Query psy14771
Match_columns 64
No_of_seqs 102 out of 104
Neff 3.3
Searched_HMMs 46136
Date Fri Aug 16 20:12:27 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14771.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14771hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3886|consensus 99.8 2.3E-22 4.9E-27 150.1 -1.8 58 1-58 195-252 (295)
2 PF04670 Gtr1_RagA: Gtr1/RagA 99.3 1.2E-12 2.5E-17 93.3 2.7 38 1-38 193-232 (232)
3 PTZ00167 RNA polymerase subuni 39.6 9.5 0.00021 26.5 -0.1 27 2-37 2-28 (144)
4 cd01452 VWA_26S_proteasome_sub 37.2 49 0.0011 23.1 3.2 30 12-41 5-36 (187)
5 PF00724 Oxidored_FMN: NADH:fl 37.0 31 0.00067 25.4 2.3 28 31-58 141-169 (341)
6 cd07630 BAR_SNX_like The Bin/A 34.9 26 0.00057 24.6 1.6 13 28-40 145-157 (198)
7 cd07663 BAR_SNX5 The Bin/Amphi 34.3 27 0.00058 25.4 1.6 13 28-40 163-175 (218)
8 cd01453 vWA_transcription_fact 30.2 79 0.0017 21.1 3.2 33 11-43 4-38 (183)
9 PF10972 DUF2803: Protein of u 29.1 33 0.00072 24.1 1.3 10 4-13 24-33 (213)
10 KOG0458|consensus 28.3 63 0.0014 27.2 2.9 32 25-56 329-361 (603)
11 cd07662 BAR_SNX6 The Bin/Amphi 28.2 39 0.00084 24.8 1.6 13 28-40 163-175 (218)
12 KOG1908|consensus 27.8 43 0.00093 23.9 1.7 24 27-50 70-93 (165)
13 KOG1464|consensus 27.8 44 0.00095 26.9 1.9 22 27-48 157-178 (440)
14 COG5256 TEF1 Translation elong 27.4 69 0.0015 25.9 2.9 30 26-55 160-189 (428)
15 PLN02411 12-oxophytodienoate r 27.0 59 0.0013 24.8 2.4 27 32-58 158-185 (391)
16 cd02929 TMADH_HD_FMN Trimethyl 26.4 64 0.0014 24.2 2.5 28 31-58 142-170 (370)
17 PF08734 GYD: GYD domain; Int 26.1 80 0.0017 19.4 2.5 39 14-59 1-43 (91)
18 cd04735 OYE_like_4_FMN Old yel 25.6 66 0.0014 23.8 2.4 29 31-59 136-165 (353)
19 cd03070 PDI_b_ERp44 PDIb famil 25.2 85 0.0018 19.8 2.5 30 11-40 15-44 (91)
20 PRK10605 N-ethylmaleimide redu 25.0 68 0.0015 24.1 2.4 28 31-58 151-179 (362)
21 PRK13523 NADPH dehydrogenase N 24.8 70 0.0015 23.9 2.4 30 29-58 132-162 (337)
22 PF12535 Nudix_N: Hydrolase of 24.6 36 0.00078 19.9 0.7 18 27-44 27-44 (58)
23 cd07621 BAR_SNX5_6 The Bin/Amp 23.3 55 0.0012 23.7 1.6 13 28-40 164-176 (219)
24 PF13170 DUF4003: Protein of u 23.2 67 0.0014 23.8 2.0 17 24-40 31-47 (297)
25 cd04747 OYE_like_5_FMN Old yel 21.9 85 0.0018 23.9 2.4 29 31-59 136-165 (361)
26 cd02930 DCR_FMN 2,4-dienoyl-Co 21.7 87 0.0019 23.1 2.4 28 31-58 129-157 (353)
27 COG4112 Predicted phosphoester 21.3 57 0.0012 24.0 1.3 12 2-13 70-81 (203)
28 PRK03057 hypothetical protein; 20.9 74 0.0016 22.5 1.8 19 25-43 159-177 (180)
29 PF02762 Cbl_N3: CBL proto-onc 20.5 20 0.00043 23.3 -1.0 9 41-49 30-38 (86)
30 cd02931 ER_like_FMN Enoate red 20.5 93 0.002 23.5 2.4 29 31-59 142-171 (382)
No 1
>KOG3886|consensus
Probab=99.83 E-value=2.3e-22 Score=150.14 Aligned_cols=58 Identities=62% Similarity=0.749 Sum_probs=55.3
Q ss_pred CCceEEEEEeceeeEEEEecccCCCCCCchHHHHHHHHHHHHHhhccCcCcceeEEEE
Q psy14771 1 MDGDEVLLFERATFLVISHCQRKEHRDIHRFEKISNIIKQFKLSSKWLPRFIQWKYAT 58 (64)
Q Consensus 1 ~~A~EVvLFErtTFLVIs~~~~~~~~d~~RFEkISnIiK~FKlScsk~~~~f~~~~~~ 58 (64)
++|+|||||||+|||||||.+..+++|.|||||||||+||||+||+|++++|++++..
