Query 034341
Match_columns 97
No_of_seqs 94 out of 96
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 12:24:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034341.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034341hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03242 LEA_3: Late embryogen 100.0 5.8E-43 1.3E-47 240.2 6.7 91 1-91 1-93 (93)
2 PF02736 Myosin_N: Myosin N-te 84.0 0.32 6.9E-06 28.5 -0.0 13 59-71 2-14 (42)
3 PF09996 DUF2237: Uncharacteri 69.4 2 4.4E-05 31.1 0.7 10 64-73 14-23 (117)
4 COG3651 Uncharacterized protei 68.8 1.8 3.9E-05 31.5 0.3 10 63-72 20-29 (125)
5 PRK09936 hypothetical protein; 51.3 9.2 0.0002 31.5 1.5 26 65-90 133-159 (296)
6 PF10500 SR-25: Nuclear RNA-sp 50.5 5.9 0.00013 31.6 0.3 22 59-80 171-192 (225)
7 PF10948 DUF2635: Protein of u 48.3 19 0.00041 22.1 2.2 16 62-77 8-23 (47)
8 smart00265 BH4 BH4 Bcl-2 homol 36.5 24 0.00051 19.6 1.2 17 13-29 7-23 (27)
9 PF02180 BH4: Bcl-2 homology r 35.6 30 0.00066 19.2 1.6 17 13-29 7-23 (27)
10 PF03195 DUF260: Protein of un 33.0 17 0.00036 25.2 0.3 16 60-75 66-81 (101)
11 COG4953 PbpC Membrane carboxyp 30.6 31 0.00066 31.8 1.6 27 67-93 365-392 (733)
12 TIGR03054 photo_alph_chp1 puta 30.1 30 0.00065 25.3 1.3 25 63-87 109-133 (135)
13 PF09803 DUF2346: Uncharacteri 28.8 20 0.00044 23.9 0.2 32 62-93 34-65 (80)
14 TIGR02697 WPE_wolbac Wolbachia 28.2 26 0.00055 20.8 0.5 11 66-76 3-13 (36)
15 PF12230 PRP21_like_P: Pre-mRN 27.9 20 0.00043 27.1 0.0 35 59-93 165-207 (229)
16 PF13405 EF-hand_6: EF-hand do 26.9 41 0.00089 17.5 1.1 17 74-90 11-27 (31)
17 PF07886 BA14K: BA14K-like pro 26.0 39 0.00085 19.1 1.0 12 65-76 14-25 (31)
18 PF12904 Collagen_bind_2: Puta 26.0 19 0.00041 24.6 -0.4 16 59-75 50-65 (93)
19 COG3375 Uncharacterized conser 25.6 41 0.0009 27.5 1.4 13 63-75 178-190 (266)
20 PF07846 Metallothio_Cad: Meta 24.5 35 0.00076 18.1 0.6 8 63-70 11-18 (21)
21 PHA00542 putative Cro-like pro 24.4 71 0.0015 20.6 2.2 26 66-93 6-31 (82)
22 PRK13750 replication protein; 22.5 33 0.00071 28.3 0.3 16 59-76 133-148 (285)
23 PF13597 NRDD: Anaerobic ribon 21.8 42 0.00091 29.0 0.9 25 65-89 519-543 (546)
24 COG4982 3-oxoacyl-[acyl-carrie 21.4 91 0.002 29.2 2.9 29 60-89 762-790 (866)
25 PF14785 MalF_P2: Maltose tran 21.4 27 0.00059 26.3 -0.3 21 59-79 129-149 (164)
26 cd04711 BAH_Dnmt1_II BAH, or B 20.9 23 0.0005 26.2 -0.8 13 70-82 57-69 (137)
27 COG3323 Uncharacterized protei 20.9 39 0.00084 24.3 0.4 19 59-78 37-55 (109)
28 KOG2870 NADH:ubiquinone oxidor 20.1 44 0.00095 28.9 0.6 20 60-79 37-56 (452)
