similarity=0.361 Sum_probs=38.2
Q ss_pred chHHHHHHHhhcccCCCC---CCCChhhHHHHHHHHHHHHHHHH
Q 028489 141 LPAVQRKVRVLGRLVPGC---RKQPFPVILEEATDYIAALEMQV 181 (208)
Q Consensus 141 ~~~V~~k~r~LrrLVPGg---~~m~~~~LL~Et~dYI~~Lq~QV 181 (208)
+..++..+..|+.|||++ .+++...+|+.|++||..|+.++
T Consensus 16 R~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~ 59 (60)
T cd00083 16 RERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL 59 (60)
T ss_pred HHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 557899999999999999 78999999999999999999886
No 3
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=97.60 E-value=8e-05 Score=50.72 Aligned_cols=38 Identities=34% Similarity=0.534 Sum_probs=34.7
Q ss_pred chHHHHHHHhhcccCCCC-----CCCChhhHHHHHHHHHHHHH
Q 028489 141 LPAVQRKVRVLGRLVPGC-----RKQPFPVILEEATDYIAALE 178 (208)
Q Consensus 141 ~~~V~~k~r~LrrLVPGg-----~~m~~~~LL~Et~dYI~~Lq 178 (208)
...|+..+..|+.|||.+ .+++-.++|++|+|||..||
T Consensus 13 R~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 13 RDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 457999999999999998 56899999999999999997
No 4
>PLN03217 transcription factor ATBS1; Provisional
Probab=96.25 E-value=0.012 Score=45.60 Aligned_cols=55 Identities=25% Similarity=0.383 Sum_probs=46.3
Q ss_pred cCchHHHHHHHhhcccCCC------CCCCChhhHHHHHHHHHHHHHHHHHHHH-HHHHHHhc
Q 028489 139 KSLPAVQRKVRVLGRLVPG------CRKQPFPVILEEATDYIAALEMQVRAMT-ALAELLSV 193 (208)
Q Consensus 139 ~~~~~V~~k~r~LrrLVPG------g~~m~~~~LL~Et~dYI~~Lq~QV~vm~-~L~~~l~~ 193 (208)
...+.|.+=+-.||.|+|- +.+.....+|+||+.||..|.-.|+-|. .|+++|..
T Consensus 17 isddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL~t 78 (93)
T PLN03217 17 ISEDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELLAN 78 (93)
T ss_pred CCHHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3466788889999999995 3457889999999999999999999886 58888865
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=93.49 E-value=0.069 Score=46.94 Aligned_cols=58 Identities=29% Similarity=0.409 Sum_probs=44.7
Q ss_pred hccCchHHHHHHHhhcccCCCCCCC-------ChhhHHHHHHHHHHHH--------------HHHHHHHHHHHHHHhcC
Q 028489 137 KAKSLPAVQRKVRVLGRLVPGCRKQ-------PFPVILEEATDYIAAL--------------EMQVRAMTALAELLSVG 194 (208)
Q Consensus 137 ~~~~~~~V~~k~r~LrrLVPGg~~m-------~~~~LL~Et~dYI~~L--------------q~QV~vm~~L~~~l~~~ 194 (208)
..+.+++|.+=-.-|+.|||-|..- .-+-+|..++|||-+| +.||-+|+.+..-|..+
T Consensus 70 EqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~vtAL~iIk~~YEqM 148 (229)
T KOG1319|consen 70 EQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDVTALKIIKVNYEQM 148 (229)
T ss_pred HHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456778888899999999977644 4578999999999765 56677777777666654
No 6
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=91.19 E-value=0.25 Score=47.39 Aligned_cols=39 Identities=28% Similarity=0.607 Sum_probs=34.1
Q ss_pred chHHHHHHHhhcccCCCCCCC----ChhhHHHHHHHHHHHHHH
Q 028489 141 LPAVQRKVRVLGRLVPGCRKQ----PFPVILEEATDYIAALEM 179 (208)
Q Consensus 141 ~~~V~~k~r~LrrLVPGg~~m----~~~~LL~Et~dYI~~Lq~ 179 (208)
+..|+.++++|..|||.|..- +...+|.-++|||..|+-
T Consensus 245 R~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq 287 (411)
T KOG1318|consen 245 RENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQ 287 (411)
T ss_pred HHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHH
Confidence 678999999999999999532 578899999999998864
No 7
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=90.95 E-value=0.19 Score=46.99 Aligned_cols=39 Identities=28% Similarity=0.410 Sum_probs=34.4
Q ss_pred HHHHHHHhhcccCCC--CCCCChhhHHHHHHHHHHHHHHHH
Q 028489 143 AVQRKVRVLGRLVPG--CRKQPFPVILEEATDYIAALEMQV 181 (208)
Q Consensus 143 ~V~~k~r~LrrLVPG--g~~m~~~~LL~Et~dYI~~Lq~QV 181 (208)
.|+-=+..|+.|+|- |+|+..+.+|+.|+|||..|+-|.