T Consensus 195 ~ea~eviLfEr~tflvI~~~q~~~~~~~hrfekisnI~kqfk~sctk~~~~f~s~~~~ 252 (295)
T KOG3886|consen 195 LEALEVILFERATFLVISHYQIKEMRDAHRFEKISNIIKQFKLSCTKLNADFDSMEVR 252 (295)
T ss_pred HhHHHHHHHHhhhheeeehhhhhccccccccccHHHHHHHhhcceeecccccchhhee
Confidence 4799999999999999999999999999999999999999999999999999998753
No 2
>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1. RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.
Probab=99.30 E-value=1.2e-12 Score=93.26 Aligned_cols=38 Identities=53% Similarity=0.828 Sum_probs=28.7
Q ss_pred CCceEEEEEeceeeEEEEecccCCC--CCCchHHHHHHHH
Q psy14771 1 MDGDEVLLFERATFLVISHCQRKEH--RDIHRFEKISNII 38 (64)
Q Consensus 1 ~~A~EVvLFErtTFLVIs~~~~~~~--~d~~RFEkISnIi 38 (64)
|+|+||+||||+|||+||++++.+. .|++|||++||||
T Consensus 193 c~a~ev~LFd~~T~L~Ia~ds~~~~~~~~~~~fE~~S~ii 232 (232)
T PF04670_consen 193 CNADEVFLFDRSTFLYIATDSRSPVDERDMQRFEKCSDII 232 (232)
T ss_dssp CTEEEEEEEETTT--ECEE-S-S------HHHHHHHHHHH
T ss_pred cCCcEEEEEeeeeEEEEEeccCCCccccccccHHHHhhcC
Confidence 7999999999999999999996554 5799999999997
No 3
>PTZ00167 RNA polymerase subunit 8c; Provisional
Probab=39.60 E-value=9.5 Score=26.46 Aligned_cols=27 Identities=41% Similarity=0.576 Sum_probs=18.1
Q ss_pred CceEEEEEeceeeEEEEecccCCCCCCchHHHHHHH
Q psy14771 2 DGDEVLLFERATFLVISHCQRKEHRDIHRFEKISNI 37 (64)
Q Consensus 2 ~A~EVvLFErtTFLVIs~~~~~~~~d~~RFEkISnI 37 (64)
.++.+ |||-. |-|.+ .||++|+|+|-|
T Consensus 2 ~~~~~-LfeD~-F~V~~-------iD~~gfdrVSRI 28 (144)
T PTZ00167 2 SLPSC-LFEDR-FVVRS-------VDNSKFERVSRI 28 (144)
T ss_pred CCCce-EEEee-EEEEe-------cCCCCCceEEEE
Confidence 34444 88854 66654 467789999865
No 4
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=37.21 E-value=49 Score=23.08 Aligned_cols=30 Identities=17% Similarity=0.307 Sum_probs=22.7
Q ss_pred eeeEEEEecccCCCC--CCchHHHHHHHHHHH
Q psy14771 12 ATFLVISHCQRKEHR--DIHRFEKISNIIKQF 41 (64)
Q Consensus 12 tTFLVIs~~~~~~~~--d~~RFEkISnIiK~F 41 (64)
+|.++|-.+.+-... .|.|++.....+..|
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~ 36 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQADAVNLI 36 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHH
Confidence 577787776664444 489999999998876
No 5
>PF00724 Oxidored_FMN: NADH:flavin oxidoreductase / NADH oxidase family; InterPro: IPR001155 The TIM-barrel fold is a closed barrel structure composed of an eight-fold repeat of beta-alpha units, where the eight parallel beta strands on the inside are covered by the eight alpha helices on the outside []. It is a widely distributed fold which has been found in many enzyme families that catalyse completely unrelated reactions []. The active site is always found at the C-terminal end of this domain. Proteins in this entry are a variety