Query 023096
Match_columns 287
No_of_seqs 14 out of 16
Neff 1.7
Searched_HMMs 46136
Date Fri Mar 29 08:24:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023096.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023096hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14575 EphA2_TM: Ephrin type 80.4 1.8 4E-05 32.8 2.9 8 155-162 55-62 (75)
2 PF05977 MFS_3: Transmembrane 55.2 50 0.0011 32.3 7.4 79 178-283 425-508 (524)
3 PF12669 P12: Virus attachment 43.5 24 0.00052 25.9 2.5 26 105-130 1-26 (58)
4 COG4391 Uncharacterized protei 41.5 25 0.00054 27.2 2.4 29 160-188 31-62 (62)
5 TIGR03141 cytochro_ccmD heme e 40.4 19 0.00041 24.9 1.5 40 105-144 5-44 (45)
6 COG2929 Uncharacterized protei 39.2 11 0.00024 30.8 0.3 18 246-264 5-22 (93)
7 PF05597 Phasin: Poly(hydroxya 39.1 18 0.00039 30.4 1.5 27 254-282 97-123 (132)
8 PF06874 FBPase_2: Firmicute f 38.2 22 0.00048 37.1 2.3 34 167-200 330-374 (640)
9 KOG3400 RNA polymerase subunit 37.6 16 0.00035 32.0 1.0 11 177-187 89-99 (143)
10 PRK14126 cell division protein 37.6 26 0.00057 27.1 2.1 18 171-188 5-22 (85)
11 PF14698 ASL_C2: Argininosucci 35.1 13 0.00027 27.7 -0.0 20 242-267 2-21 (70)
12 PF00280 potato_inhibit: Potat 34.4 14 0.00031 27.6 0.2 20 213-232 28-47 (63)
13 PF06390 NESP55: Neuroendocrin 33.3 11 0.00023 35.6 -0.8 22 201-224 2-23 (257)
14 PF01299 Lamp: Lysosome-associ 33.1 37 0.0008 30.6 2.6 25 108-133 277-301 (306)
15 KOG3591 Alpha crystallins [Pos 30.1 24 0.00051 30.6 0.8 12 221-232 122-133 (173)
16 PF11935 DUF3453: Domain of un 29.8 22 0.00048 31.3 0.6 15 230-244 92-106 (239)
17 PF15050 SCIMP: SCIMP protein 29.6 61 0.0013 28.2 3.2 42 104-158 6-48 (133)
18 cd08153 srpA_like Catalase-lik 29.2 79 0.0017 28.5 4.0 72 165-244 158-243 (295)
19 COG2975 Uncharacterized protei 28.5 27 0.00059 27.2 0.8 9 224-232 18-26 (64)
20 PF07225 NDUF_B4: NADH-ubiquin 27.7 71 0.0015 27.0 3.2 43 100-150 77-119 (125)
21 PF04995 CcmD: Heme exporter p 25.4 44 0.00096 23.1 1.4 40 106-145 5-44 (46)
22 PF13549 ATP-grasp_5: ATP-gras 23.9 32 0.00068 30.5 0.5 44 159-202 118-162 (222)
23 PF08492 SRP72: SRP72 RNA-bind 23.7 42 0.0009 25.3 1.0 13 224-236 39-51 (59)
24 KOG3647 Predicted coiled-coil 22.9 53 0.0012 32.0 1.8 19 265-283 144-162 (338)
25 PF06781 UPF0233: Uncharacteri 22.6 64 0.0014 25.9 1.9 21 102-122 65-85 (87)
26 PF13874 Nup54: Nucleoporin co 22.5 25 0.00055 28.8 -0.3 30 252-283 93-122 (141)
27 PF13908 Shisa: Wnt and FGF in 22.1 54 0.0012 27.3 1.5 25 100-124 74-98 (179)
28 PRK02251 putative septation in 21.3 74 0.0016 25.7 2.1 21 102-122 65-85 (87)
29 PF05867 DUF851: Protein of un 21.3 38 0.00082 31.8 0.5 35 225-267 92-126 (242)
30 PF03242 LEA_3: Late embryogen 20.8 51 0.0011 26.5 1.1 13 227-239 67-79 (93)
31 COG1006 MnhC Multisubunit Na+/ 20.3 1E+02 0.0023 25.7 2.8 32 88-125 68-99 (115)
32 PF11767 SET_assoc: Histone ly 20.3 50 0.0011 24.9 0.9 15 197-211 14-28 (66)
No 1
>PF14575 EphA2_TM: Ephrin type-A receptor 2 transmembrane domain; PDB: 3KUL_A 2XVD_A 2VX1_A 2VWV_A 2VX0_A 2VWY_A 2VWZ_A 2VWW_A 2VWU_A 2VWX_A ....
