Query 040879
Match_columns 83
No_of_seqs 38 out of 40
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 12:44:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040879.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040879hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07172 GRP: Glycine rich pro 85.0 0.68 1.5E-05 30.5 1.9 25 1-25 1-28 (95)
2 PRK08944 motB flagellar motor 54.7 11 0.00023 29.2 2.3 16 5-20 26-41 (302)
3 KOG4319 DNA-binding nuclear pr 46.7 9.3 0.0002 24.3 0.7 10 68-77 37-46 (70)
4 PF12273 RCR: Chitin synthesis 45.3 15 0.00032 24.6 1.6 12 8-19 10-21 (130)
5 PF00918 Gastrin: Gastrin/chol 44.0 7.4 0.00016 26.4 -0.1 15 5-19 3-17 (116)
6 PF10717 ODV-E18: Occlusion-de 43.2 24 0.00053 23.2 2.3 17 4-20 31-47 (85)
7 KOG4761 Proteasome formation i 42.1 18 0.00039 28.2 1.8 16 67-82 240-255 (266)
8 PF10868 DUF2667: Protein of u 36.1 8.6 0.00019 25.4 -0.7 12 1-12 1-12 (90)
9 PF04648 MF_alpha: Yeast matin 34.5 20 0.00043 16.0 0.6 8 71-78 4-11 (13)
10 PRK08457 motB flagellar motor 31.3 43 0.00093 25.1 2.3 15 5-19 25-39 (257)
11 PF11247 DUF2675: Protein of u 30.9 77 0.0017 21.3 3.2 10 67-76 83-92 (98)
12 PRK06742 flagellar motor prote 30.7 43 0.00094 24.5 2.2 15 5-19 21-35 (225)
13 PF04202 Mfp-3: Foot protein 3 30.1 45 0.00097 21.2 1.9 22 1-22 1-24 (71)
14 PRK06667 motB flagellar motor 30.1 44 0.00095 24.8 2.2 15 5-19 27-41 (252)
15 PF13677 MotB_plug: Membrane M 29.9 62 0.0013 19.1 2.4 16 5-20 26-41 (58)
16 PF15468 DUF4636: Domain of un 29.1 43 0.00093 25.8 2.0 19 2-20 39-58 (243)
17 PF05612 DUF781: Mouse protein 28.2 44 0.00096 27.0 2.0 21 1-21 1-21 (356)
18 PF07265 TAP35_44: Tapetum spe 27.9 51 0.0011 22.7 2.0 14 7-20 9-22 (119)
19 PRK07734 motB flagellar motor 26.3 57 0.0012 24.2 2.2 15 5-19 28-42 (259)
20 TIGR03044 PS_II_psb27 photosys 25.2 91 0.002 22.0 2.9 26 5-30 13-38 (135)
21 KOG3782 Predicted membrane pro 24.6 2E+02 0.0043 21.4 4.7 12 66-77 50-61 (189)
22 PF11912 DUF3430: Protein of u 24.5 57 0.0012 22.7 1.9 14 4-17 1-14 (212)
23 TIGR01614 PME_inhib pectineste 24.4 56 0.0012 22.0 1.7 20 1-20 1-20 (178)
24 TIGR03042 PS_II_psbQ_bact phot 23.8 74 0.0016 22.5 2.3 16 5-21 6-21 (142)
25 PRK09038 flagellar motor prote 23.8 66 0.0014 24.4 2.2 15 5-19 26-40 (281)
26 PRK06925 flagellar motor prote 23.8 65 0.0014 23.5 2.1 15 5-19 24-38 (230)
27 PHA02099 hypothetical protein 22.8 39 0.00084 21.9 0.6 10 69-78 24-33 (84)
28 PF05438 TRH: Thyrotropin-rele 22.5 3.1E+02 0.0066 20.8 5.4 7 70-76 72-78 (212)
29 TIGR03302 OM_YfiO outer membra 22.1 77 0.0017 21.8 2.1 18 4-21 2-19 (235)
30 PF10258 RNA_GG_bind: PHAX RNA 21.7 92 0.002 20.1 2.2 11 67-77 49-59 (87)
31 PF15240 Pro-rich: Proline-ric 21.5 73 0.0016 23.4 1.9 14 8-21 4-17 (179)
32 PRK09041 motB flagellar motor 21.2 78 0.0017 24.7 2.2 15 5-19 35-49 (317)
33 PF04272 Phospholamban: Phosph 20.6 82 0.0018 18.8 1.7 8 8-15 35-42 (52)
No 1
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=84.96 E-value=0.68 Score=30.47 Aligned_cols=25 Identities=40% Similarity=0.384 Sum_probs=13.5