of NADH:flavin oxidoreductase/NADH oxidase enzymes, found mostly in bacteria or fungi, that contain a TIM-barrel fold. They commonly use FMN/FAD as cofactor and include: dimethylamine dehydrogenase trimethylamine dehydrogenase 12-oxophytodienoate reductase NADPH dehydrogenase NADH oxidase ; GO: 0010181 FMN binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3GKA_B 3P67_A 3F03_K 2ABA_A 1VYR_A 1GVO_A 3KFT_B 3P8I_A 1GVQ_A 3P74_A ....
Probab=36.97 E-value=31 Score=25.39 Aligned_cols=28 Identities=18% Similarity=0.113 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHhhccC-cCcceeEEEE
Q psy14771 31 FEKISNIIKQFKLSSKWL-PRFIQWKYAT 58 (64)
Q Consensus 31 FEkISnIiK~FKlScsk~-~~~f~~~~~~ 58 (64)
-|.|..|+++|..++.+. .+.|.++++-
T Consensus 141 ~~eI~~ii~~f~~AA~~A~~AGfDGVEIH 169 (341)
T PF00724_consen 141 EEEIEEIIEDFAQAARRAKEAGFDGVEIH 169 (341)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT-SEEEEE
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCeEeec
Confidence 688999999999999885 8999999975
No 6
>cd07630 BAR_SNX_like The Bin/Amphiphysin/Rvs (BAR) domain of uncharacterized Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of uncharacterized proteins with similarity to sorting nexins (SNXs), which 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. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=34.90 E-value=26 Score=24.58 Aligned_cols=13 Identities=38% Similarity=0.590 Sum_probs=11.3
Q ss_pred CchHHHHHHHHHH
Q psy14771 28 IHRFEKISNIIKQ 40 (64)
Q Consensus 28 ~~RFEkISnIiK~ 40 (64)
..+||+||+.||+
T Consensus 145 ~~~fe~iS~~~k~ 157 (198)
T cd07630 145 ETEFEEISSLAKK 157 (198)
T ss_pred HHHHHHHHHHHHH
Confidence 4699999999985
No 7
>cd07663 BAR_SNX5 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 5. 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. SNX5, abundantly expressed in macrophages, regulates macropinocytosis, a process that enables cells to internalize large amounts of external solutes. It may also be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It
Probab=34.34 E-value=27 Score=25.42 Aligned_cols=13 Identities=46% Similarity=0.662 Sum_probs=11.3
Q ss_pred CchHHHHHHHHHH
Q psy14771 28 IHRFEKISNIIKQ 40 (64)
Q Consensus 28 ~~RFEkISnIiK~ 40 (64)
.++||+||..+|.
T Consensus 163 ~~~Fe~IS~~~k~ 175 (218)
T cd07663 163 CQKFEKLSESAKQ 175 (218)
T ss_pred HHHHHHHHHHHHH
Confidence 5799999999874
No 8
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=30.23 E-value=79 Score=21.11 Aligned_cols=33 Identities=18% Similarity=0.308 Sum_probs=24.4
Q ss_pred ceeeEEEEecccCCCC--CCchHHHHHHHHHHHHH
Q psy14771 11 RATFLVISHCQRKEHR--DIHRFEKISNIIKQFKL 43 (64)
Q Consensus 11 rtTFLVIs~~~~~~~~--d~~RFEkISnIiK~FKl 43 (64)
|...++|-.+.+-... .|.|+|+....+..|=.