Probab=80.42 E-value=1.8 Score=32.78 Aligned_cols=8 Identities=63% Similarity=1.215 Sum_probs=4.2
Q ss_pred CCCccCCC
Q 023096 155 RPLKYEDP 162 (287)
Q Consensus 155 ~plkYeDP 162 (287)
-|-+||||
T Consensus 55 DP~TYEDP 62 (75)
T PF14575_consen 55 DPHTYEDP 62 (75)
T ss_dssp -GGGSSSH
T ss_pred CcccccCH
Confidence 45556665
No 2
>PF05977 MFS_3: Transmembrane secretion effector; InterPro: IPR010290 This family consists of the enterobactin exporter EntS proteins and putative permeases all belonging to the major facilitator superfamily. EntS exports the siderophore enterobactin out of the cell. The genetic locus entS was changed from ybdA so as to reflect its relevant biological function [].
Probab=55.16 E-value=50 Score=32.26 Aligned_cols=79 Identities=32% Similarity=0.522 Sum_probs=49.0
Q ss_pred eecceeeeeecceecHHHHHHHHhhhcc----cccccCceEeeccCCCCCCCC-CCCceeeecCCCCcccccccccHHHh
Q 023096 178 EMCGKVYRLAPITLTKEQQTIHQKRRSR----AYQWKRPTIFLKEGDLIPPDV-DPDTVRWIPANHPFATTANDIDEDLA 252 (287)
Q Consensus 178 eM~GK~yRLaPvtLT~Eqq~iHQkRRsr----AYqWKRPtvFLkEGdsvPpdV-DPdtVRWIPaNHPFAtta~~iDEdlA 252 (287)
-|---+||++|=.-.+=..+||+.||+| ||+|. +| .|+ ||+ ||+-.=| +. .-.|-+-
T Consensus 425 v~v~~~y~i~~~~~~~f~~~~~~~~~~r~r~ga~~w~---~~--------~d~~~~~--~~~e~~~-~~----~w~~~~r 486 (524)
T PF05977_consen 425 VMVTIEYRIAPEDAAAFLAAMRELRRIRRRDGARRWG---LF--------RDLEDPG--RWVERFH-VE----SWLEHLR 486 (524)
T ss_pred EEEEEEEEECcccHHHHHHHHHHHHHHHhhcChhhce---ee--------eccCCCC--eEEEEEe-CC----CHHHHHH
Confidence 3455789999988877778888776665 99994 33 232 233 7775433 11 1122232
Q ss_pred hcccccccCCccchhhhHHHHHHHHHHhhcc
Q 023096 253 QNNVYQKQGVPFRIRAEHEALQKKLEALQNV 283 (287)
Q Consensus 253 q~NVyQk~GVP~RikAEHEALq~klEa~~n~ 283 (287)
|+ -|+.+.-.++|+++.++...
T Consensus 487 ~~---------~r~t~~d~~~~~~~~~~~~~ 508 (524)
T PF05977_consen 487 QH---------ERVTQADRELQERLRAFHRG 508 (524)
T ss_pred Hh---------ccCCHhhHHHHHHHHHhcCC
Confidence 22 37777777888888776543
No 3
>PF12669 P12: Virus attachment protein p12 family
Probab=43.51 E-value=24 Score=25.87 Aligned_cols=26 Identities=23% Similarity=0.512 Sum_probs=15.7
Q ss_pred chhHHHHHHHHHHHHHHHHhhhhccc
Q 023096 105 SFAIGLSLSTAFLVIVVRAFIVRRSR 130 (287)
Q Consensus 105 nf~~~~cv~~a~l~~~~R~~v~r~~~ 130 (287)
|+++++.|+++++.+++|.++.++++
T Consensus 1 tiII~~Ii~~~~~~v~~r~~~k~~K~ 26 (58)
T PF12669_consen 1 TIIIGIIILAAVAYVAIRKFIKDKKK 26 (58)
T ss_pred CeeHHHHHHHHHHHHHHHHHHHHhhc
Confidence 46677666666665566777644433
No 4
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.48 E-value=25 Score=27.22 Aligned_cols=29 Identities=31% Similarity=0.595 Sum_probs=19.4
Q ss_pred CCCCCCcceeec--CCCc-cceecceeeeeec
Q 023096 160 EDPFNNPLVKVG--KSNS-TMEMCGKVYRLAP 188 (287)
Q Consensus 160 eDPFNNPlVKv~--k~~S-tveM~GK~yRLaP 188 (287)
+-||..|=|-++ +++. +---||++|||+|
T Consensus 31 ~~p~~HPrV~L~mg~~gev~CPYC~t~y~l~~ 62 (62)
T COG4391 31 EPPNDHPRVFLDMGDEGEVVCPYCSTRYRLNP 62 (62)
T ss_pred CCCCCCCEEEEEcCCCCcEecCccccEEEecC
Confidence 446888877443 3333 2357999999986
No 5
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=40.35 E-value=19 Score=24.93 Aligned_cols=40 Identities=18% Similarity=0.108 Sum_probs=23.5
Q ss_pred chhHHHHHHHHHHHHHHHHhhhhccccCCCCchHHHHHhc
Q 023096 105 SFAIGLSLSTAFLVIVVRAFIVRRSRYNRPGSVEDLVRRG 144 (287)
Q Consensus 105 nf~~~~cv~~a~l~~~~R~~v~r~~~~~~~GSVaDLvRRG 144 (287)
-+-+|.+.+++++++++-.+....+++...-.++.+-+|+
T Consensus 5 ~~yVW~sYg~t~l~l~~li~~~~~~~r~~~~~l~~~~~r~ 44 (45)
T TIGR03141 5 AFYVWLAYGITALVLAGLILWSLLDRRRLLRELRRLEARE 44 (45)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3567888888887777666555444444334444444443
No 6