No 1
>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=100.00 E-value=5.8e-43 Score=240.17 Aligned_cols=91 Identities=54% Similarity=0.756 Sum_probs=73.7
Q ss_pred CchhhHHHHHHHHHHHhhhhHhhhhhhhhhhcccC--ccccccccccccCCcccccccCCccccccCCCCcccccCCCCC
Q 034341 1 MARSLFKAKLLLAPVADGISLSIGRRGYAAAAPLG--TISRTGIMEKNDLTPAVREDSGASSAWAPDPITGYYRPENRAV 78 (97)
Q Consensus 1 MARs~snak~lsalv~d~~sl~~~RRgYAAAa~~~--~~~~~g~~~~~~~~~~~~~~~~~~~~W~pDP~TG~y~Pen~~~ 78 (97)
|||||+|+|+||+||+|+++++++||||+|+++.. +..+.+.+....+....++..++++|||||||||||||||||+
T Consensus 1 MArsls~ak~lsal~~~~~s~~~~rRgYaaaA~~~~~sa~r~g~~~~~~~~~~~~~~~~~~~~W~pDPvTGyyrPen~~~ 80 (93)
T PF03242_consen 1 MARSLSNAKVLSALVSDAFSSLISRRGYAAAAAAVRSSAARGGAAGKAKMASKAGEDSKEKSSWMPDPVTGYYRPENHFG 80 (93)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhcccccccccchhhhhcccccccccccccCCCCccccCCCCCC
Confidence 99999999999999999999999999999998851 1112222222223333344567799999999999999999999
Q ss_pred CCCHHHHHHHHhc
Q 034341 79 EIDPAELREMLLN 91 (97)
Q Consensus 79 e~D~aelR~~lL~ 91 (97)
|||+||||++||+
T Consensus 81 EiD~AeLR~~lL~ 93 (93)
T PF03242_consen 81 EIDAAELRAKLLK 93 (93)
T ss_pred CCCHHHHHHHHhC
Confidence 9999999999996
No 2
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=83.96 E-value=0.32 Score=28.47 Aligned_cols=13 Identities=38% Similarity=1.012 Sum_probs=10.5
Q ss_pred ccccccCCCCccc
Q 034341 59 SSAWAPDPITGYY 71 (97)
Q Consensus 59 ~~~W~pDP~TG~y 71 (97)
+.-|+|||..||=
T Consensus 2 ~~vWvpD~~egfv 14 (42)
T PF02736_consen 2 KWVWVPDPKEGFV 14 (42)
T ss_dssp TEEEEEESSSSEE
T ss_pred CEEEEeCCcccEE
Confidence 3459999999984
No 3
>PF09996 DUF2237: Uncharacterized protein conserved in bacteria (DUF2237); InterPro: IPR018714 This family of hypothetical proteins has no known function.; PDB: 2LQ3_A 3USH_B.
Probab=69.38 E-value=2 Score=31.11 Aligned_cols=10 Identities=60% Similarity=1.361 Sum_probs=7.7
Q ss_pred cCCCCccccc
Q 034341 64 PDPITGYYRP 73 (97)
Q Consensus 64 pDP~TG~y~P 73 (97)
.||.|||||=
T Consensus 14 ~~P~TGf~Rd 23 (117)
T PF09996_consen 14 TDPMTGFYRD 23 (117)
T ss_dssp TTTT-STTSS
T ss_pred CCCCcccccC
Confidence 5999999993
No 4
>COG3651 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=68.77 E-value=1.8 Score=31.54 Aligned_cols=10 Identities=60% Similarity=1.411 Sum_probs=8.8
Q ss_pred ccCCCCcccc
Q 034341 63 APDPITGYYR 72 (97)
Q Consensus 63 ~pDP~TG~y~ 72 (97)
--||+||+||
T Consensus 20 ~~dPlTGFYR 29 (125)
T COG3651 20 CTDPLTGFYR 29 (125)
T ss_pred cCCcchhhhc
Confidence 4599999999