T Consensus 4 r~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~ 38 (183)
T cd01453 4 RHLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIE 38 (183)
T ss_pred eEEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHH
Confidence 5667788777765433 48999999998877754
No 9
>PF10972 DUF2803: Protein of unknown function (DUF2803); InterPro: IPR021241 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=29.15 E-value=33 Score=24.09 Aligned_cols=10 Identities=50% Similarity=0.823 Sum_probs=8.7
Q ss_pred eEEEEEecee
Q psy14771 4 DEVLLFERAT 13 (64)
Q Consensus 4 ~EVvLFErtT 13 (64)
-|||+|||..
T Consensus 24 VEviiF~r~~ 33 (213)
T PF10972_consen 24 VEVIIFERNV 33 (213)
T ss_pred EEEEEEEecC
Confidence 3899999987
No 10
>KOG0458|consensus
Probab=28.30 E-value=63 Score=27.21 Aligned_cols=32 Identities=22% Similarity=0.282 Sum_probs=25.9
Q ss_pred CCCCchHHHHHHHHHHHH-HhhccCcCcceeEE
Q psy14771 25 HRDIHRFEKISNIIKQFK-LSSKWLPRFIQWKY 56 (64)
Q Consensus 25 ~~d~~RFEkISnIiK~FK-lScsk~~~~f~~~~ 56 (64)
.+|.+|||.|-|.+..|= .+|.-..++++.+-
T Consensus 329 ~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIP 361 (603)
T KOG0458|consen 329 SWSQDRFEEIKNKLSSFLKESCGFKESSVKFIP 361 (603)
T ss_pred CccHHHHHHHHHHHHHHHHHhcCcccCCcceEe
Confidence 468999999999999997 89977777665543
No 11
>cd07662 BAR_SNX6 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 6. 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. SNX6 forms a stable complex with SNX1 and may be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It interacts with the receptor serine/threonine kinases from the transforming growth factor-beta family. It also plays
Probab=28.23 E-value=39 Score=24.80 Aligned_cols=13 Identities=54% Similarity=0.693 Sum_probs=11.0
Q ss_pred CchHHHHHHHHHH
Q psy14771 28 IHRFEKISNIIKQ 40 (64)
Q Consensus 28 ~~RFEkISnIiK~ 40 (64)
.++||+||..+|.
T Consensus 163 ~~~Fe~IS~~aK~ 175 (218)
T cd07662 163 CQKFEKISESAKQ 175 (218)
T ss_pred HHHHHHHHHHHHH
Confidence 4699999999874
No 12
>KOG1908|consensus
Probab=27.80 E-value=43 Score=23.91 Aligned_cols=24 Identities=25% Similarity=0.260 Sum_probs=21.2
Q ss_pred CCchHHHHHHHHHHHHHhhccCcC
Q psy14771 27 DIHRFEKISNIIKQFKLSSKWLPR 50 (64)
Q Consensus 27 d~~RFEkISnIiK~FKlScsk~~~ 50 (64)
|.+|-=-.++||-.||..|.|.+.