T Consensus 74 SINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~K 114 (373)
T KOG0561|consen 74 SINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHK 114 (373)
T ss_pred hhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcc
Confidence 456678899999995 788999999999999999999875
No 8
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=74.20 E-value=7.9 Score=34.58 Aligned_cols=46 Identities=20% Similarity=0.159 Sum_probs=37.5
Q ss_pred chHHHHHHHhhcccCCCCCCC---ChhhHHHHHHHHHHHHHHHHHHHHH
Q 028489 141 LPAVQRKVRVLGRLVPGCRKQ---PFPVILEEATDYIAALEMQVRAMTA 186 (208)
Q Consensus 141 ~~~V~~k~r~LrrLVPGg~~m---~~~~LL~Et~dYI~~Lq~QV~vm~~ 186 (208)
+.-|..-+..|+.+||-+..- ....+|..|..||..|+-+..--+.
T Consensus 71 Rahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~ 119 (232)
T KOG2483|consen 71 RAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQ 119 (232)
T ss_pred HHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHH
Confidence 557889999999999976654 4689999999999999877655443
No 9
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=66.32 E-value=4 Score=42.97 Aligned_cols=43 Identities=30% Similarity=0.411 Sum_probs=36.1
Q ss_pred chHHHHHHHhhcccCCCCC-CCChhhHHHHHHHHHHHHHHHHHH
Q 028489 141 LPAVQRKVRVLGRLVPGCR-KQPFPVILEEATDYIAALEMQVRA 183 (208)
Q Consensus 141 ~~~V~~k~r~LrrLVPGg~-~m~~~~LL~Et~dYI~~Lq~QV~v 183 (208)
+-.|+.|+..|+.||||-+ ++.....|.-++|||..|+-+-..
T Consensus 288 RsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~ 331 (953)
T KOG2588|consen 288 RSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQK 331 (953)
T ss_pred hcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccc
Confidence 3468889999999999988 678899999999999998765433
No 10
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=65.65 E-value=2.5 Score=37.88 Aligned_cols=42 Identities=21% Similarity=0.227 Sum_probs=35.8
Q ss_pred chHHHHHHHhhcccCCCCC--------CCChhhHHHHHHHHHHHHHHHHH
Q 028489 141 LPAVQRKVRVLGRLVPGCR--------KQPFPVILEEATDYIAALEMQVR 182 (208)
Q Consensus 141 ~~~V~~k~r~LrrLVPGg~--------~m~~~~LL~Et~dYI~~Lq~QV~ 182 (208)
+..|++=+..|+.|||.+. +++-+++||-|.+|+..|+.+..