No 5
>PRK09936 hypothetical protein; Provisional
Probab=51.34 E-value=9.2 Score=31.48 Aligned_cols=26 Identities=27% Similarity=0.451 Sum_probs=16.3
Q ss_pred CCCCcccccCCCCC-CCCHHHHHHHHh
Q 034341 65 DPITGYYRPENRAV-EIDPAELREMLL 90 (97)
Q Consensus 65 DP~TG~y~Pen~~~-e~D~aelR~~lL 90 (97)
=|++|||+|..--. .-..++-|+.|+
T Consensus 133 ~~v~GWYiP~ElDd~~W~~~~rR~~L~ 159 (296)
T PRK09936 133 VPVDGWYLPAELDDLNWRDEARRQPLL 159 (296)
T ss_pred CCCCeEEeeeccchhcccCHHHHHHHH
Confidence 46799999964421 111266677777
No 6
>PF10500 SR-25: Nuclear RNA-splicing-associated protein; InterPro: IPR019532 SR-25, otherwise known as ADP-ribosylation factor-like factor 6-interacting protein 4, is expressed in virtually all tissue types. At the N terminus there is a repeat of serine-arginine (SR repeat), and towards the middle of the protein there are clusters of both serines and of basic amino acids. The presence of many nuclear localisation signals strongly implies that this is a nuclear protein that may contribute to RNA splicing []. SR-25 is also implicated, along with heat-shock-protein-27, as a mediator in the Rac1 (GTPase ras-related C3 botulinum toxin substrate 1; also see IPR019093 from INTERPRO) signalling pathway [].
Probab=50.48 E-value=5.9 Score=31.55 Aligned_cols=22 Identities=32% Similarity=0.181 Sum_probs=18.9
Q ss_pred ccccccCCCCcccccCCCCCCC
Q 034341 59 SSAWAPDPITGYYRPENRAVEI 80 (97)
Q Consensus 59 ~~~W~pDP~TG~y~Pen~~~e~ 80 (97)
-+-||-||+||-+|=....+||
T Consensus 171 vIRrVvDpETGRtRLIkGdGEi 192 (225)
T PF10500_consen 171 VIRRVVDPETGRTRLIKGDGEI 192 (225)
T ss_pred hheeeecCCCCceeeecccchH
Confidence 3559999999999999888876
No 7
>PF10948 DUF2635: Protein of unknown function (DUF2635); InterPro: IPR024400 This family consists of uncharacterised proteins found in bacteria and bacteriophages. It includes protein Gp38 from Enterobacteria phage Mu.
Probab=48.28 E-value=19 Score=22.08 Aligned_cols=16 Identities=31% Similarity=0.358 Sum_probs=13.0
Q ss_pred cccCCCCcccccCCCC
Q 034341 62 WAPDPITGYYRPENRA 77 (97)
Q Consensus 62 W~pDP~TG~y~Pen~~ 77 (97)
=||||.||-+.|+...
T Consensus 8 ~VrdP~~g~~Lp~eG~ 23 (47)
T PF10948_consen 8 SVRDPDTGQLLPAEGE 23 (47)
T ss_pred CcCCCCCCCccCcccc
Confidence 3789999999988763
No 8
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=36.54 E-value=24 Score=19.59 Aligned_cols=17 Identities=24% Similarity=0.511 Sum_probs=14.5
Q ss_pred HHHHhhhhHhhhhhhhh
Q 034341 13 APVADGISLSIGRRGYA 29 (97)
Q Consensus 13 alv~d~~sl~~~RRgYA 29 (97)
.||.|-++--|++|||.