>COG2929 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.17 E-value=11 Score=30.77 Aligned_cols=18 Identities=44% Similarity=0.800 Sum_probs=15.6
Q ss_pred cccHHHhhcccccccCCcc
Q 023096 246 DIDEDLAQNNVYQKQGVPF 264 (287)
Q Consensus 246 ~iDEdlAq~NVyQk~GVP~ 264 (287)
+-||+-|+.|. |||||+|
T Consensus 5 ewDe~Ka~sNl-~KHGv~F 22 (93)
T COG2929 5 EWDENKARSNL-EKHGVSF 22 (93)
T ss_pred EeCchHhhhhH-HHcCCCH
Confidence 45888999995 9999999
No 7
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=39.15 E-value=18 Score=30.39 Aligned_cols=27 Identities=30% Similarity=0.534 Sum_probs=22.4
Q ss_pred cccccccCCccchhhhHHHHHHHHHHhhc
Q 023096 254 NNVYQKQGVPFRIRAEHEALQKKLEALQN 282 (287)
Q Consensus 254 ~NVyQk~GVP~RikAEHEALq~klEa~~n 282 (287)
++...+-|||+ +.|.++|..|+++|..
T Consensus 97 ~~aL~rLgvPs--~~dv~~L~~rId~L~~ 123 (132)
T PF05597_consen 97 ARALNRLGVPS--RKDVEALSARIDQLTA 123 (132)
T ss_pred HHHHHhcCCCC--HHHHHHHHHHHHHHHH
Confidence 46788999999 6889999999888764
No 8
>PF06874 FBPase_2: Firmicute fructose-1,6-bisphosphatase; InterPro: IPR009164 Fructose 1,6-bisphosphatase catalyses the hydrolysis of fructose 1,6-bisphosphate to fructose 6-phosphate []. This is an essential reaction in the process of gluconeogenesis, the process by which non-carbohydrate precursors are converted to glucose, and hence this enzyme is found almost universally. Enzyme activity can be regulated by a number of different mechanisms including AMP inhibition, cylic AMP-dependent phosphorylation and light-dependent-activation. This entry represents a group of fructose 1,6-bisphosphatases found within the Firmicutes (low GC Gram-positive bacteria) which do not show any significant sequence similarity to the enzymes from other organisms. The Bacillus subtilis enzyme is inhibited by AMP, though this can be overcome by phosphoenolpyruvate, and is dependent on Mn(2+) [, ]. Mutants lacking this enzyme are apparently still able to grow on gluconeogenic growth substrates such as malate and glycerol.; GO: 0042132 fructose 1,6-bisphosphate 1-phosphatase activity, 0006094 gluconeogenesis
Probab=38.15 E-value=22 Score=37.08 Aligned_cols=34 Identities=32% Similarity=0.517 Sum_probs=29.4
Q ss_pred ceeecCCCccceecceeeee-----------ecceecHHHHHHHH
Q 023096 167 LVKVGKSNSTMEMCGKVYRL-----------APITLTKEQQTIHQ 200 (287)
Q Consensus 167 lVKv~k~~StveM~GK~yRL-----------aPvtLT~Eqq~iHQ 200 (287)
|=|||-.+.||++-||+|-| .|-.||+|++++=+
T Consensus 330 L~kId~~~gti~i~gk~y~L~d~~FPTiDp~~Py~LT~eE~~vi~ 374 (640)
T PF06874_consen 330 LDKIDYEKGTITIDGKEYPLNDTNFPTIDPEDPYELTEEEEEVID 374 (640)
T ss_pred HhhcCccCCEEEECCEEEeecCCCCCCCCCCCcccCCHHHHHHHH
Confidence 44999999999999999998 48899999887643
No 9
>KOG3400 consensus RNA polymerase subunit 8 [Transcription]
Probab=37.59 E-value=16 Score=32.05 Aligned_cols=11 Identities=55% Similarity=0.914 Sum_probs=9.3
Q ss_pred ceecceeeeee
Q 023096 177 MEMCGKVYRLA 187 (287)
Q Consensus 177 veM~GK~yRLa 187 (287)
--||||+||+-
T Consensus 89 YvMyGkvYriE 99 (143)
T KOG3400|consen 89 YVMYGKVYRIE 99 (143)
T ss_pred EEEeeEEEEEe
Confidence 46999999985
No 10
>PRK14126 cell division protein ZapA; Provisional
Probab=37.59 E-value=26 Score=27.08 Aligned_cols=18 Identities=22% Similarity=0.469 Sum_probs=14.6
Q ss_pred cCCCccceecceeeeeec
Q 023096 171 GKSNSTMEMCGKVYRLAP 188 (287)
Q Consensus 171 ~k~~StveM~GK~yRLaP 188 (287)
.|..-.|+++|+.|++++
T Consensus 5 ~k~~v~V~I~G~~Y~i~~ 22 (85)
T PRK14126 5 KKTRINVEIYGQQYTIVG 22 (85)
T ss_pred CCceEEEEECCEEEEecC
Confidence 344567999999999996
No 11
>PF14698 ASL_C2: Argininosuccinate lyase C-terminal; PDB: 1XWO_A 2E9F_A 1TJW_C 1TJU_A 1DCN_B 1K7W_B 1HY1_C 1TJV_B 1AUW_A 1U15_B ....