T Consensus 44 RaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~ 93 (250)
T KOG4304|consen 44 RARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQ 93 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence 6689999999999999754 45679999999999999987654
No 11
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=64.53 E-value=11 Score=39.17 Aligned_cols=40 Identities=20% Similarity=0.246 Sum_probs=36.2
Q ss_pred chHHHHHHHhhcccCCCCC----CCChhhHHHHHHHHHHHHHHH
Q 028489 141 LPAVQRKVRVLGRLVPGCR----KQPFPVILEEATDYIAALEMQ 180 (208)
Q Consensus 141 ~~~V~~k~r~LrrLVPGg~----~m~~~~LL~Et~dYI~~Lq~Q 180 (208)
++..+.=+++|-.|||+|. |||-..+|.+|++.|..++-+
T Consensus 32 Rdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 32 RDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred HHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence 5677888999999999996 789999999999999999886
No 12
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=56.39 E-value=42 Score=30.96 Aligned_cols=40 Identities=28% Similarity=0.324 Sum_probs=31.6
Q ss_pred CchHHHHHHHhhcc-cCCCCC-CCChhhHHHHHHHHHHHHHH
Q 028489 140 SLPAVQRKVRVLGR-LVPGCR-KQPFPVILEEATDYIAALEM 179 (208)
Q Consensus 140 ~~~~V~~k~r~Lrr-LVPGg~-~m~~~~LL~Et~dYI~~Lq~ 179 (208)
....|++-+++|++ -+++.+ .+.-.++|.-||+||..||.
T Consensus 129 RLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~ 170 (284)
T KOG3960|consen 129 RLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQA 170 (284)
T ss_pred HHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHH
Confidence 35678888999975 455544 46889999999999999985
No 13
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=43.53 E-value=24 Score=30.55 Aligned_cols=39 Identities=28% Similarity=0.294 Sum_probs=31.9
Q ss_pred chHHHHHHHhhcccCCC----CCCCChhhHHHHHHHHHHHHHH
Q 028489 141 LPAVQRKVRVLGRLVPG----CRKQPFPVILEEATDYIAALEM 179 (208)
Q Consensus 141 ~~~V~~k~r~LrrLVPG----g~~m~~~~LL~Et~dYI~~Lq~ 179 (208)
-..|+.-.-.|+.+||- ..++.--+.|..|+.||.+|+-
T Consensus 121 v~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~ 163 (228)
T KOG4029|consen 121 VQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTK 163 (228)
T ss_pred ccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHH
Confidence 34688889999999994 3457788899999999999864
No 14
>cd03199 GST_C_GRX2 GST_C family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD (most GRXs range from 9-12kD). GRX2 adopts a GST fold containing an N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain. It contains a redox active CXXC motif located in the N-terminal domain, but is not able to reduce ribonucleotide reductase like other GRXs. However, it catalyzes GSH-dependent protein disulfide reduction of other substrates efficiently. GRX2 is thought to function primarily in catalyzing the reversible glutathionylation of proteins in cellular redox regulation including stress responses.
Probab=41.61 E-value=32 Score=28.12 Aligned_cols=34 Identities=24% Similarity=0.337 Sum_probs=25.8
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 028489 162 PFPVILEEATDYIAALEMQVRAMTALAELLSVGG 195 (208)
Q Consensus 162 ~~~~LL~Et~dYI~~Lq~QV~vm~~L~~~l~~~g 195 (208)
|++++|.++.+||..|+.-..-+..|....+..|
T Consensus 50 ~F~~~l~~t~~~i~~l~~~L~~l~~ll~~~~~~n 83 (128)
T cd03199 50 SFDALLANTPQYIAALNALLEELDPLILSSEAVN 83 (128)
T ss_pred CHHHHHHccHHHHHHHHHHHHHHHHHHcCccccC
Confidence 7999999999999999987766666653333333
No 15
>PF10465 Inhibitor_I24: PinA peptidase inhibitor ; InterPro: IPR019506 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. PinA inhibits the endopeptidase La. It binds to the La homotetramer but does not interfere with the ATP binding site or the active site of La.