T Consensus 7 elV~~yv~yKLsQrgy~ 23 (27)
T smart00265 7 ELVVDYVTYKLSQNGYE 23 (27)
T ss_pred HHHHHHHHHHHhhcCCC
Confidence 47889888889999995
No 9
>PF02180 BH4: Bcl-2 homology region 4; InterPro: IPR003093 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Active cell suicide (apoptosis) is induced by events such as growth factor withdrawal and toxins. It is controlled by regulators, which have either an inhibitory effect on programmed cell death (anti-apoptotic) or block the protective effect of inhibitors (pro-apoptotic) [, ]. Many viruses have found a way of countering defensive apoptosis by encoding their own anti-apoptosis genes preventing their target-cells from dying too soon. All proteins belonging to the Bcl-2 family [] contain either a BH1, BH2, BH3, or BH4 domain. All anti-apoptotic proteins contain BH1 and BH2 domains, some of them contain an additional N-terminal BH4 domain (Bcl-2, Bcl-x(L), Bcl-w), which is never seen in pro-apoptotic proteins, except for Bcl-x(S). On the other hand, all pro-apoptotic proteins contain a BH3 domain (except for Bad) necessary for dimerisation with other proteins of Bcl-2 family and crucial for their killing activity, some of them also contain BH1 and BH2 domains (Bax, Bak). The BH3 domain is also present in some anti-apoptotic protein, such as Bcl-2 or Bcl-x(L). Proteins that are known to contain these domains include vertebrate Bcl-2 (alpha and beta isoforms) and Bcl-x (isoforms (Bcl-x(L) and Bcl-x(S)); mammalian proteins Bax and Bak; mouse protein Bid; Xenopus laevis proteins Xr1 and Xr11; human induced myeloid leukemia cell differentiation protein MCL1 and Caenorhabditis elegans protein ced-9.; GO: 0042981 regulation of apoptosis; PDB: 1AF3_A 2PON_B 1YSN_A 3PL7_B 3R85_A 2O2N_A 2P1L_C 1R2G_A 2O1Y_A 1BXL_A ....
Probab=35.59 E-value=30 Score=19.22 Aligned_cols=17 Identities=41% Similarity=0.628 Sum_probs=14.6
Q ss_pred HHHHhhhhHhhhhhhhh
Q 034341 13 APVADGISLSIGRRGYA 29 (97)
Q Consensus 13 alv~d~~sl~~~RRgYA 29 (97)
.||.|-++--|++|||.
T Consensus 7 ~lV~~yi~yKLsQrgy~ 23 (27)
T PF02180_consen 7 ELVEDYISYKLSQRGYV 23 (27)
T ss_dssp HHHHHHHHHHHHHTTST
T ss_pred HHHHHHHHHHhhhcCCC
Confidence 47889888889999995
No 10
>PF03195 DUF260: Protein of unknown function DUF260; InterPro: IPR004883 The lateral organ boundaries (LOB) gene is expressed at the adaxial base of initiating lateral organs and encodes a plant-specific protein of unknown function. The N-terminal one half of the LOB protein contains a conserved approximately 100-amino acid domain (the LOB domain) that is present in 42 other Arabidopsis thaliana proteins and in proteins from a variety of other plant species. Genes encoding LOB domain (LBD) proteins are expressed in a variety of temporal- and tissue-specific patterns, suggesting that they may function in diverse processes [] The LOB domain contains conserved blocks of amino acids that identify the LBD gene family. In particular, a conserved C-x(2)-C-x(6)-C-x(3)-C motif, which is defining feature of the LOB domain, is present in all LBD proteins. It is possible that this motif forms a new zinc finger [].
Probab=33.00 E-value=17 Score=25.21 Aligned_cols=16 Identities=31% Similarity=0.341 Sum_probs=12.5
Q ss_pred cccccCCCCcccccCC
Q 034341 60 SAWAPDPITGYYRPEN 75 (97)
Q Consensus 60 ~~W~pDP~TG~y~Pen 75 (97)
..|..||+.|.+--..
T Consensus 66 ~~R~~dPv~Gc~G~i~ 81 (101)
T PF03195_consen 66 NARARDPVYGCVGIIS 81 (101)
T ss_pred HhhccCCCcchHHHHH
Confidence 4599999999885443
No 11
>COG4953 PbpC Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]
Probab=30.60 E-value=31 Score=31.78 Aligned_cols=27 Identities=37% Similarity=0.539 Sum_probs=21.3
Q ss_pred CCcccccCCCCCC-CCHHHHHHHHhccc
Q 034341 67 ITGYYRPENRAVE-IDPAELREMLLNHK 93 (97)
Q Consensus 67 ~TG~y~Pen~~~e-~D~aelR~~lL~~~ 93 (97)
.+|+|+|+|...- ..+.-.|+.|.++.