Q ss_pred CCchHHHHHHHHH-H-HHHh-hccCCCC
Q 040879 1 MASLKFWACLALL-L-MTIS-RFESRPL 25 (83)
Q Consensus 1 MA~l~~~lc~iLl-l-l~~s-~~e~R~L 25 (83)
||+.+|+|+.+|| + |++| ..++|.+
T Consensus 1 MaSK~~llL~l~LA~lLlisSevaa~~~ 28 (95)
T PF07172_consen 1 MASKAFLLLGLLLAALLLISSEVAAREL 28 (95)
T ss_pred CchhHHHHHHHHHHHHHHHHhhhhhHHh
Confidence 8988776664443 2 2333 2346665
No 2
>PRK08944 motB flagellar motor protein MotB; Reviewed
Probab=54.67 E-value=11 Score=29.21 Aligned_cols=16 Identities=25% Similarity=0.650 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHhhc
Q 040879 5 KFWACLALLLMTISRF 20 (83)
Q Consensus 5 ~~~lc~iLlll~~s~~ 20 (83)
.+++||++||++||..
T Consensus 26 TLLm~FFVlL~S~S~~ 41 (302)
T PRK08944 26 SLLMCFFVLLLSFSEM 41 (302)
T ss_pred HHHHHHHHHHHHHhhc
Confidence 6788888888888764
No 3
>KOG4319 consensus DNA-binding nuclear protein p8 [Transcription]
Probab=46.71 E-value=9.3 Score=24.32 Aligned_cols=10 Identities=50% Similarity=0.986 Sum_probs=8.3
Q ss_pred CCCcccCCCC
Q 040879 68 YDSERVSPGG 77 (83)
Q Consensus 68 ~~skRlSPGG 77 (83)
.-+.|+||||
T Consensus 37 ehtnr~sPgG 46 (70)
T KOG4319|consen 37 EHTNRLSPGG 46 (70)
T ss_pred HhccCCCCCc
Confidence 3478999999
No 4
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=45.27 E-value=15 Score=24.56 Aligned_cols=12 Identities=17% Similarity=0.263 Sum_probs=4.8
Q ss_pred HHHHHHHHHHhh
Q 040879 8 ACLALLLMTISR 19 (83)
Q Consensus 8 lc~iLlll~~s~ 19 (83)
+|++|+|+++.+
T Consensus 10 ~~i~l~~~~~~~ 21 (130)
T PF12273_consen 10 VAILLFLFLFYC 21 (130)
T ss_pred HHHHHHHHHHHH
Confidence 333334444443
No 5
>PF00918 Gastrin: Gastrin/cholecystokinin family; InterPro: IPR001651 Gastrin and cholecystokinin (CCK) are structurally and functionally related peptide hormones that function as hormonal regulators of various digestive processes and feeding behaviors. They are known to induce gastric secretion, stimulate pancreatic secretion, increase blood circulation and water secretion in the stomach and intestine, and stimulate smooth muscle contraction. Originally found in the gut, these hormones have since been shown to be present in various parts of the nervous system. Like many other active peptides they are synthesized as larger protein precursors that are enzymatically converted to their mature forms. They are found in several molecular forms due to tissue-specific post-translational processing. The biological activity of gastrin and CCK is associated with the last five C-terminal residues. One or two positions downstream, there is a conserved sulphated tyrosine residue. The amphibian caerulein skin peptide, the cockroach leukosulphakinin I and II (LSK) peptides, Drosophila melanogaster (Fruit fly) putative CCK-homologs Drosulphakinins I and II, cionin, a Gallus gallus (Chicken) gastrin/cholecystokinin-like peptide and cionin, a neuropeptide from the protochordate Ciona intestinalis belong to the same family.; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=44.05 E-value=7.4 Score=26.37 Aligned_cols=15 Identities=20% Similarity=0.432 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHhh
Q 040879 5 KFWACLALLLMTISR 19 (83)
Q Consensus 5 ~~~lc~iLlll~~s~ 19 (83)
.+|+|++|..|+.++
T Consensus 3 gicvcvLlavLs~~~ 17 (116)
T PF00918_consen 3 GICVCVLLAVLSTSC 17 (116)
T ss_pred cEEeeHHHHHHHHhh
Confidence 467887776665543
No 6
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=43.17 E-value=24 Score=23.19 Aligned_cols=17 Identities=24% Similarity=0.282 Sum_probs=11.5
Q ss_pred hHHHHHHHHHHHHHhhc
Q 040879 4 LKFWACLALLLMTISRF 20 (83)
Q Consensus 4 l~~~lc~iLlll~~s~~ 20 (83)
|..++.+|||.++|-+|
T Consensus 31 LivLVIIiLlImlfqsS 47 (85)
T PF10717_consen 31 LIVLVIIILLIMLFQSS 47 (85)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 45677778887877443
No 7
>KOG4761 consensus Proteasome formation inhibitor PI31 [Posttranslational modification, protein turnover, chaperones]
Probab=42.08 E-value=18 Score=28.19 Aligned_cols=16 Identities=38% Similarity=0.781 Sum_probs=14.5
Q ss_pred CCCCcccCCCCCCCCC
Q 040879 67 YYDSERVSPGGPDPKH 82 (83)
Q Consensus 67 ~~~skRlSPGGPDPqH 82 (83)
.+..-+.||+||+|-|
T Consensus 240 P~gP~g~~~~gpnpdh 255 (266)
T KOG4761|consen 240 PFGPIGTSPPGPNPDH 255 (266)
T ss_pred CCCCCCCCCCCCCccc
Confidence 6788999999999988
No 8
>PF10868 DUF2667: Protein of unknown function (DUF2667); InterPro: IPR022618 This family of proteins with unknown function appears to be restricted to Arabidopsis thaliana.
Probab=36.06 E-value=8.6 Score=25.45 Aligned_cols=12 Identities=42% Similarity=0.492 Sum_probs=6.8
Q ss_pred CCchHHHHHHHH
Q 040879 1 MASLKFWACLAL 12 (83)
Q Consensus 1 MA~l~~~lc~iL 12 (83)
|++||+-.++||
T Consensus 1 m~slk~st~~il 12 (90)
T PF10868_consen 1 MGSLKLSTFVIL 12 (90)
T ss_pred CCceEEEeeehh
Confidence 777765444443
No 9
>PF04648 MF_alpha: Yeast mating factor alpha hormone; InterPro: IPR006742 This repeated sequence,WHWLQLKPGQPMY, characterises the mating factor alpha-1 or alpha-1 mating pheromone [contains: Mating factor alpha].The hormone is excreted into the culture medium by haploid cells of the alpha mating type and acts on cells of the opposite mating type (type A) by binding to a cognate G-protein coupled receptor which is coupled to a downstream signal transduction pathway. It inhibits DNA synthesis in type A cells synchronising them with type alpha, and so mediates the conjugation process.; GO: 0000772 mating pheromone activity, 0019953 sexual reproduction, 0005576 extracellular region
Probab=34.47 E-value=20 Score=16.01 Aligned_cols=8 Identities=63% Similarity=1.111 Sum_probs=6.1
Q ss_pred cccCCCCC
Q 040879 71 ERVSPGGP 78 (83)
Q Consensus 71 kRlSPGGP 78 (83)
.|+|||-|
T Consensus 4 L~~~~GqP 11 (13)
T PF04648_consen 4 LRLSPGQP 11 (13)
T ss_pred eeccCCCc
Confidence 47888877
No 10
>PRK08457 motB flagellar motor protein MotB; Reviewed
Probab=31.29 E-value=43 Score=25.05 Aligned_cols=15 Identities=27% Similarity=0.312 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHhh
Q 040879 5 KFWACLALLLMTISR 19 (83)
Q Consensus 5 ~~~lc~iLlll~~s~ 19 (83)
.++|||+++|.++|.