Probab=39.07 E-value=25 Score=29.18 Aligned_cols=18 Identities=33% Similarity=0.536 Sum_probs=16.4
Q ss_pred hhHHHHHHHHHHHHHHHH
Q 028489 164 PVILEEATDYIAALEMQV 181 (208)
Q Consensus 164 ~~LL~Et~dYI~~Lq~QV 181 (208)
-.|.+-|++||.-|+.|+
T Consensus 122 gnLMQAAAeYIewLE~ql 139 (140)
T PF10465_consen 122 GNLMQAAAEYIEWLETQL 139 (140)
T ss_pred hhHHHHHHHHHHHHHhhc
Confidence 579999999999999995
No 16
>PF10047 DUF2281: Protein of unknown function (DUF2281); InterPro: IPR018739 This domain is found in putative uncharacterised proteins, though some proteins contaning this domain are described as a transcritional regulator of the Xre family.
Probab=33.91 E-value=45 Score=23.86 Aligned_cols=19 Identities=21% Similarity=0.198 Sum_probs=16.9
Q ss_pred hhhHHHHHHHHHHHHHHHH
Q 028489 163 FPVILEEATDYIAALEMQV 181 (208)
Q Consensus 163 ~~~LL~Et~dYI~~Lq~QV 181 (208)
.+.+..|..|||.+|..+-
T Consensus 13 P~~~~~Evldfi~fL~~k~ 31 (66)
T PF10047_consen 13 PEELQQEVLDFIEFLLQKY 31 (66)
T ss_pred CHHHHHHHHHHHHHHHHhc
Confidence 5789999999999998775
No 17
>PF03555 Flu_C_NS2: Influenza C non-structural protein (NS2); InterPro: IPR005188 The influenza C virus genome consists of seven single-stranded RNA segments. The shortest RNA segment encodes a 286 amino acid non-structural protein NS1 IPR005187 from INTERPRO as well as the NS2 protein. The NS2 protein is only about 60 amino acids in length and of unknown function.
Probab=30.34 E-value=69 Score=22.61 Aligned_cols=26 Identities=35% Similarity=0.383 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 028489 164 PVILEEATDYIAALEMQVRAMTALAE 189 (208)
Q Consensus 164 ~~LL~Et~dYI~~Lq~QV~vm~~L~~ 189 (208)
..||+.-.|.=.|-+|||+-|.+-..
T Consensus 12 tkmlerqedldtctemqvekmkastk 37 (57)
T PF03555_consen 12 TKMLERQEDLDTCTEMQVEKMKASTK 37 (57)
T ss_pred HHHHHHHhhhhHhHHHHHHHHHHhHH
Confidence 46889889999999999999987544
No 18
>cd00642 GTP_cyclohydro1 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In vertebrates and insects it is the biosynthtic precursor of tetrahydrobiopterin (BH4) which is involved in the formation of catacholamines, nitric oxide, and the stimulation of T lymphocytes. The biosynthetic reaction of BH4 is controlled by a regulatory protein GFRP which mediates feedback inhibition of GTP-CH-I by BH4. This inhibition is reversed by phenylalanine. The decameric GTP-CH-I forms a complex with two pentameric GFRP in the presence of phenylalanine or a combination of GTP and BH4, respectively.
Probab=28.71 E-value=60 Score=28.00 Aligned_cols=41 Identities=12% Similarity=0.092 Sum_probs=36.2
Q ss_pred cCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 028489 154 LVPGCRKQPFPVILEEATDYIAALEMQVRAMTALAELLSVG 194 (208)
Q Consensus 154 LVPGg~~m~~~~LL~Et~dYI~~Lq~QV~vm~~L~~~l~~~ 194 (208)
.||||.-+++..|-.-+--|-..||.|.++=+.+++.+...
T Consensus 91 YiP~~~ViGLSKl~RiV~~~arRlQiQERLt~qIa~al~~~ 131 (185)
T cd00642 91 YIPKDKVIGLSKLARIVEFFSRRLQVQERLTKQIAVAIQEI 131 (185)
T ss_pred EecCCeeeeHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHh
Confidence 67988888999999999999999999999999888888654
No 19
>PRK12606 GTP cyclohydrolase I; Reviewed
Probab=27.70 E-value=77 Score=27.77 Aligned_cols=41 Identities=15% Similarity=0.178 Sum_probs=36.0
Q ss_pred cCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 028489 154 LVPGCRKQPFPVILEEATDYIAALEMQVRAMTALAELLSVG 194 (208)
Q Consensus 154 LVPGg~~m~~~~LL~Et~dYI~~Lq~QV~vm~~L~~~l~~~ 194 (208)
.|||+.-+++..|-.-+--|-..||.|.++=..+++.+...
