Query psy12141
Match_columns 142
No_of_seqs 104 out of 249
Neff 4.6
Searched_HMMs 46136
Date Fri Aug 16 19:45:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12141.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12141hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2240|consensus 100.0 1.4E-48 3E-53 305.7 8.3 128 10-137 3-130 (162)
2 PF01849 NAC: NAC domain; Int 99.9 1.8E-22 3.8E-27 133.7 4.2 58 48-105 1-58 (58)
3 KOG2239|consensus 99.4 7.1E-13 1.5E-17 107.6 6.5 63 45-107 63-125 (209)
4 PRK06369 nac nascent polypepti 99.2 6E-11 1.3E-15 89.2 6.1 60 46-107 5-68 (115)
5 TIGR00264 alpha-NAC-related pr 97.9 2.4E-05 5.2E-10 59.1 5.8 57 48-105 11-70 (116)
6 COG1308 EGD2 Transcription fac 96.6 0.0033 7.2E-08 48.0 4.4 55 46-101 6-64 (122)
7 PRK10877 protein disulfide iso 56.2 37 0.0008 27.6 5.8 46 44-100 19-71 (232)
8 PF10411 DsbC_N: Disulfide bon 54.2 29 0.00064 22.4 4.0 32 59-100 18-49 (57)
9 PRK06049 rpl30p 50S ribosomal 49.8 25 0.00055 27.6 3.7 54 47-111 14-68 (154)
10 PF10512 Borealin: Cell divisi 43.5 24 0.00053 26.5 2.7 43 91-133 65-109 (116)
11 PF01063 Aminotran_4: Aminotra 39.3 34 0.00074 26.5 3.0 52 65-131 124-177 (231)
12 PF05481 Myco_19_kDa: Mycobact 38.2 69 0.0015 25.4 4.6 41 63-103 95-139 (160)
13 PF08154 NLE: NLE (NUC135) dom 38.2 53 0.0011 21.7 3.4 36 79-114 4-39 (65)
14 cd01657 Ribosomal_L7_archeal_e 35.3 46 0.00099 26.0 3.2 54 47-111 13-67 (159)
15 cd07981 TAF12 TATA Binding Pro 34.0 58 0.0013 21.9 3.2 31 103-133 4-36 (72)
16 TIGR01309 L30P_arch 50S riboso 32.3 49 0.0011 25.9 2.9 54 47-111 12-66 (152)
17 PF00821 PEPCK: Phosphoenolpyr 29.5 23 0.00049 33.6 0.7 52 47-103 24-75 (586)
18 PF03958 Secretin_N: Bacterial 28.7 68 0.0015 20.9 2.8 23 81-103 43-65 (82)
19 COG0115 IlvE Branched-chain am 28.2 1.1E+02 0.0024 25.2 4.5 52 65-131 168-222 (284)
20 PF03471 CorC_HlyC: Transporte 27.9 72 0.0016 21.4 2.8 33 91-123 4-36 (81)
21 PRK00831 rpmJ 50S ribosomal pr 26.4 90 0.002 19.7 2.8 33 50-86 2-36 (41)
22 cd00819 PEPCK_GTP Phosphoenolp 25.8 56 0.0012 31.0 2.5 49 47-102 26-74 (579)
23 TIGR01310 L7 60S ribosomal pro 25.7 81 0.0018 26.5 3.3 52 49-111 88-140 (235)
24 PF01873 eIF-5_eIF-2B: Domain 25.2 76 0.0016 24.0 2.7 29 87-115 62-91 (125)
25 cd04437 DEP_Epac DEP (Dishevel 25.0 70 0.0015 24.3 2.5 46 71-123 74-119 (125)
26 cd00472 Ribosomal_L24e_L24 Rib 24.8 50 0.0011 21.7 1.5 18 71-88 21-38 (54)
27 COG1325 Predicted exosome subu 24.3 3.6E+02 0.0079 21.3 6.6 73 40-130 16-91 (149)
28 PF11016 DUF2854: Protein of u 23.6 96 0.0021 24.5 3.1 43 46-88 74-123 (147)
29 PRK09266 hypothetical protein; 23.0 79 0.0017 25.7 2.7 42 64-114 151-193 (266)
30 PRK14553 hypothetical protein; 22.9 1.3E+02 0.0028 21.8 3.5 21 68-102 3-23 (108)
31 cd01559 ADCL_like ADCL_like: 4 22.4 81 0.0017 25.2 2.6 45 64-116 141-187 (249)
32 PF08680 DUF1779: Protein of u 22.3 99 0.0022 24.4 3.0 49 48-101 131-197 (203)
33 PF00352 TBP: Transcription fa 21.5 2.6E+02 0.0057 19.0 4.7 40 75-114 39-79 (86)
34 PF15335 CAAP1: Caspase activi 21.3 88 0.0019 21.4 2.2 21 102-122 24-44 (64)
35 PRK06606 branched-chain amino 21.0 1.5E+02 0.0032 24.7 4.0 44 64-115 177-222 (306)
36 PF03548 LolA: Outer membrane 21.0 54 0.0012 23.6 1.2 41 57-97 122-164 (165)
37 cd00449 PLPDE_IV PyridoxaL 5'- 20.8 71 0.0015 25.3 2.0 45 64-116 145-191 (256)
38 PRK07546 hypothetical protein; 20.8 93 0.002 24.4 2.6 45 64-116 123-170 (209)