Probab=35.08 E-value=13 Score=27.65 Aligned_cols=20 Identities=45% Similarity=0.808 Sum_probs=11.9
Q ss_pred cccccccHHHhhcccccccCCccchh
Q 023096 242 TTANDIDEDLAQNNVYQKQGVPFRIR 267 (287)
Q Consensus 242 tta~~iDEdlAq~NVyQk~GVP~Rik 267 (287)
+|++|+-+-|.+ + |+|||--
T Consensus 2 ~~ATdlAD~LVr-----~-GipFR~A 21 (70)
T PF14698_consen 2 STATDLADYLVR-----K-GIPFREA 21 (70)
T ss_dssp GGHHHHHHHHHH-----T-TS-HHHH
T ss_pred ccHHHHHHHHHH-----c-CCCHHHH
Confidence 355666665543 4 9999954
No 12
>PF00280 potato_inhibit: Potato inhibitor I family; InterPro: IPR000864 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. This family of proteinase inhibitors belong to MEROPS inhibitor family I13, clan IG. They inhibit peptidases of the S1 (IPR001254 from INTERPRO) and S8 (IPR000209 from INTERPRO) families []. Potato inhibitor type I sequences are not solely restricted to potatoes but are found in other plant species for example: barley endosperm chymotrypsin inhibitor [], and pumpkin trypsin inhibitor. Exceptions are found in leech's, e.g.Hirudo medicinalis (Medicinal leech), but not other metazoa []. In general, the proteins have retained a specificity towards chymotrypsin-like and elastase-like proteases []. Structurally these inhibitors are small (60 to 90 residues) and in contrast with other families of protease inhibitors, they lack disulphide bonds. The inhibitor is a wedge-shaped molecule, its pointed edge formed by the protease-binding loop, which contains the scissile bond. The loop binds tightly to the protease active site, subsequent cleavage of the scissile bond causing inhibition of the enzyme []. The inhibitors (designated type I and II) are synthesised in potato tubers, increasing in concentration as the tuber develops. Synthesis of the inhibitors throughout the plant is also induced by leaf damage; this systemic response being triggered by the release of a putative plant hormone []. Examples found in the bacteria and archaea are probable false positives.; GO: 0004867 serine-type endopeptidase inhibitor activity, 0009611 response to wounding; PDB: 1TEC_I 1SBN_I 1ACB_I 1EGP_A 3TEC_I 2SEC_I 1EGL_A 2TEC_I 1SIB_I 1MEE_I ....
Probab=34.41 E-value=14 Score=27.63 Aligned_cols=20 Identities=35% Similarity=0.497 Sum_probs=18.7
Q ss_pred eEeeccCCCCCCCCCCCcee
Q 023096 213 TIFLKEGDLIPPDVDPDTVR 232 (287)
Q Consensus 213 tvFLkEGdsvPpdVDPdtVR 232 (287)
.++|.+|.++|.|.++|-||
T Consensus 28 v~vlp~gs~vt~df~~~RVr 47 (63)
T PF00280_consen 28 VVVLPEGSPVTMDFRCDRVR 47 (63)
T ss_dssp EEEEETTSEEESSBETTEEE
T ss_pred EEEEeCCCCcCCCcCCCEEE
Confidence 46999999999999999998
No 13
>PF06390 NESP55: Neuroendocrine-specific golgi protein P55 (NESP55); InterPro: IPR009434 This family consists of several mammalian neuroendocrine-specific golgi protein P55 (NESP55) sequences. NESP55 is a novel member of the chromogranin family and is a soluble, acidic, heat-stable secretory protein that is expressed exclusively in endocrine and nervous tissues, although less widely than chromogranins [].