T Consensus 25 TLLL~FFVlL~smS~ 39 (257)
T PRK08457 25 SLLLALFIALYAISA 39 (257)
T ss_pred HHHHHHHHHHHHHHh
Confidence 567777776666654
No 11
>PF11247 DUF2675: Protein of unknown function (DUF2675) ; InterPro: IPR022611 Members in this family of proteins include Bacteriophage T7 gene 5.5; they have no known function.
Probab=30.90 E-value=77 Score=21.27 Aligned_cols=10 Identities=30% Similarity=0.308 Sum_probs=8.2
Q ss_pred CCCCcccCCC
Q 040879 67 YYDSERVSPG 76 (83)
Q Consensus 67 ~~~skRlSPG 76 (83)
..++.|+||+
T Consensus 83 ~k~~~~~sPa 92 (98)
T PF11247_consen 83 DKESFKFSPA 92 (98)
T ss_pred cccceeecCc
Confidence 5678999996
No 12
>PRK06742 flagellar motor protein MotS; Reviewed
Probab=30.68 E-value=43 Score=24.54 Aligned_cols=15 Identities=20% Similarity=0.317 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHhh
Q 040879 5 KFWACLALLLMTISR 19 (83)
Q Consensus 5 ~~~lc~iLlll~~s~ 19 (83)
.+++||+++|.++|.
T Consensus 21 TLLL~FFVlL~s~S~ 35 (225)
T PRK06742 21 MLLLTFFVLLVATSK 35 (225)
T ss_pred HHHHHHHHHHHHHhh
Confidence 567777776666664
No 13
>PF04202 Mfp-3: Foot protein 3; InterPro: IPR007328 Mytilus foot protein-3 (Mfp-3) is a highly polymorphic protein family located in the byssal adhesive plaques of blue mussels.
Probab=30.13 E-value=45 Score=21.22 Aligned_cols=22 Identities=27% Similarity=0.452 Sum_probs=12.0
Q ss_pred CCchHHHHHHHHHHH-HHh-hccC
Q 040879 1 MASLKFWACLALLLM-TIS-RFES 22 (83)
Q Consensus 1 MA~l~~~lc~iLlll-~~s-~~e~ 22 (83)
|-++++.+.+.|+|+ +|+ .|++
T Consensus 1 mnn~Si~VLlaLvLIg~fAVqSda 24 (71)
T PF04202_consen 1 MNNLSIAVLLALVLIGSFAVQSDA 24 (71)
T ss_pred CCchhHHHHHHHHHHhhheeeecC
Confidence 666666666555554 443 3554
No 14
>PRK06667 motB flagellar motor protein MotB; Validated
Probab=30.10 E-value=44 Score=24.75 Aligned_cols=15 Identities=20% Similarity=0.536 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHhh
Q 040879 5 KFWACLALLLMTISR 19 (83)
Q Consensus 5 ~~~lc~iLlll~~s~ 19 (83)
.+++||+++|.++|.
T Consensus 27 TLLL~FFVlL~smS~ 41 (252)
T PRK06667 27 TLLLCFFVMLFTTND 41 (252)
T ss_pred HHHHHHHHHHHHhhh
Confidence 466776666666554
No 15
>PF13677 MotB_plug: Membrane MotB of proton-channel complex MotA/MotB
Probab=29.87 E-value=62 Score=19.07 Aligned_cols=16 Identities=19% Similarity=0.374 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHhhc
Q 040879 5 KFWACLALLLMTISRF 20 (83)
Q Consensus 5 ~~~lc~iLlll~~s~~ 20 (83)
.+++|+.+++.++|..