T Consensus 106 YiP~~~VvGLSKl~RiV~~~arRlQvQERLT~qIa~~l~~~ 146 (201)
T PRK12606 106 YLPGGKVLGLSKIARIVDMFARRLQIQENLTRQIATAVVTV 146 (201)
T ss_pred EeCCCccccHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHh
Confidence 67998888999999999999999999999988888887644
No 20
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=27.12 E-value=1.1e+02 Score=27.16 Aligned_cols=30 Identities=27% Similarity=0.289 Sum_probs=25.4
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028489 162 PFPVILEEATDYIAALEMQVRAMTALAELL 191 (208)
Q Consensus 162 ~~~~LL~Et~dYI~~Lq~QV~vm~~L~~~l 191 (208)
+.|..|++-.+||..|+.|.+-|..-++.+
T Consensus 19 E~D~~F~~~k~yi~~Le~~Lk~l~k~~~~l 48 (234)
T cd07664 19 ESDAWFEEKQQQFENLDQQLRKLHASVESL 48 (234)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 679999999999999999998887655444
No 21
>TIGR00063 folE GTP cyclohydrolase I. GTP cyclohydrolase I (EC 3.5.4.16) catalyzes the biosynthesis of formic acid and dihydroneopterin triphosphate from GTP. This reaction is the first step in the biosynthesis of tetrahydrofolate in prokaryotes, of tetrahydrobiopterin in vertebrates, and of pteridine-containing pigments in insects.
Probab=26.97 E-value=78 Score=27.19 Aligned_cols=41 Identities=17% Similarity=0.113 Sum_probs=35.8
Q ss_pred cCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 028489 154 LVPGCRKQPFPVILEEATDYIAALEMQVRAMTALAELLSVG 194 (208)
Q Consensus 154 LVPGg~~m~~~~LL~Et~dYI~~Lq~QV~vm~~L~~~l~~~ 194 (208)
.|||+.-+++..|-.=+--|-..||.|.++=+.+++.+...
T Consensus 86 YiP~~~ViGLSKl~RiV~~~arRlQiQERlT~qIa~~l~~~ 126 (180)
T TIGR00063 86 YIPKDKVIGLSKIARIVEFFARRPQVQERLTQQIAEALQEI 126 (180)
T ss_pred EecCCceecHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHh
Confidence 57988778999999999999999999999998888887644
No 22
>PF04399 Glutaredoxin2_C: Glutaredoxin 2, C terminal domain; InterPro: IPR007494 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. Unlike other glutaredoxins, glutaredoxin 2 (Grx2) cannot reduce ribonucleotide reductase. Grx2 has significantly higher catalytic activity in the reduction of mixed disulphides with glutathione (GSH) compared with other glutaredoxins. The active site residues (Cys9-Pro10-Tyr11-Cys12, in Escherichia coli Grx2, P39811 from SWISSPROT), which are found at the interface between the N- and C-terminal domains are identical to other glutaredoxins, but there is no other similarity between glutaredoxin 2 and other glutaredoxins. Grx2 is structurally similar to glutathione-S-transferases (GST), but there is no obvious sequence similarity. The inter-domain contacts are mainly hydrophobic, suggesting that the two domains are unlikely to be stable on their own. Both domains are needed for correct folding and activity of Grx2. It is thought that the primary function of Grx2 is to catalyse reversible glutathionylation of proteins with GSH in cellular redox regulation including the response to oxidative stress. The N-terminal domain is IPR004045 from INTERPRO.; PDB: 1G7O_A 3IR4_A.