Probab=33.26 E-value=11 Score=35.55 Aligned_cols=22 Identities=55% Similarity=0.865 Sum_probs=15.1
Q ss_pred hhhcccccccCceEeeccCCCCCC
Q 023096 201 KRRSRAYQWKRPTIFLKEGDLIPP 224 (287)
Q Consensus 201 kRRsrAYqWKRPtvFLkEGdsvPp 224 (287)
-|||||+||.|-.-- =.|.-||
T Consensus 2 drrsra~~~rrarh~--y~dlcpp 23 (257)
T PF06390_consen 2 DRRSRAQQWRRARHN--YNDLCPP 23 (257)
T ss_pred cchhHHHHHHHhhhc--ccccCCc
Confidence 489999999986532 2455554
No 14
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=33.12 E-value=37 Score=30.64 Aligned_cols=25 Identities=24% Similarity=0.554 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHhhhhccccCC
Q 023096 108 IGLSLSTAFLVIVVRAFIVRRSRYNR 133 (287)
Q Consensus 108 ~~~cv~~a~l~~~~R~~v~r~~~~~~ 133 (287)
+|++++..+|+++ =+|++.+||...
T Consensus 277 VG~~La~lvlivL-iaYli~Rrr~~~ 301 (306)
T PF01299_consen 277 VGAALAGLVLIVL-IAYLIGRRRSRA 301 (306)
T ss_pred HHHHHHHHHHHHH-HhheeEeccccc
Confidence 3334433333333 356555555443
No 15
>KOG3591 consensus Alpha crystallins [Posttranslational modification, protein turnover, chaperones]
Probab=30.08 E-value=24 Score=30.60 Aligned_cols=12 Identities=58% Similarity=1.082 Sum_probs=10.7
Q ss_pred CCCCCCCCCcee
Q 023096 221 LIPPDVDPDTVR 232 (287)
Q Consensus 221 svPpdVDPdtVR 232 (287)
.||+||||++|+
T Consensus 122 ~LP~~vdp~~V~ 133 (173)
T KOG3591|consen 122 LLPEDVDPTSVT 133 (173)
T ss_pred cCCCCCChhheE
Confidence 499999999986
No 16
>PF11935 DUF3453: Domain of unknown function (DUF3453); InterPro: IPR021850 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 239 to 261 amino acids in length. ; PDB: 3ODS_A 3ODR_A 3O2Q_A 3O2T_A 3O2S_A 3GS3_A.
Probab=29.84 E-value=22 Score=31.28 Aligned_cols=15 Identities=27% Similarity=0.653 Sum_probs=9.1
Q ss_pred ceeeecCCCCccccc
Q 023096 230 TVRWIPANHPFATTA 244 (287)
Q Consensus 230 tVRWIPaNHPFAtta 244 (287)
.+-|||.||||-...
T Consensus 92 SL~~vp~~Hp~l~~~ 106 (239)
T PF11935_consen 92 SLSSVPPNHPLLNPQ 106 (239)
T ss_dssp -GGGS-TT-SSS-HH
T ss_pred CHHHcCCCCCcCCHH
Confidence 466999999998764
No 17
>PF15050 SCIMP: SCIMP protein
Probab=29.59 E-value=61 Score=28.23 Aligned_cols=42 Identities=33% Similarity=0.505 Sum_probs=24.4
Q ss_pred cchhHHHHHHHHHHHHHHHHhhhhccccCCCCchHHHHHhcccccCC-cCCCCCCc
Q 023096 104 SSFAIGLSLSTAFLVIVVRAFIVRRSRYNRPGSVEDLVRRGQLRSDR-RGISRPLK 158 (287)
Q Consensus 104 ~nf~~~~cv~~a~l~~~~R~~v~r~~~~~~~GSVaDLvRRGQLrSdr-RGis~plk 158 (287)
-||+|-++||+.++-+.+ .+++. -|=|-|||-|+ --|++|+|
T Consensus 6 ~nFWiiLAVaII~vS~~l-glIly------------CvcR~~lRqGkkweiakp~k 48 (133)
T PF15050_consen 6 DNFWIILAVAIILVSVVL-GLILY------------CVCRWQLRQGKKWEIAKPLK 48 (133)
T ss_pred hchHHHHHHHHHHHHHHH-HHHHH------------HHHHHHHHccccceeccchh
Confidence 489999999866554333 33321 13344555544 46777775
No 18
>cd08153 srpA_like Catalase-like heme-binding proteins similar to the uncharacterized srpA. Catalase is a ubiquitous enzyme found in both prokaryotes and eukaryotes involved in the protection of cells from the toxic effects of peroxides. It catalyses the conversion of hydrogen peroxide to water and molecular oxygen. Several other related protein families share the catalase fold and bind to heme, but do not necessarily have catalase activity. This family contains uncharacterized proteins similar to the Synechococcus elongatus PCC 7942 periplasmic protein srpA, of mostly bacterial origin. The plasmid-encoded srpA is regulated by sulfate, but does not seem to function in its uptake or metabolism.