T Consensus 365 ~fg~YrP~Nfd~~F~G~VsvreAL~~SL 392 (733)
T COG4953 365 RFGDYRPENFDSNFHGPVSVREALIKSL 392 (733)
T ss_pred cccCcCCccccccccCcchHHHHHHHhc
Confidence 4699999998655 67888888888754
No 12
>TIGR03054 photo_alph_chp1 putative photosynthetic complex assembly protein. In twenty or so anoxygenic photosynthetic alpha-Proteobacteria known so far, a gene for a member of this protein family is present and is found in the vicinity of puhA, which encodes a component of the photosynthetic reaction center, and other genes associated with photosynthesis. This protein family is suggested, consequently, as a probable assembly factor for the photosynthetic reaction center, but its seems its actual function has not yet been demonstrated.
Probab=30.10 E-value=30 Score=25.35 Aligned_cols=25 Identities=24% Similarity=0.235 Sum_probs=21.4
Q ss_pred ccCCCCcccccCCCCCCCCHHHHHH
Q 034341 63 APDPITGYYRPENRAVEIDPAELRE 87 (97)
Q Consensus 63 ~pDP~TG~y~Pen~~~e~D~aelR~ 87 (97)
+-||.||..+.-+.|+....+...+
T Consensus 109 L~Dp~Tg~~i~L~aFG~dN~aaFa~ 133 (135)
T TIGR03054 109 LTDPATGWSIELNAFGADNAAAFER 133 (135)
T ss_pred EEcCCCCcEEEEeecCCchHHHHHh
Confidence 6799999999999999988776543
No 13
>PF09803 DUF2346: Uncharacterized conserved protein (DUF2346); InterPro: IPR018625 Members of this family of proteins have no known function.
Probab=28.75 E-value=20 Score=23.93 Aligned_cols=32 Identities=25% Similarity=0.496 Sum_probs=23.7
Q ss_pred cccCCCCcccccCCCCCCCCHHHHHHHHhccc
Q 034341 62 WAPDPITGYYRPENRAVEIDPAELREMLLNHK 93 (97)
Q Consensus 62 W~pDP~TG~y~Pen~~~e~D~aelR~~lL~~~ 93 (97)
||.+-...+|.|++....-...++++.+..++
T Consensus 34 ~v~~~~~~~~ppe~~~~~~ele~~~~~~~~k~ 65 (80)
T PF09803_consen 34 WVIKRKRELYPPENEEIREELEEFKEELRKKR 65 (80)
T ss_pred HhHHHhcccCCCCCcccHHHHHHHHHHHHHHH
Confidence 88777888999998765555667777776544
No 14
>TIGR02697 WPE_wolbac Wolbachia palindromic element (WPE) domain. This domain conceptually resembles TIGR01045, the Rickettsial palindromic element (RPE) domain. In both cases, a protein-coding palindromic element spreads through a genome, inserting usually in protein-coding regions. The additional protein coding sequence is thought to allow function of the host protein because of location in surface-exposed regions of the protein structure. Note that this model appears to work better in fragment mode.