T Consensus 26 TLLl~fFVlL~s~s~~ 41 (58)
T PF13677_consen 26 TLLLAFFVLLFSMSSV 41 (58)
T ss_pred HHHHHHHHHHHHHHhC
Confidence 3556666655555543
No 16
>PF15468 DUF4636: Domain of unknown function (DUF4636)
Probab=29.07 E-value=43 Score=25.77 Aligned_cols=19 Identities=37% Similarity=0.602 Sum_probs=11.4
Q ss_pred CchHHHHHH-HHHHHHHhhc
Q 040879 2 ASLKFWACL-ALLLMTISRF 20 (83)
Q Consensus 2 A~l~~~lc~-iLlll~~s~~ 20 (83)
.++=||-|+ ||+|++|+++
T Consensus 39 G~fLlWyfviilvLm~~~ra 58 (243)
T PF15468_consen 39 GSFLLWYFVIILVLMFFSRA 58 (243)
T ss_pred hhHHHHHHHHHHHHHHHHHH
Confidence 355677774 4555677653
No 17
>PF05612 DUF781: Mouse protein of unknown function (DUF781); InterPro: IPR008499 This family consists of uncharacterised proteins found in Mus musculus (mouse), man, zebra fish and other eukaryotes.
Probab=28.16 E-value=44 Score=26.98 Aligned_cols=21 Identities=33% Similarity=0.433 Sum_probs=17.3
Q ss_pred CCchHHHHHHHHHHHHHhhcc
Q 040879 1 MASLKFWACLALLLMTISRFE 21 (83)
Q Consensus 1 MA~l~~~lc~iLlll~~s~~e 21 (83)
||-+..|+|+++.+++++.++
T Consensus 1 m~~~~~~~~vl~~~~~~~~a~ 21 (356)
T PF05612_consen 1 MAFLPSWACVLVGCFSASLAV 21 (356)
T ss_pred CCccHhHHHHHHHHhhHhHHh
Confidence 899999999999888666543
No 18
>PF07265 TAP35_44: Tapetum specific protein TAP35/TAP44; InterPro: IPR009891 This family consists of several plant tapetum specific proteins. Members of this family are found in Arabidopsis thaliana, Brassica napus and Sinapis alba. Members of this family may be involved in sporopollenin formation and/or deposition [].
Probab=27.90 E-value=51 Score=22.74 Aligned_cols=14 Identities=29% Similarity=0.356 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHhhc
Q 040879 7 WACLALLLMTISRF 20 (83)
Q Consensus 7 ~lc~iLlll~~s~~ 20 (83)
++|++|+.++|-.+
T Consensus 9 slcLlll~~ff~sS 22 (119)
T PF07265_consen 9 SLCLLLLVVFFLSS 22 (119)
T ss_pred HHHHHHHHHHHHcC
Confidence 67777766555443
No 19
>PRK07734 motB flagellar motor protein MotB; Reviewed
Probab=26.27 E-value=57 Score=24.24 Aligned_cols=15 Identities=20% Similarity=0.394 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHhh
Q 040879 5 KFWACLALLLMTISR 19 (83)
Q Consensus 5 ~~~lc~iLlll~~s~ 19 (83)
.+++||++||.++|.
T Consensus 28 TlLlaFFvlL~s~s~ 42 (259)
T PRK07734 28 TLLLALFIVLFAMSS 42 (259)
T ss_pred HHHHHHHHHHHHHhh
Confidence 456666666665553
No 20
>TIGR03044 PS_II_psb27 photosystem II protein Psb27. Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single model families, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences, from Arabidopsis, score between trusted and noise cutoffs for this model but are not at this time assigned as functionally equivalent photosystem II proteins.