Probab=29.23 E-value=79 Score=28.50 Aligned_cols=72 Identities=19% Similarity=0.342 Sum_probs=45.2
Q ss_pred CcceeecCCCccceecceeeeeecc----eecHHH----------HHHHHhhhcccccccCceEeeccCCCCCCCCCCCc
Q 023096 165 NPLVKVGKSNSTMEMCGKVYRLAPI----TLTKEQ----------QTIHQKRRSRAYQWKRPTIFLKEGDLIPPDVDPDT 230 (287)
Q Consensus 165 NPlVKv~k~~StveM~GK~yRLaPv----tLT~Eq----------q~iHQkRRsrAYqWKRPtvFLkEGdsvPpdVDPdt 230 (287)
|||.=+++.+.. .+.| ||+.|. .|++|+ +++.|.=+...+.|.==.-...+||+ ++--|
T Consensus 158 ~~f~f~~~~G~~--~~vk-~~~~P~~g~~~l~~~~~~~~~~d~l~~~l~~~l~~g~~~f~l~vQl~~~~d~----i~D~t 230 (295)
T cd08153 158 NAFYFTNANGKR--QPVR-WRFVPEDGVKYLSDEEAAKLGPDFLFDELAQRLAQGPVRWDLVLQLAEPGDP----TDDPT 230 (295)
T ss_pred eeEEEECCCCCE--EEEE-EEEEECCCCCCCCHHHhccCCcchhHHHHHHHHHhCCceEEEEEEEcCCCCc----CCCCC
Confidence 555544443322 2333 888885 366655 34666666667788777777788883 45568
Q ss_pred eeeecCCCCccccc
Q 023096 231 VRWIPANHPFATTA 244 (287)
Q Consensus 231 VRWIPaNHPFAtta 244 (287)
+.| |.+|||-+-+
T Consensus 231 ~~W-pe~~p~~~vg 243 (295)
T cd08153 231 KPW-PADRKEVDAG 243 (295)
T ss_pred ccC-CCCCceeEEE
Confidence 999 7769986543
No 19
>COG2975 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.50 E-value=27 Score=27.21 Aligned_cols=9 Identities=89% Similarity=1.446 Sum_probs=8.5
Q ss_pred CCCCCCcee
Q 023096 224 PDVDPDTVR 232 (287)
Q Consensus 224 pdVDPdtVR 232 (287)
|||||-|||
T Consensus 18 pdvDPktvr 26 (64)
T COG2975 18 PDVDPKTVR 26 (64)
T ss_pred CCCCcceee
Confidence 899999997
No 20
>PF07225 NDUF_B4: NADH-ubiquinone oxidoreductase B15 subunit (NDUFB4); InterPro: IPR009866 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This family contains human NADH-ubiquinone oxidoreductase subunit NDUFB4 and related sequences.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0005739 mitochondrion
Probab=27.72 E-value=71 Score=26.98 Aligned_cols=43 Identities=28% Similarity=0.539 Sum_probs=26.6
Q ss_pred ccCCcchhHHHHHHHHHHHHHHHHhhhhccccCCCCchHHHHHhcccccCC
Q 023096 100 RHTRSSFAIGLSLSTAFLVIVVRAFIVRRSRYNRPGSVEDLVRRGQLRSDR 150 (287)
Q Consensus 100 r~~g~nf~~~~cv~~a~l~~~~R~~v~r~~~~~~~GSVaDLvRRGQLrSdr 150 (287)
|-.+-+..+|++++++ .+++-.++.+..+. .-.+++|.||| ||
T Consensus 77 RpTPktsllg~~~~v~--P~i~~~~~~KtdRD----~~E~~~r~G~~--dR 119 (125)
T PF07225_consen 77 RPTPKTSLLGLGFGVV--PLIFYYYVLKTDRD----RKEKLIRTGKL--DR 119 (125)
T ss_pred ccCchHHHHHHHHHHH--HHHHHHhhhccchh----HHHHHHhcCcc--ce
Confidence 4456677777655444 34444455544443 35799999999 66
No 21
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=25.44 E-value=44 Score=23.06 Aligned_cols=40 Identities=23% Similarity=0.138 Sum_probs=22.7
Q ss_pred hhHHHHHHHHHHHHHHHHhhhhccccCCCCchHHHHHhcc
Q 023096 106 FAIGLSLSTAFLVIVVRAFIVRRSRYNRPGSVEDLVRRGQ 145 (287)
Q Consensus 106 f~~~~cv~~a~l~~~~R~~v~r~~~~~~~GSVaDLvRRGQ 145 (287)
+-+|.|.+++++++++-.+....+++.-.-.++.+.+|+|
T Consensus 5 ~yVW~sYg~t~~~l~~l~~~~~~~~r~~~~~l~~~~~r~~ 44 (46)
T PF04995_consen 5 FYVWSSYGVTALVLAGLIVWSLRRRRRLRKELKRLEAREQ 44 (46)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHc
Confidence 4567777777777666555544444443444555555554
No 22
>PF13549 ATP-grasp_5: ATP-grasp domain; PDB: 1WR2_A.