Probab=26.60 E-value=49 Score=27.00 Aligned_cols=28 Identities=21% Similarity=0.428 Sum_probs=23.1
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 028489 162 PFPVILEEATDYIAALEMQVRAMTALAE 189 (208)
Q Consensus 162 ~~~~LL~Et~dYI~~Lq~QV~vm~~L~~ 189 (208)
+++++|.+|.+||..|+....-|..|..
T Consensus 49 ~F~~~l~~t~~~i~~l~~~L~~Le~ll~ 76 (132)
T PF04399_consen 49 SFEELLAKTPELIAELNADLEELEPLLA 76 (132)
T ss_dssp HHHHHHHCHHHHHHHHHHHHHHHHHH-S
T ss_pred CHHHHHHcCHHHHHHHHHHHHHHHHHhc
Confidence 7999999999999999988766665554
No 23
>COG5466 Predicted small metal-binding protein [Function unknown]
Probab=26.16 E-value=76 Score=23.07 Aligned_cols=24 Identities=17% Similarity=0.283 Sum_probs=18.5
Q ss_pred cccCCCCCCC----ChhhHHHHHHHHHH
Q 028489 152 GRLVPGCRKQ----PFPVILEEATDYIA 175 (208)
Q Consensus 152 rrLVPGg~~m----~~~~LL~Et~dYI~ 175 (208)
..|+|||+-+ +.+++++++.+.+.
T Consensus 9 ~slg~~C~f~~~a~~~~Ev~~~iv~H~k 36 (59)
T COG5466 9 GSLGMGCGFEARADSEAEVMRRIVEHAK 36 (59)
T ss_pred cccCCCCcceeccCcHHHHHHHHHHHHH
Confidence 4689999865 67888888877665
No 24
>COG0302 FolE GTP cyclohydrolase I [Coenzyme metabolism]
Probab=25.58 E-value=1.2e+02 Score=26.67 Aligned_cols=42 Identities=17% Similarity=0.173 Sum_probs=36.5
Q ss_pred ccCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 028489 153 RLVPGCRKQPFPVILEEATDYIAALEMQVRAMTALAELLSVG 194 (208)
Q Consensus 153 rLVPGg~~m~~~~LL~Et~dYI~~Lq~QV~vm~~L~~~l~~~ 194 (208)
-.||+|.-.++..+..=.--|-..||.|.++=..+++++...
T Consensus 99 AYiP~gkV~GlSKiaRiV~~~arR~QvQErlT~qIA~al~~~ 140 (195)
T COG0302 99 AYIPDGKVIGLSKIARIVDIFARRLQVQERLTEQIADALQEI 140 (195)
T ss_pred EEcCCCceecHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHh
Confidence 478988888999999888889999999999988888887765
No 25
>PF00374 NiFeSe_Hases: Nickel-dependent hydrogenase; InterPro: IPR001501 Hydrogenases are enzymes that catalyze the reversible activation of hydrogen and which occur widely in prokaryotes as well as in some eukaryotes. There are various types of hydrogenases, but all of them seem to contain at least one iron-sulphur cluster. They can be broadly divided into two groups: hydrogenases containing nickel and, in some cases, also selenium (the [NiFe] and [NiFeSe] hydrogenases) and those lacking nickel (the [Fe] hydrogenases). The [NiFe] and [NiFeSe] hydrogenases are heterodimer that consist of a small subunit that contains a signal peptide and a large subunit. All the known large subunits seem to be evolutionary related []; they contain two Cys-x-x-Cys motifs; one at their N-terminal end; the other at their C-terminal end. These four cysteines are involved in the binding of nickel []. In the [NiFeSe] hydrogenases the first cysteine of the C-terminal motif is a selenocysteine which has experimentally been shown to be a nickel ligand [].; GO: 0016151 nickel ion binding; PDB: 1E3D_D 3USC_M 3USE_L 3UQY_M 3RGW_L 1CC1_L 1YQ9_I 2FRV_D 1FRV_B 3MYR_F ....