Probab=28.22 E-value=26 Score=20.82 Aligned_cols=11 Identities=36% Similarity=0.733 Sum_probs=9.7
Q ss_pred CCCcccccCCC
Q 034341 66 PITGYYRPENR 76 (97)
Q Consensus 66 P~TG~y~Pen~ 76 (97)
||-+||-|||-
T Consensus 3 PV~~hwDp~~l 13 (36)
T TIGR02697 3 PVPRHWDPENL 13 (36)
T ss_pred ccccccCcchh
Confidence 78899999986
No 15
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=27.92 E-value=20 Score=27.05 Aligned_cols=35 Identities=29% Similarity=0.385 Sum_probs=0.0
Q ss_pred ccccccCCCCcccccCCCCCC------CCHH--HHHHHHhccc
Q 034341 59 SSAWAPDPITGYYRPENRAVE------IDPA--ELREMLLNHK 93 (97)
Q Consensus 59 ~~~W~pDP~TG~y~Pen~~~e------~D~a--elR~~lL~~~ 93 (97)
..-|+-.|.||-.+|++-+.| +||. |-|.+++.++
T Consensus 165 ~~~~~~cPitGe~IP~~e~~eHmRi~LlDP~wkEqr~~~~~k~ 207 (229)
T PF12230_consen 165 KEKMIICPITGEMIPADEMDEHMRIELLDPRWKEQRDRYEAKR 207 (229)
T ss_dssp -------------------------------------------
T ss_pred ccccccccccccccccccccccccccccccccccccccccccc
Confidence 446999999999999999887 5663 5555555444
No 16
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=26.86 E-value=41 Score=17.49 Aligned_cols=17 Identities=35% Similarity=0.323 Sum_probs=13.1
Q ss_pred CCCCCCCCHHHHHHHHh
Q 034341 74 ENRAVEIDPAELREMLL 90 (97)
Q Consensus 74 en~~~e~D~aelR~~lL 90 (97)
.|+.+.||..||++.|-
T Consensus 11 ~d~dG~I~~~el~~~l~ 27 (31)
T PF13405_consen 11 KDGDGFIDFEELRAILR 27 (31)
T ss_dssp TTSSSEEEHHHHHHHHH
T ss_pred CCCCCcCcHHHHHHHHH
Confidence 35668899999998763
No 17
>PF07886 BA14K: BA14K-like protein; InterPro: IPR012413 The sequences found in this family are similar to the BA14K proteins expressed by Brucella abortus (Q44701 from SWISSPROT) and by Brucella suis (Q8FVU0 from SWISSPROT). BA14K was found to be strongly immunoreactive; it induces both humoral and cellular responses in hosts throughout the infective process [].
Probab=25.99 E-value=39 Score=19.07 Aligned_cols=12 Identities=33% Similarity=0.661 Sum_probs=10.5
Q ss_pred CCCCcccccCCC
Q 034341 65 DPITGYYRPENR 76 (97)
Q Consensus 65 DP~TG~y~Pen~ 76 (97)
||.||.|+|-+.
T Consensus 14 ~p~~~Ty~~~~G 25 (31)
T PF07886_consen 14 DPRDNTYQPYDG 25 (31)
T ss_pred CCCCCcEeCCCC
Confidence 899999999764
No 18
>PF12904 Collagen_bind_2: Putative collagen-binding domain of a collagenase ; InterPro: IPR024749 This domain is likely to be the collagen-binding domain of a family of bacterial collagenase enzymes. The structure of one family member, Q8A905 from SWISSPROT, has been characterised. The domain occurs in the C-terminal region of the protein.; PDB: 3KZS_D.
Probab=25.97 E-value=19 Score=24.55 Aligned_cols=16 Identities=38% Similarity=0.596 Sum_probs=11.9
Q ss_pred ccccccCCCCcccccCC
Q 034341 59 SSAWAPDPITGYYRPEN 75 (97)
Q Consensus 59 ~~~W~pDP~TG~y~Pen 75 (97)
+.+|+ ||.||-|.+..
T Consensus 50 ~a~Wf-dPR~G~~~~~g 65 (93)
T PF12904_consen 50 KAWWF-DPRTGKYTYIG 65 (93)
T ss_dssp EEEEE-ETTT-BEEEEE
T ss_pred eEEEE-cCCCCCEEEee
Confidence 56687 99999998764
No 19
>COG3375 Uncharacterized conserved protein [Function unknown]
Probab=25.64 E-value=41 Score=27.46 Aligned_cols=13 Identities=38% Similarity=0.506 Sum_probs=11.1
Q ss_pred ccCCCCcccccCC
Q 034341 63 APDPITGYYRPEN 75 (97)
Q Consensus 63 ~pDP~TG~y~Pen 75 (97)
.++++||||||..