Probab=25.18 E-value=91 Score=22.03 Aligned_cols=26 Identities=27% Similarity=0.279 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHhhccCCCCCCCcc
Q 040879 5 KFWACLALLLMTISRFESRPLENNYP 30 (83)
Q Consensus 5 ~~~lc~iLlll~~s~~e~R~L~~~~~ 30 (83)
.++++++|+|..++.+..-.|...|.
T Consensus 13 al~L~~~l~l~~c~~~~~~~Ltg~Y~ 38 (135)
T TIGR03044 13 ALVLGLCLLLTACSGAAKTRLTGDYV 38 (135)
T ss_pred HHHHHHHHHHhcccCCCcccccchHH
Confidence 44444444444333223344655554
No 21
>KOG3782 consensus Predicted membrane protein, contains type II SA sequence [General function prediction only]
Probab=24.65 E-value=2e+02 Score=21.42 Aligned_cols=12 Identities=42% Similarity=0.520 Sum_probs=10.1
Q ss_pred CCCCCcccCCCC
Q 040879 66 IYYDSERVSPGG 77 (83)
Q Consensus 66 ~~~~skRlSPGG 77 (83)
.+-++.|++|-|
T Consensus 50 i~vgsFR~~p~G 61 (189)
T KOG3782|consen 50 IDVGSFRLDPQG 61 (189)
T ss_pred eeecceEECCCC
Confidence 367899999988
No 22
>PF11912 DUF3430: Protein of unknown function (DUF3430); InterPro: IPR021837 This family of proteins are functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 209 to 265 amino acids in length.
Probab=24.52 E-value=57 Score=22.69 Aligned_cols=14 Identities=36% Similarity=0.622 Sum_probs=6.6
Q ss_pred hHHHHHHHHHHHHH
Q 040879 4 LKFWACLALLLMTI 17 (83)
Q Consensus 4 l~~~lc~iLlll~~ 17 (83)
+|+++.+|||++++
T Consensus 1 MKll~~lilli~~~ 14 (212)
T PF11912_consen 1 MKLLISLILLILLI 14 (212)
T ss_pred CcHHHHHHHHHHHH
Confidence 35655544444433
No 23
>TIGR01614 PME_inhib pectinesterase inhibitor domain. This model describes a plant domain of about 200 amino acids, characterized by four conserved Cys residues, shown in a pectinesterase inhibitor from Kiwi to form two disulfide bonds: first to second and third to fourth. Roughly half the members of this family have the region described by this model followed immediately by a pectinesterase domain, pfam01095. This suggests that the pairing of the enzymatic domain and its inhibitor reflects a conserved regulatory mechanism for this enzyme family.
Probab=24.37 E-value=56 Score=22.04 Aligned_cols=20 Identities=30% Similarity=0.165 Sum_probs=8.9
Q ss_pred CCchHHHHHHHHHHHHHhhc
Q 040879 1 MASLKFWACLALLLMTISRF 20 (83)
Q Consensus 1 MA~l~~~lc~iLlll~~s~~ 20 (83)
|++.-..++++++++.+..+
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~ 20 (178)
T TIGR01614 1 MASSLSLLLFLLLLSLVATS 20 (178)
T ss_pred CchhHHHHHHHHHHcccccc
Confidence 55444444444444444333
No 24
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=23.82 E-value=74 Score=22.47 Aligned_cols=16 Identities=19% Similarity=0.125 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHhhcc
Q 040879 5 KFWACLALLLMTISRFE 21 (83)
Q Consensus 5 ~~~lc~iLlll~~s~~e 21 (83)
.+++|+++.+ ++|++.
T Consensus 6 s~~Lv~~~~~-Lvsc~~ 21 (142)
T TIGR03042 6 SLLLVLLLTF-LVSCSG 21 (142)
T ss_pred HHHHHHHHHH-HHHcCC
Confidence 5666665544 555543
No 25
>PRK09038 flagellar motor protein MotD; Reviewed
Probab=23.79 E-value=66 Score=24.38 Aligned_cols=15 Identities=13% Similarity=0.270 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHhh
Q 040879 5 KFWACLALLLMTISR 19 (83)
Q Consensus 5 ~~~lc~iLlll~~s~ 19 (83)
.+++||++||.++|.