Probab=23.89 E-value=32 Score=30.50 Aligned_cols=44 Identities=25% Similarity=0.440 Sum_probs=31.8
Q ss_pred cCCCCCCcceeecCCCccceecc-eeeeeecceecHHHHHHHHhh
Q 023096 159 YEDPFNNPLVKVGKSNSTMEMCG-KVYRLAPITLTKEQQTIHQKR 202 (287)
Q Consensus 159 YeDPFNNPlVKv~k~~StveM~G-K~yRLaPvtLT~Eqq~iHQkR 202 (287)
..||---|+|-+|-+...+|+++ ..++|+|++.++-+..+++-|
T Consensus 118 ~~Dp~FGPvv~~G~GG~~vE~~~D~~~~l~Pl~~~~a~~mi~~l~ 162 (222)
T PF13549_consen 118 RRDPQFGPVVMFGLGGIFVELLKDVAFRLPPLSEADAREMIRELR 162 (222)
T ss_dssp EEETTTEEEEEEEE-STTHHHH---EEEESS--HHHHHHHHHTST
T ss_pred EECCCCCCEEEEcCCCceeeeecceEEeeCCCCHHHHHHHHHHHH
Confidence 46999999999999999999987 469999988766665555443
No 23
>PF08492 SRP72: SRP72 RNA-binding domain; InterPro: IPR013699 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the RNA binding domain of the SRP72 subunit. This domain is responsible for the binding of SRP72 to the 7S SRP RNA []. ; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle
Probab=23.68 E-value=42 Score=25.25 Aligned_cols=13 Identities=46% Similarity=1.163 Sum_probs=9.9
Q ss_pred CCCCCCceeeecC
Q 023096 224 PDVDPDTVRWIPA 236 (287)
Q Consensus 224 pdVDPdtVRWIPa 236 (287)
|++-||-=||||-
T Consensus 39 p~~~PDPERWLP~ 51 (59)
T PF08492_consen 39 PGKTPDPERWLPK 51 (59)
T ss_pred CCCCCCccccCch
Confidence 4566888899994
No 24
>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]
Probab=22.93 E-value=53 Score=32.04 Aligned_cols=19 Identities=53% Similarity=0.683 Sum_probs=17.0
Q ss_pred chhhhHHHHHHHHHHhhcc
Q 023096 265 RIRAEHEALQKKLEALQNV 283 (287)
Q Consensus 265 RikAEHEALq~klEa~~n~ 283 (287)
|=|+|.|.+|++||+||..
T Consensus 144 rrk~ElEr~rkRle~Lqsi 162 (338)
T KOG3647|consen 144 RRKAELERTRKRLEALQSI 162 (338)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 5589999999999999975
No 25
>PF06781 UPF0233: Uncharacterised protein family (UPF0233); InterPro: IPR009619 This is a group of proteins of unknown function.
Probab=22.59 E-value=64 Score=25.86 Aligned_cols=21 Identities=24% Similarity=0.377 Sum_probs=16.5
Q ss_pred CCcchhHHHHHHHHHHHHHHH
Q 023096 102 TRSSFAIGLSLSTAFLVIVVR 122 (287)
Q Consensus 102 ~g~nf~~~~cv~~a~l~~~~R 122 (287)
..-|++|||++.++-+++..|
T Consensus 65 G~WN~~IGfg~~~~Gf~mt~r 85 (87)
T PF06781_consen 65 GNWNLAIGFGLMIVGFLMTMR 85 (87)
T ss_pred cchHHHHHHHHHHHHHHHHcc
Confidence 356999999988888777654
No 26
>PF13874 Nup54: Nucleoporin complex subunit 54; PDB: 3T97_B.