Probab=25.49 E-value=2.5e+02 Score=27.64 Aligned_cols=56 Identities=30% Similarity=0.317 Sum_probs=42.9
Q ss_pred chHHHHHHHh------hcccCCCCCC-----CChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 028489 141 LPAVQRKVRV------LGRLVPGCRK-----QPFPVILEEATDYIAALEMQVRAMTALAELLSVGGG 196 (208)
Q Consensus 141 ~~~V~~k~r~------LrrLVPGg~~-----m~~~~LL~Et~dYI~~Lq~QV~vm~~L~~~l~~~g~ 196 (208)
-..|++|++. |.-+-||=.. ++.+.=|.-..+|+.+|++|-++.+.++=+-....+
T Consensus 110 ~~~vq~kl~~~v~~g~lg~f~~~y~~h~~y~l~pe~nl~~v~hYleAL~~qr~~~ei~AIfGGK~PH 176 (507)
T PF00374_consen 110 FKAVQDKLKKFVESGQLGPFANGYWGHPDYKLPPEVNLIAVAHYLEALEIQRKAHEIMAIFGGKWPH 176 (507)
T ss_dssp HHHHHHHHHHHHHTTHHGGGTTHTTT-TT--S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSSS
T ss_pred HHHHHHHHHHHhccCCCCccCCCCCCCccccCChhHhHHHHHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence 4579999998 8877777443 577777888899999999999998887766555533
No 26
>PRK09347 folE GTP cyclohydrolase I; Provisional
Probab=25.21 E-value=89 Score=27.03 Aligned_cols=42 Identities=14% Similarity=0.113 Sum_probs=36.3
Q ss_pred ccCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 028489 153 RLVPGCRKQPFPVILEEATDYIAALEMQVRAMTALAELLSVG 194 (208)
Q Consensus 153 rLVPGg~~m~~~~LL~Et~dYI~~Lq~QV~vm~~L~~~l~~~ 194 (208)
..||++.-+++..|-.=+--|-..||.|.++=+.+++.+...
T Consensus 93 aYiP~~~ViGLSKl~Riv~~~arRlQiQERlT~qIa~al~~~ 134 (188)
T PRK09347 93 AYIPKGKVIGLSKIARIVDFFARRPQVQERLTAQIADALQEI 134 (188)
T ss_pred EEeCCCccccHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHh
Confidence 368988888999999999999999999999988888887644
No 27
>PLN03044 GTP cyclohydrolase I; Provisional
Probab=24.99 E-value=98 Score=26.83 Aligned_cols=41 Identities=17% Similarity=0.184 Sum_probs=35.0
Q ss_pred cCCC-CCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 028489 154 LVPG-CRKQPFPVILEEATDYIAALEMQVRAMTALAELLSVG 194 (208)
Q Consensus 154 LVPG-g~~m~~~~LL~Et~dYI~~Lq~QV~vm~~L~~~l~~~ 194 (208)
.||+ +.-+++..|-.=+--|-..||.|.++=+.+++.+...
T Consensus 91 YiP~~~~ViGLSKl~RiV~~~arRlQiQERLT~qIa~~l~~~ 132 (188)
T PLN03044 91 YIPNAGVILGLSKLARIAEVYARRLQTQERLTRQIADAIVES 132 (188)
T ss_pred EECCCCccccHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHh
Confidence 6798 6667999999999999999999999988888887643
No 28
>PRK13237 tyrosine phenol-lyase; Provisional
Probab=23.27 E-value=1.3e+02 Score=29.47 Aligned_cols=56 Identities=21% Similarity=0.259 Sum_probs=41.4
Q ss_pred CchHHHHHHHhhcccCCC-----C---CCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 028489 140 SLPAVQRKVRVLGRLVPG-----C---RKQ-PFPVILEEATDYIAALEMQVRAMTALAELLSVGGG 196 (208)
Q Consensus 140 ~~~~V~~k~r~LrrLVPG-----g---~~m-~~~~LL~Et~dYI~~Lq~QV~vm~~L~~~l~~~g~ 196 (208)
..+.+-++++.|.-+-|| | +.| -+..=|+|+.|| ..|+-.|...+.|++.|...|-
T Consensus 273 ~D~eL~~~~r~~~~~~eG~~tygg~~grd~~alAvgl~E~~~~-~y~~~ri~~~~~l~~~L~~~Gv 337 (460)
T PRK13237 273 NDEELFDEAKELVVVYEGMPSYGGMAGRDMEAMAIGIEESVQY-EYIEHRVGQVRYLGEKLLAAGV 337 (460)
T ss_pred CCHHHHHHHHHhccccCCCcCCCChhhhHHHHHHhHHHhhchH-HHHHHHHHHHHHHHHHHHHCCC
Confidence 456888999999888887 2 233 234447778777 7777777777999999988874
No 29
>PF09427 DUF2014: Domain of unknown function (DUF2014) ; InterPro: IPR019006 This domain is found at the C-terminal of a family of ER membrane bound transcription factors called sterol regulatory element binding proteins (SREBP).