T Consensus 26 TLLlaFFVlL~smS~ 40 (281)
T PRK09038 26 TLLFAFFVVMYAISS 40 (281)
T ss_pred HHHHHHHHHHHHHhc
Confidence 456666666665553
No 26
>PRK06925 flagellar motor protein MotS; Reviewed
Probab=23.78 E-value=65 Score=23.51 Aligned_cols=15 Identities=20% Similarity=0.421 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHhh
Q 040879 5 KFWACLALLLMTISR 19 (83)
Q Consensus 5 ~~~lc~iLlll~~s~ 19 (83)
.+++||+++|.++|.
T Consensus 24 TlLlafFvlL~s~s~ 38 (230)
T PRK06925 24 TLILVFFILLFSMSQ 38 (230)
T ss_pred HHHHHHHHHHHHhhc
Confidence 466676666666554
No 27
>PHA02099 hypothetical protein
Probab=22.83 E-value=39 Score=21.89 Aligned_cols=10 Identities=40% Similarity=0.827 Sum_probs=7.9
Q ss_pred CCcccCCCCC
Q 040879 69 DSERVSPGGP 78 (83)
Q Consensus 69 ~skRlSPGGP 78 (83)
.-.|+||||-
T Consensus 24 n~~rv~pg~~ 33 (84)
T PHA02099 24 NAGRVGPGES 33 (84)
T ss_pred ccCccCCCCc
Confidence 4579999984
No 28
>PF05438 TRH: Thyrotropin-releasing hormone (TRH); InterPro: IPR008857 This family consists of several thyrotropin-releasing hormone (TRH) proteins. Thyrotropin-Releasing Hormone (TRH; pyroGlu-His-Pro-NH2), originally isolated as a hypothalamic neuropeptide hormone, most likely acts also as a neuromodulator and/or neurotransmitter in the central nervous system (CNS). This interpretation is supported by the identification of a peptidase localised on the surface of neuronal cells which has been termed TRH-degrading ectoenzyme (TRH-DE) since it selectively inactivates TRH. TRH has been used clinically for the treatment of spinocerebellar degeneration and disturbance of consciousness in humans [].; GO: 0005184 neuropeptide hormone activity, 0009755 hormone-mediated signaling pathway, 0005576 extracellular region
Probab=22.54 E-value=3.1e+02 Score=20.84 Aligned_cols=7 Identities=57% Similarity=0.980 Sum_probs=4.4
Q ss_pred CcccCCC
Q 040879 70 SERVSPG 76 (83)
Q Consensus 70 skRlSPG 76 (83)
+||-+||
T Consensus 72 sKRQHPG 78 (212)
T PF05438_consen 72 SKRQHPG 78 (212)
T ss_pred hhccCCC
Confidence 5666666
No 29
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=22.11 E-value=77 Score=21.81 Aligned_cols=18 Identities=33% Similarity=0.263 Sum_probs=12.0
Q ss_pred hHHHHHHHHHHHHHhhcc
Q 040879 4 LKFWACLALLLMTISRFE 21 (83)
Q Consensus 4 l~~~lc~iLlll~~s~~e 21 (83)
+.|.+|+++++++.+++.
T Consensus 2 ~~~~~~~~~~~~~~~~~~ 19 (235)
T TIGR03302 2 LLLILLLALLLLLAGCSS 19 (235)
T ss_pred chHHHHHHHHHHHhhccC
Confidence 467778777766666654
No 30
>PF10258 RNA_GG_bind: PHAX RNA-binding domain; InterPro: IPR019385 The phosphorylated adaptor for RNA export (PHAX) protein transports U3 snoRNA from the nucleus after transcription []. This entry represents the highly conserved U3 snoRNA-binding domain of PHAX, which is characterised by having two pairs of adjacent glycines with the sequence motif GGx12GG.; PDB: 2XC7_A 2W4S_B.