T Consensus 70 dsqrvids~Eii~AYkeACQk~nC 93 (165)
T KOG1908|consen 70 DSQRVIDSDEIIGAYKEACQKLNC 93 (165)
T ss_pred cccccccHHHHHHHHHHHHHHccc
Confidence 677888899999999999999764
No 13
>KOG1464|consensus
Probab=27.80 E-value=44 Score=26.86 Aligned_cols=22 Identities=27% Similarity=0.373 Sum_probs=19.8
Q ss_pred CCchHHHHHHHHHHHHHhhccC
Q psy14771 27 DIHRFEKISNIIKQFKLSSKWL 48 (64)
Q Consensus 27 d~~RFEkISnIiK~FKlScsk~ 48 (64)
|.+-|.|+-.|+||.++||.+-
T Consensus 157 d~~e~~kl~KIlkqLh~SCq~e 178 (440)
T KOG1464|consen 157 DRGEYTKLQKILKQLHQSCQTE 178 (440)
T ss_pred eHHHHHHHHHHHHHHHHHhccc
Confidence 6788999999999999999764
No 14
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=27.43 E-value=69 Score=25.89 Aligned_cols=30 Identities=20% Similarity=0.321 Sum_probs=24.4
Q ss_pred CCCchHHHHHHHHHHHHHhhccCcCcceeE
Q psy14771 26 RDIHRFEKISNIIKQFKLSSKWLPRFIQWK 55 (64)
Q Consensus 26 ~d~~RFEkISnIiK~FKlScsk~~~~f~~~ 55 (64)
+|.+|||.|.+-+..++.+|-....+++-+
T Consensus 160 wde~rf~ei~~~v~~l~k~~G~~~~~v~FI 189 (428)
T COG5256 160 WDEERFEEIVSEVSKLLKMVGYNPKDVPFI 189 (428)
T ss_pred cCHHHHHHHHHHHHHHHHHcCCCccCCeEE
Confidence 689999999999999999998775554433
No 15
>PLN02411 12-oxophytodienoate reductase
Probab=27.00 E-value=59 Score=24.77 Aligned_cols=27 Identities=4% Similarity=0.028 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHhhccC-cCcceeEEEE
Q psy14771 32 EKISNIIKQFKLSSKWL-PRFIQWKYAT 58 (64)
Q Consensus 32 EkISnIiK~FKlScsk~-~~~f~~~~~~ 58 (64)
|.|..||++|..++.+. .+.|+++++-
T Consensus 158 ~eI~~ii~~f~~AA~rA~~AGFDGVEIH 185 (391)
T PLN02411 158 SEIPEVVEHYRQAALNAIRAGFDGIEIH 185 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEEc
Confidence 77999999999999885 6999999874
No 16
>cd02929 TMADH_HD_FMN Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a symetrical dimer with each subunit containing one 4Fe-4S cluster and one FMN cofactor. It contains a unique flavin, in the form of a 6-S-cysteinyl FMN which is bent by ~25 degrees along the N5-N10 axis of the flavin isoalloxazine ring. This modification of the conformation of the flavin is thought to facilitate catalysis.The closely related histamine dehydrogenase catalyzes oxidative deamination of histamine.
Probab=26.42 E-value=64 Score=24.25 Aligned_cols=28 Identities=7% Similarity=-0.002 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHhhccC-cCcceeEEEE
Q psy14771 31 FEKISNIIKQFKLSSKWL-PRFIQWKYAT 58 (64)
Q Consensus 31 FEkISnIiK~FKlScsk~-~~~f~~~~~~ 58 (64)
-|.|..|+++|..++.+. .+.|.++++.
T Consensus 142 ~~eI~~ii~~f~~AA~ra~~aGfDgVEih 170 (370)
T cd02929 142 KDDIKRVRRWYVDAALRARDAGFDIVYVY 170 (370)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCEEEEc
Confidence 478999999999998875 7899999875
No 17
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=26.09 E-value=80 Score=19.38 Aligned_cols=39 Identities=18% Similarity=0.306 Sum_probs=26.1
Q ss_pred eEEEEecccCC----CCCCchHHHHHHHHHHHHHhhccCcCcceeEEEEE
Q psy14771 14 FLVISHCQRKE----HRDIHRFEKISNIIKQFKLSSKWLPRFIQWKYATL 59 (64)
Q Consensus 14 FLVIs~~~~~~----~~d~~RFEkISnIiK~FKlScsk~~~~f~~~~~~~ 59 (64)
|++++.++..- ...++|-+.+...+++ .+..+.++|+|+
T Consensus 1 yi~l~~~T~~g~~~~~~~~~R~~a~~~~~e~-------~Gg~l~~~y~t~ 43 (91)
T PF08734_consen 1 YIILARYTPEGAKGIKDSPDRAEAVRALIEA-------LGGKLKSFYWTL 43 (91)
T ss_pred CEEEEEeCHHHHHHHhhcHHHHHHHHHHHHH-------cCCEEEEEEEec
Confidence 56677776431 1236777777777665 578888898886
No 18
>cd04735 OYE_like_4_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=25.60 E-value=66 Score=23.82 Aligned_cols=29 Identities=17% Similarity=0.079 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHhhccC-cCcceeEEEEE
Q psy14771 31 FEKISNIIKQFKLSSKWL-PRFIQWKYATL 59 (64)
Q Consensus 31 FEkISnIiK~FKlScsk~-~~~f~~~~~~~ 59 (64)
=|.|..|+++|-.++.+. .++|+++++..