Probab=21.74 E-value=2e+02 Score=26.47 Aligned_cols=52 Identities=23% Similarity=0.243 Sum_probs=36.9
Q ss_pred HHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHhcCCCcchhHHHHHhH
Q 028489 46 YSSKLIQALNHVNGASPSAPRRGRAVREAADRVLAVAAKGRTRWSRAILTHR 97 (208)
Q Consensus 46 Yss~Ll~AL~ki~~~s~s~~eR~raVK~aAD~ALA~aa~Grt~WSRALl~~~ 97 (208)
|++++|+-..--.-......+....+...-|.|+.++..|..+=-|||+++.
T Consensus 187 ~Ss~~L~~~L~~~L~~~~~~~~~~~~~~~i~lAl~vAP~~S~A~~RAlvarA 238 (260)
T PF09427_consen 187 YSSHLLQRALLTSLEKDSDEESREVFESDIELALKVAPPGSAAQRRALVARA 238 (260)
T ss_pred HHHHHHHHHHHHHhccccccchhHhHHHHHHHHHHcCCCCcHHHHHHHHHHH
Confidence 6666665433322212222367788999999999999999999999999853
No 30
>COG5559 Uncharacterized conserved small protein [Function unknown]
Probab=21.21 E-value=86 Score=23.06 Aligned_cols=15 Identities=33% Similarity=0.319 Sum_probs=13.1
Q ss_pred hhhHHHHHHHHHHHH
Q 028489 163 FPVILEEATDYIAAL 177 (208)
Q Consensus 163 ~~~LL~Et~dYI~~L 177 (208)
.|.|=.|.+|||.+|
T Consensus 12 PDdLKrEvldY~EfL 26 (65)
T COG5559 12 PDDLKREVLDYIEFL 26 (65)
T ss_pred cHHHHHHHHHHHHHH
Confidence 477889999999987
No 31
>smart00119 HECTc Domain Homologous to E6-AP Carboxyl Terminus with. E3 ubiquitin-protein ligases. Can bind to E2 enzymes.
Probab=20.13 E-value=1.5e+02 Score=27.08 Aligned_cols=34 Identities=21% Similarity=0.258 Sum_probs=23.4
Q ss_pred ccCCCCCCC-----ChhhHHHHHHHHHH--HHHHHHHHHHH
Q 028489 153 RLVPGCRKQ-----PFPVILEEATDYIA--ALEMQVRAMTA 186 (208)
Q Consensus 153 rLVPGg~~m-----~~~~LL~Et~dYI~--~Lq~QV~vm~~ 186 (208)
.|+|||..+ +..+.++..++|.. ..+.|++.++.
T Consensus 155 eL~~~G~~~~Vt~~N~~eYv~~~~~~~l~~~~~~~~~afr~ 195 (336)
T smart00119 155 ELKPGGSNIPVTEENKKEYVHLVIEYRLNKGIEKQLEAFRE 195 (336)
T ss_pred ecCCCCCCCcCCHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 689999975 44667777777764 45567766653
Done!