Probab=21.67 E-value=92 Score=20.08 Aligned_cols=11 Identities=45% Similarity=0.688 Sum_probs=8.1
Q ss_pred CCCCcccCCCC
Q 040879 67 YYDSERVSPGG 77 (83)
Q Consensus 67 ~~~skRlSPGG 77 (83)
.+++-|-+|||
T Consensus 49 ~dG~RrRTpGG 59 (87)
T PF10258_consen 49 ADGSRRRTPGG 59 (87)
T ss_dssp TTSSCE-SHHH
T ss_pred ecCccCcCCCc
Confidence 56678899998
No 31
>PF15240 Pro-rich: Proline-rich
Probab=21.53 E-value=73 Score=23.45 Aligned_cols=14 Identities=21% Similarity=0.380 Sum_probs=6.5
Q ss_pred HHHHHHHHHHhhcc
Q 040879 8 ACLALLLMTISRFE 21 (83)
Q Consensus 8 lc~iLlll~~s~~e 21 (83)
|.|.+.||++|+++
T Consensus 4 VLLSvALLALSSAQ 17 (179)
T PF15240_consen 4 VLLSVALLALSSAQ 17 (179)
T ss_pred HHHHHHHHHhhhcc
Confidence 33334445555544
No 32
>PRK09041 motB flagellar motor protein MotB; Validated
Probab=21.22 E-value=78 Score=24.72 Aligned_cols=15 Identities=13% Similarity=0.166 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHhh
Q 040879 5 KFWACLALLLMTISR 19 (83)
Q Consensus 5 ~~~lc~iLlll~~s~ 19 (83)
.+++||++||.++|.
T Consensus 35 TLLLaFFVlL~smS~ 49 (317)
T PRK09041 35 TAMMAFFLVMWLLSS 49 (317)
T ss_pred HHHHHHHHHHHHHhc
Confidence 466777766666553
No 33
>PF04272 Phospholamban: Phospholamban; InterPro: IPR005984 Phospholamban (PLB) is a small protein (52 amino acids) that regulates the affinity of the cardiac sarcoplasmic reticulum Ca2+-ATPase (SERCA2a) for calcium. PLB is present in cardiac myocytes, in slow-twitch and smooth muscle and is expressed also in aorta endothelial cells in which it could play a role in tissue relaxation. The phosphorylation/dephosphorylation of phospholamban removes and restores, respectively, its inhibitory activity on SERCA2a. It has in fact been shown that phospholamban, in its non-phosphorylated form, binds to SERCA2a and inhibits this pump by lowering its affinity for Ca2+, whereas the phosphorylated form does not exert the inhibition. PLB is phosphorylated at two sites, namely at Ser-16 for a cAMP-dependent phosphokinase and at Thr-17 for a Ca2+/calmodulin-dependent phosphokinase, phosphorylation at Ser-16 being a prerequisite for the phosphorylation at Thr-17. The structure of a 36-amino-acid-long N-terminal fragment of human phospholamban phosphorylated at Ser-16 and Thr-17 and Cys36Ser mutated was determined from nuclear magnetic resonance data. The peptide assumes a conformation characterised by two alpha-helices connected by an irregular strand, which comprises the amino acids from Arg-13 to Pro-21. The proline is in a trans conformation. The two phosphate groups on Ser-16 and Thr-17 are shown to interact preferably with the side chains of Arg-14 and Arg-13, respectively [].; GO: 0005246 calcium channel regulator activity, 0042030 ATPase inhibitor activity, 0006816 calcium ion transport, 0016020 membrane; PDB: 1N7L_A 1FJP_A 1FJK_A 2HYN_C 1ZLL_D 1PLP_A 3O7L_I.
Probab=20.59 E-value=82 Score=18.76 Aligned_cols=8 Identities=38% Similarity=0.853 Sum_probs=4.0
Q ss_pred HHHHHHHH
Q 040879 8 ACLALLLM 15 (83)
Q Consensus 8 lc~iLlll 15 (83)
+|+||+++
T Consensus 35 fclilicl 42 (52)
T PF04272_consen 35 FCLILICL 42 (52)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 45555444
Done!