T Consensus 178 in~~~~g~~rp~~ 190 (266)
T COG3375 178 INPGGTGYLRPVE 190 (266)
T ss_pred cCCCCcccccccc
Confidence 3469999999988
No 20
>PF07846 Metallothio_Cad: Metallothionein family; InterPro: IPR012484 The sequence making up family 7 of the metallothionein superfamily are found repeated in metallothionein proteins expressed by two Tetrahymena species. Metallothioneins are low molecular mass, cysteine-rich metal-binding proteins that are thought to be involved in the regulation of levels of trace metals, and detoxification of these metals when present in excess []. Some of the metallothioneins found in this family (for example, Q8T6B3 from SWISSPROT) are known to be induced by cadmium and are thought to be involved in the cellular sequestration of toxic metal ions. The high proportion of cysteine residues allows the metal ions to be bound by the formation of clusters of metal-thiolate complexes []. Tetrahymena spp. metallothioneins differ from other eukaryotic metallothioneins mainly in the length of their sequences and in the cysteine-containing motifs they exhibit. ; GO: 0046870 cadmium ion binding
Probab=24.47 E-value=35 Score=18.07 Aligned_cols=8 Identities=38% Similarity=0.738 Sum_probs=6.3
Q ss_pred ccCCCCcc
Q 034341 63 APDPITGY 70 (97)
Q Consensus 63 ~pDP~TG~ 70 (97)
--||.|||
T Consensus 11 C~DPnsG~ 18 (21)
T PF07846_consen 11 CTDPNSGC 18 (21)
T ss_pred ccCCCCcc
Confidence 35999997
No 21
>PHA00542 putative Cro-like protein
Probab=24.42 E-value=71 Score=20.57 Aligned_cols=26 Identities=27% Similarity=0.252 Sum_probs=17.9
Q ss_pred CCCcccccCCCCCCCCHHHHHHHHhccc
Q 034341 66 PITGYYRPENRAVEIDPAELREMLLNHK 93 (97)
Q Consensus 66 P~TG~y~Pen~~~e~D~aelR~~lL~~~ 93 (97)
|.+|.|||.-+.. ++.++...+..++
T Consensus 6 ~~~~~~Rp~~~~~--~~~~l~~~l~~~g 31 (82)
T PHA00542 6 PATTPTIPAAYTQ--RPDELVCALIRAG 31 (82)
T ss_pred cccCCcCCcccCc--CHHHHHHHHHHCC
Confidence 5689999997755 3556766665544
No 22
>PRK13750 replication protein; Provisional
Probab=22.50 E-value=33 Score=28.28 Aligned_cols=16 Identities=31% Similarity=0.814 Sum_probs=13.5
Q ss_pred ccccccCCCCcccccCCC
Q 034341 59 SSAWAPDPITGYYRPENR 76 (97)
Q Consensus 59 ~~~W~pDP~TG~y~Pen~ 76 (97)
+..| |+.+|+|+|...
T Consensus 133 ek~w--D~~~g~yiPk~I 148 (285)
T PRK13750 133 QTEY--DPLIGCYIPTDI 148 (285)
T ss_pred eeec--cchhhcccCcce
Confidence 5568 999999999765
No 23
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=21.85 E-value=42 Score=29.04 Aligned_cols=25 Identities=32% Similarity=0.538 Sum_probs=8.2
Q ss_pred CCCCcccccCCCCCCCCHHHHHHHH
Q 034341 65 DPITGYYRPENRAVEIDPAELREML 89 (97)
Q Consensus 65 DP~TG~y~Pen~~~e~D~aelR~~l 89 (97)
.-+||||+|.+.+.+-=-+|++.+.