T Consensus 136 ~~eI~~ii~~f~~aA~~a~~aGfDgVeih~ 165 (353)
T cd04735 136 HEEIEDIIDAFGEATRRAIEAGFDGVEIHG 165 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCEEEEcc
Confidence 478999999999999885 68999999753
No 19
>cd03070 PDI_b_ERp44 PDIb family, ERp44 subfamily, first redox inactive TRX-like domain b; ERp44 is an endoplasmic reticulum (ER)-resident protein, induced during stress, involved in thiol-mediated ER retention. It contains an N-terminal TRX domain with a CXFS motif followed by two redox inactive TRX-like domains, homologous to the b and b' domains of PDI. Through the formation of reversible mixed disulfides, ERp44 mediates the ER localization of Ero1alpha, a protein that oxidizes protein disulfide isomerases into their active form. ERp44 also prevents the secretion of unassembled cargo protein with unpaired cysteines. ERp44 also modulates the activity of inositol 1,4,5-triphosphate type I receptor (IP3R1), an intracellular channel protein that mediates calcium release from the ER to the cytosol. Similar to PDI, the b domain of ERp44 is likely involved in binding to substrates.
Probab=25.16 E-value=85 Score=19.84 Aligned_cols=30 Identities=23% Similarity=0.476 Sum_probs=24.7
Q ss_pred ceeeEEEEecccCCCCCCchHHHHHHHHHH
Q psy14771 11 RATFLVISHCQRKEHRDIHRFEKISNIIKQ 40 (64)
Q Consensus 11 rtTFLVIs~~~~~~~~d~~RFEkISnIiK~ 40 (64)
+..=.||+.-.+.++++.+=|+|+.+++|.
T Consensus 15 ~~kr~iIgYF~~~~~~eY~~f~kvA~~lr~ 44 (91)
T cd03070 15 RSKRNIIGYFESKDSDEYDNFRKVANILRD 44 (91)
T ss_pred cCCceEEEEEcCCCChhHHHHHHHHHHHhh
Confidence 344468999988888999999999999873
No 20
>PRK10605 N-ethylmaleimide reductase; Provisional
Probab=25.02 E-value=68 Score=24.15 Aligned_cols=28 Identities=14% Similarity=0.140 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHhhccC-cCcceeEEEE
Q psy14771 31 FEKISNIIKQFKLSSKWL-PRFIQWKYAT 58 (64)
Q Consensus 31 FEkISnIiK~FKlScsk~-~~~f~~~~~~ 58 (64)
-+.|-.|+++|-.++.+. ++.|.++++-
T Consensus 151 ~~eI~~ii~~f~~AA~rA~~AGfDGVEIh 179 (362)
T PRK10605 151 LEEIPGIVNDFRQAIANAREAGFDLVELH 179 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCEEEEc
Confidence 467999999999999875 7999999874
No 21
>PRK13523 NADPH dehydrogenase NamA; Provisional
Probab=24.78 E-value=70 Score=23.87 Aligned_cols=30 Identities=13% Similarity=-0.010 Sum_probs=25.2
Q ss_pred chHHHHHHHHHHHHHhhccC-cCcceeEEEE
Q psy14771 29 HRFEKISNIIKQFKLSSKWL-PRFIQWKYAT 58 (64)
Q Consensus 29 ~RFEkISnIiK~FKlScsk~-~~~f~~~~~~ 58 (64)
---|.|.+|+++|..++.+. .+.|+++++.