Probab=22.47 E-value=25 Score=28.78 Aligned_cols=30 Identities=30% Similarity=0.567 Sum_probs=5.6
Q ss_pred hhcccccccCCccchhhhHHHHHHHHHHhhcc
Q 023096 252 AQNNVYQKQGVPFRIRAEHEALQKKLEALQNV 283 (287)
Q Consensus 252 Aq~NVyQk~GVP~RikAEHEALq~klEa~~n~ 283 (287)
++.-|+...|.| +..|-|.|..+||++..+
T Consensus 93 ~~~eilr~~g~~--l~~eEe~L~~~le~l~~~ 122 (141)
T PF13874_consen 93 RKQEILRNRGYA--LSPEEEELRKRLEALEAQ 122 (141)
T ss_dssp HHHHHHHH------------------------
T ss_pred HHHHHHHHcCCC--CCHHHHHHHHHHHHHHHH
Confidence 445588999998 778889999999887653
No 27
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=22.12 E-value=54 Score=27.26 Aligned_cols=25 Identities=12% Similarity=0.243 Sum_probs=12.5
Q ss_pred ccCCcchhHHHHHHHHHHHHHHHHh
Q 023096 100 RHTRSSFAIGLSLSTAFLVIVVRAF 124 (287)
Q Consensus 100 r~~g~nf~~~~cv~~a~l~~~~R~~ 124 (287)
++...+++.|+.++++++|++|-.+
T Consensus 74 ~~~~~~iivgvi~~Vi~Iv~~Iv~~ 98 (179)
T PF13908_consen 74 IYFITGIIVGVICGVIAIVVLIVCF 98 (179)
T ss_pred ccceeeeeeehhhHHHHHHHhHhhh
Confidence 3444555655555555555444434
No 28
>PRK02251 putative septation inhibitor protein; Reviewed
Probab=21.34 E-value=74 Score=25.74 Aligned_cols=21 Identities=19% Similarity=0.200 Sum_probs=16.9
Q ss_pred CCcchhHHHHHHHHHHHHHHH
Q 023096 102 TRSSFAIGLSLSTAFLVIVVR 122 (287)
Q Consensus 102 ~g~nf~~~~cv~~a~l~~~~R 122 (287)
.+-|++|||++.++-+++..|
T Consensus 65 G~WN~~IGfg~~~~G~~mt~r 85 (87)
T PRK02251 65 GAWNLVIGFGLIMAGFGMTTQ 85 (87)
T ss_pred cchhHHHHHHHHHHHHHHHcc
Confidence 456999999998888877654
No 29
>PF05867 DUF851: Protein of unknown function (DUF851)
Probab=21.32 E-value=38 Score=31.75 Aligned_cols=35 Identities=26% Similarity=0.520 Sum_probs=22.5
Q ss_pred CCCCCceeeecCCCCcccccccccHHHhhcccccccCCccchh
Q 023096 225 DVDPDTVRWIPANHPFATTANDIDEDLAQNNVYQKQGVPFRIR 267 (287)
Q Consensus 225 dVDPdtVRWIPaNHPFAtta~~iDEdlAq~NVyQk~GVP~Rik 267 (287)
-.+-|+.-|.|- -+||- -+--.|||+..||||-..
T Consensus 92 ~~~eD~Yd~~PK-------L~dV~-Km~~~nvf~~~gvPfWA~ 126 (242)
T PF05867_consen 92 VPEEDSYDQVPK-------LADVR-KMPEENVFNVDGVPFWAV 126 (242)
T ss_pred cccccccccccC-------HHHHh-cCCccccccCCCccceee
Confidence 344577778774 12221 122389999999999765
No 30
>PF03242 LEA_3: Late embryogenesis abundant protein; InterPro: IPR004926 Late-embryogenesis abundant (LEA) genes encode a diverse group of proteins that accumulate to high levels during the maturation phase of seed development []. This group includes LEA-5 [], whose expression is induced by salt, drought and heat stress [], and related proteins. ; GO: 0006950 response to stress
Probab=20.83 E-value=51 Score=26.52 Aligned_cols=13 Identities=46% Similarity=0.567 Sum_probs=12.0
Q ss_pred CCCceeeecCCCC
Q 023096 227 DPDTVRWIPANHP 239 (287)
Q Consensus 227 DPdtVRWIPaNHP 239 (287)
||.|=-|||.||-
T Consensus 67 DPvTGyyrPen~~ 79 (93)
T PF03242_consen 67 DPVTGYYRPENHF 79 (93)
T ss_pred CCCCccccCCCCC
Confidence 8999999999993
No 31
>COG1006 MnhC Multisubunit Na+/H+ antiporter, MnhC subunit [Inorganic ion transport and metabolism]
Probab=20.27 E-value=1e+02 Score=25.74 Aligned_cols=32 Identities=25% Similarity=0.453 Sum_probs=24.4
Q ss_pred hhccCceeeeccccCCcchhHHHHHHHHHHHHHHHHhh
Q 023096 88 LISLPPVAFVMKRHTRSSFAIGLSLSTAFLVIVVRAFI 125 (287)
Q Consensus 88 v~s~Pp~vf~~~r~~g~nf~~~~cv~~a~l~~~~R~~v 125 (287)
+.-+|+++-+. .++|||++.+.+|+.+.|.|-
T Consensus 68 aDPlPQALILT------AIVIgfa~tal~L~l~~~~y~ 99 (115)
T COG1006 68 VDPLPQALILT------AIVIGFATTALALVLAYRAYK 99 (115)
T ss_pred CCchhHHHHHH------HHHHHHHHHHHHHHHHHHHHH
Confidence 34456655443 689999999999999999875
No 32
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=20.27 E-value=50 Score=24.92 Aligned_cols=15 Identities=40% Similarity=0.813 Sum_probs=13.6
Q ss_pred HHHHhhhcccccccC
Q 023096 197 TIHQKRRSRAYQWKR 211 (287)
Q Consensus 197 ~iHQkRRsrAYqWKR 211 (287)
..|-|+|.|.|.|.|
T Consensus 14 v~d~K~~Lr~y~~~~ 28 (66)
T PF11767_consen 14 VEDFKKRLRKYRWDR 28 (66)
T ss_pred HHHHHHHHhcCCcce
Confidence 569999999999987
Done!