T Consensus 519 ~Rv~GYl~~v~~~n~gK~~E~~~R~ 543 (546)
T PF13597_consen 519 SRVTGYLRPVSRWNKGKQAEFKDRV 543 (546)
T ss_dssp B-SSSS-BTTS--------------
T ss_pred EEeeccccCccccCHHHHHHHHHhc
Confidence 4699999999988877777776543
No 24
>COG4982 3-oxoacyl-[acyl-carrier protein]
Probab=21.39 E-value=91 Score=29.17 Aligned_cols=29 Identities=21% Similarity=0.618 Sum_probs=24.5
Q ss_pred cccccCCCCcccccCCCCCCCCHHHHHHHH
Q 034341 60 SAWAPDPITGYYRPENRAVEIDPAELREML 89 (97)
Q Consensus 60 ~~W~pDP~TG~y~Pen~~~e~D~aelR~~l 89 (97)
++|--||.+|.|--+.. ..||-.|+-++.
T Consensus 762 I~w~~dP~pgWyDt~sg-e~Vde~dv~~rY 790 (866)
T COG4982 762 ISWENDPYPGWYDTKSG-EPVDEKDVKARY 790 (866)
T ss_pred hhccCCCCCCceeCCCC-CcCCHHHHHHHH
Confidence 67999999999988776 679999988764
No 25
>PF14785 MalF_P2: Maltose transport system permease protein MalF P2 domain; PDB: 3RLF_F 3PUX_F 3PV0_F 3PUY_F 3PUV_F 2R6G_F 3PUZ_F 3PUW_F.
Probab=21.38 E-value=27 Score=26.29 Aligned_cols=21 Identities=14% Similarity=0.406 Sum_probs=13.1
Q ss_pred ccccccCCCCcccccCCCCCC
Q 034341 59 SSAWAPDPITGYYRPENRAVE 79 (97)
Q Consensus 59 ~~~W~pDP~TG~y~Pen~~~e 79 (97)
..-..||..+|||.+.|.-++
T Consensus 129 G~~yrPN~d~GFyq~~~~~g~ 149 (164)
T PF14785_consen 129 GEVYRPNMDIGFYQAIDADGQ 149 (164)
T ss_dssp --EEEEETTTTEEEEE-----
T ss_pred CCEEecCCCcceeEeccccCc
Confidence 455889999999999976554
No 26
>cd04711 BAH_Dnmt1_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=20.94 E-value=23 Score=26.21 Aligned_cols=13 Identities=38% Similarity=0.792 Sum_probs=10.0
Q ss_pred ccccCCCCCCCCH
Q 034341 70 YYRPENRAVEIDP 82 (97)
Q Consensus 70 ~y~Pen~~~e~D~ 82 (97)
||||||..+-...
T Consensus 57 fYRPEdi~~g~~~ 69 (137)
T cd04711 57 FYRPENTHKGFKA 69 (137)
T ss_pred Eeccccccccccc
Confidence 8999998775433
No 27
>COG3323 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.87 E-value=39 Score=24.27 Aligned_cols=19 Identities=26% Similarity=0.401 Sum_probs=13.3
Q ss_pred ccccccCCCCcccccCCCCC
Q 034341 59 SSAWAPDPITGYYRPENRAV 78 (97)
Q Consensus 59 ~~~W~pDP~TG~y~Pen~~~ 78 (97)
..+|- --.||+|||...++
T Consensus 37 ~C~~~-~~g~G~frP~egAn 55 (109)
T COG3323 37 HCTFS-SEGTGQFRPLEGAN 55 (109)
T ss_pred eEEEE-eeeeEEEeecCCCC
Confidence 34454 35899999988764
No 28
>KOG2870 consensus NADH:ubiquinone oxidoreductase, NDUFS2/49 kDa subunit [Energy production and conversion]
Probab=20.08 E-value=44 Score=28.88 Aligned_cols=20 Identities=20% Similarity=0.587 Sum_probs=15.3
Q ss_pred cccccCCCCcccccCCCCCC
Q 034341 60 SAWAPDPITGYYRPENRAVE 79 (97)
Q Consensus 60 ~~W~pDP~TG~y~Pen~~~e 79 (97)
..|+|||+|-+|.+--.++.
T Consensus 37 ~~~yp~~~~~~w~~pp~~~~ 56 (452)
T KOG2870|consen 37 KVWYPDRVTDFWKDPPWNDN 56 (452)
T ss_pred ceeccchhhhccCCCCCcCC
Confidence 45999999999987655443
Done!