T Consensus 132 mt~eeI~~ii~~f~~aA~~a~~aGfDgVeih 162 (337)
T PRK13523 132 MTKEQIKETVLAFKQAAVRAKEAGFDVIEIH 162 (337)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHcCCCEEEEc
Confidence 44688999999999998775 6799999875
No 22
>PF12535 Nudix_N: Hydrolase of X-linked nucleoside diphosphate N terminal ; PDB: 3Q1P_B 3Q4I_B.
Probab=24.56 E-value=36 Score=19.93 Aligned_cols=18 Identities=22% Similarity=0.449 Sum_probs=13.8
Q ss_pred CCchHHHHHHHHHHHHHh
Q psy14771 27 DIHRFEKISNIIKQFKLS 44 (64)
Q Consensus 27 d~~RFEkISnIiK~FKlS 44 (64)
|..|||+|..|.-+.=..
T Consensus 27 D~ERy~~lr~ia~ella~ 44 (58)
T PF12535_consen 27 DRERYEELREIAAELLAE 44 (58)
T ss_dssp HHHHHHHHHHHHHHHHCC
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 679999999997665433
No 23
>cd07621 BAR_SNX5_6 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 5 and 6. 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. Members of this subfamily include SNX5, SNX6, the mammalian SNX32, and similar proteins. SNX5 and SNX6 may be components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. The function of SNX32 is still unknown. BAR domain
Probab=23.27 E-value=55 Score=23.70 Aligned_cols=13 Identities=38% Similarity=0.555 Sum_probs=11.1
Q ss_pred CchHHHHHHHHHH
Q psy14771 28 IHRFEKISNIIKQ 40 (64)
Q Consensus 28 ~~RFEkISnIiK~ 40 (64)
..+||+||..+|.
T Consensus 164 ~~~Fe~iS~~~k~ 176 (219)
T cd07621 164 CEKFESMSESAKQ 176 (219)
T ss_pred HHHHHHHHHHHHH
Confidence 4799999999874
No 24
>PF13170 DUF4003: Protein of unknown function (DUF4003)
Probab=23.22 E-value=67 Score=23.78 Aligned_cols=17 Identities=41% Similarity=0.624 Sum_probs=14.4
Q ss_pred CCCCCchHHHHHHHHHH
Q psy14771 24 EHRDIHRFEKISNIIKQ 40 (64)
Q Consensus 24 ~~~d~~RFEkISnIiK~ 40 (64)
...|..||+.++++||+
T Consensus 31 ~~~d~~~~~~~~~~IK~ 47 (297)
T PF13170_consen 31 KEFDAERFKEISKYIKK 47 (297)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 44688999999999997
No 25
>cd04747 OYE_like_5_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=21.92 E-value=85 Score=23.88 Aligned_cols=29 Identities=10% Similarity=-0.129 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHhhccC-cCcceeEEEEE
Q psy14771 31 FEKISNIIKQFKLSSKWL-PRFIQWKYATL 59 (64)
Q Consensus 31 FEkISnIiK~FKlScsk~-~~~f~~~~~~~ 59 (64)
-|.|-.|+++|..++.+. ++.|.++++..
T Consensus 136 ~~eI~~ii~~f~~AA~~a~~aGfDgVeih~ 165 (361)
T cd04747 136 EADIDDVIAAFARAAADARRLGFDGIELHG 165 (361)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCEEEEec
Confidence 467999999999988775 68999998753
No 26
>cd02930 DCR_FMN 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the flavin and iron-sulfur cofactors. Metabolism of unsaturated fatty acids requires auxiliary enzymes in addition to those used in b-oxidation. After a given number of cycles through the b-oxidation pathway, those unsaturated fatty acyl-CoAs with double bonds at even-numbered carbon positions contain 2-trans, 4-cis double bonds that can not be modified by enoyl-CoA hydratase. DCR utilizes NADPH to remove the C4-C5 double bond. DCR can catalyze the reduction of both natural fatty acids with cis double bonds, as well as substrates containing trans double bonds. The reaction is initiated by hybrid transfer from NADPH to FAD, which in turn transfers electrons, one at a time, to FMN via the 4Fe-4S cluster. The fully reduced FMN provi
Probab=21.69 E-value=87 Score=23.08 Aligned_cols=28 Identities=14% Similarity=-0.013 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHhhccC-cCcceeEEEE
Q psy14771 31 FEKISNIIKQFKLSSKWL-PRFIQWKYAT 58 (64)
Q Consensus 31 FEkISnIiK~FKlScsk~-~~~f~~~~~~ 58 (64)
-|.|..|+++|..++.+. .+.|+++++-
T Consensus 129 ~~eI~~i~~~f~~aA~~a~~aGfDgVeih 157 (353)
T cd02930 129 EEEIEQTIEDFARCAALAREAGYDGVEIM 157 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCEEEEe
Confidence 488999999999999884 7999999974
No 27
>COG4112 Predicted phosphoesterase (MutT family) [General function prediction only]
Probab=21.30 E-value=57 Score=24.03 Aligned_cols=12 Identities=67% Similarity=1.030 Sum_probs=9.9
Q ss_pred CceEEEEEecee
Q psy14771 2 DGDEVLLFERAT 13 (64)
Q Consensus 2 ~A~EVvLFErtT 13 (64)
+-|||+++||.|
T Consensus 70 ~edevliyeRlt 81 (203)
T COG4112 70 DEDEVLIYERLT 81 (203)
T ss_pred cCCEEEEEEecc
Confidence 467999999976
No 28
>PRK03057 hypothetical protein; Provisional
Probab=20.93 E-value=74 Score=22.51 Aligned_cols=19 Identities=16% Similarity=0.564 Sum_probs=16.7
Q ss_pred CCCCchHHHHHHHHHHHHH
Q psy14771 25 HRDIHRFEKISNIIKQFKL 43 (64)
Q Consensus 25 ~~d~~RFEkISnIiK~FKl 43 (64)
..|.+||-++|++++++|.
T Consensus 159 ~~D~e~F~~Lt~~L~~l~~ 177 (180)
T PRK03057 159 RKDMEEFQRLTEKLKKLEG 177 (180)
T ss_pred CCCHHHHHHHHHHHHHHHh
Confidence 4689999999999999954
No 29
>PF02762 Cbl_N3: CBL proto-oncogene N-terminus, SH2-like domain; InterPro: IPR014742 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the SH2-like domain.; PDB: 3PFV_A 3VGO_A 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B 3BUW_B ....
Probab=20.49 E-value=20 Score=23.32 Aligned_cols=9 Identities=44% Similarity=0.626 Sum_probs=7.6
Q ss_pred HHHhhccCc
Q psy14771 41 FKLSSKWLP 49 (64)
Q Consensus 41 FKlScsk~~ 49 (64)
|++||.|++
T Consensus 30 FRlSCTrLG 38 (86)
T PF02762_consen 30 FRLSCTRLG 38 (86)
T ss_dssp EEEESSSTT
T ss_pred Eeecccccc
Confidence 789999985
No 30
>cd02931 ER_like_FMN Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and methylketones. ERs are similar to 2,4-dienoyl-CoA reductase from E. coli and to the old yellow enzyme from Saccharomyces cerevisiae.
Probab=20.47 E-value=93 Score=23.47 Aligned_cols=29 Identities=10% Similarity=-0.026 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHhhccC-cCcceeEEEEE
Q psy14771 31 FEKISNIIKQFKLSSKWL-PRFIQWKYATL 59 (64)
Q Consensus 31 FEkISnIiK~FKlScsk~-~~~f~~~~~~~ 59 (64)
-|.|..|+++|..+..+. ++.|.++++-.
T Consensus 142 ~~eI~~ii~~f~~AA~ra~~AGfDgVEih~ 171 (382)
T cd02931 142 TEEVETFVGKFGESAVIAKEAGFDGVEIHA 171 (382)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCEEEEec
Confidence 367999999999998775 68999998753
Done!