39 COG2868 Predicted ribosomal pr 20.6 1.3E+02 0.0028 22.5 3.2 20 68-101 3-22 (109)
40 PLN02845 Branched-chain-amino- 20.1 83 0.0018 27.0 2.3 45 64-116 202-248 (336)
No 1
>KOG2240|consensus
Probab=100.00 E-value=1.4e-48 Score=305.71 Aligned_cols=128 Identities=70% Similarity=0.971 Sum_probs=118.5
Q ss_pred CCHHHHHHHHhhccCceecCCCccccccccccCCCCcccHHHHHHHhhccCCCCCCceeEEEEeeCcEEEEecCCceeee
Q psy12141 10 MNPELLKRLQQQAGQVRIGGKGTPRRKKKVVHTTAATDDKKLQSSLKKLAVNTIPGIEEVNMIKEDGTIIHFNNPKAQAS 89 (142)
Q Consensus 10 m~~ekL~klq~~~~~vriGGKGt~RRKkK~vh~~a~~ddKKlq~~LkKlg~~~i~gIeEVnm~k~dgtvihF~~PkVqaS 89 (142)
+|+++|+||+++...+|||||||+||||+++|+++++||||+|+.|+||++++|+||+|||||++||+|+||++|+||+|
T Consensus 3 ~~~~~~~kl~k~~a~~r~ggkGt~rrkk~~~~~~~~~ddkKlqs~lkkl~v~~i~~i~evn~~k~~g~Vihf~~~~vqas 82 (162)
T KOG2240|consen 3 EDIENLAKLQKLQAVVRIGGKGTARRKKKVVHKTATADDKKLQSSLKKLGVNNIPGIEEVNMFKNDGTVIHFNNPKVQAS 82 (162)
T ss_pred ccchhHHHHhhhhheeeecCCCccccccCCCCCCCCcccchhhhhhhhhccccccchhHhhhccccceeEecCCcccccc
Confidence 44444444444444999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCeEEEecccchhhhhhhhhHhhhccChhhHHHHHHHHHHhhcccc
Q psy12141 90 LAANTFAITGHGETREITEMLPGILSQLGPEGLTQLKRLATSVAGMCK 137 (142)
Q Consensus 90 ~~sNTfvV~G~~e~K~l~emlP~Il~QlG~d~l~~L~~lae~~~~~~~ 137 (142)
+++|||+||||+++|+|+||||+|++|||++++++|++|||+++.+..
T Consensus 83 l~~nTf~ItG~~~~k~l~EmlPsilsqLg~~sl~~Lr~La~~l~~~~~ 130 (162)
T KOG2240|consen 83 LAANTFTITGHAETKQLTEMLPSILSQLGPDSLTALRRLAEQLPKQDG 130 (162)
T ss_pred ccCCeEEEecCCcccchhhhcchhhhhcChhhHHHHHHHHHhcccccc
Confidence 999999999999999999999999999999999999999999998755
No 2
>PF01849 NAC: NAC domain; InterPro: IPR002715 Nascent polypeptide-associated complex (NAC) is among the first ribosome-associated entities to bind the nascent polypeptide after peptide bond formation. The nascent polypeptide-associated complex (NAC) of yeast functions in the targeting process of ribosomes to the ER membrane []. NAC may prevent binding of ribosome nascent chains (RNCs) without a signal sequence to yeast membranes.; PDB: 3MCE_D 3MCB_A 3LKX_B 1TR8_B.
Probab=99.86 E-value=1.8e-22 Score=133.66 Aligned_cols=58 Identities=50% Similarity=0.810 Sum_probs=48.7
Q ss_pred cHHHHHHHhhccCCCCCCceeEEEEeeCcEEEEecCCceeeeccCCeEEEecccchhh
Q psy12141 48 DKKLQSSLKKLAVNTIPGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGHGETRE 105 (142)
Q Consensus 48 dKKlq~~LkKlg~~~i~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~e~K~ 105 (142)
|||+|.+|+|||+++|+||+||+|+++||++|||++|+||+|+.+|||+|||++++++
T Consensus 1 ekk~~~~l~klgl~~i~~i~eV~i~~~dg~~~~~~~P~V~~~~~~~tyvV~G~~~~~~ 58 (58)
T PF01849_consen 1 EKKLQKMLKKLGLKEIPGIEEVTIRKDDGTVFVFNNPEVQKSPGSNTYVVFGEAEEED 58 (58)
T ss_dssp -------GHHCT-EEETTEEEEEEEETTTEEEEEESEEEEEETTCCEEEEESEEEEEE
T ss_pred CHHHHHHHHHcCCcccCCcEEEEEEECCceEEEEcCCeEEEcCCCCEEEEEeeeEEcC
Confidence 6899999999999999999999999999999999999999999999999999999864
No 3
>KOG2239|consensus
Probab=99.38 E-value=7.1e-13 Score=107.60 Aligned_cols=63 Identities=21% Similarity=0.444 Sum_probs=60.3
Q ss_pred CcccHHHHHHHhhccCCCCCCceeEEEEeeCcEEEEecCCceeeeccCCeEEEecccchhhhh
Q psy12141 45 ATDDKKLQSSLKKLAVNTIPGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGHGETREIT 107 (142)
Q Consensus 45 ~~ddKKlq~~LkKlg~~~i~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~e~K~l~ 107 (142)
+..+||.|.++.|||+++|.||.+|+|.+.++..|.+++|.|+.|++++||||||++...+++
T Consensus 63 srsekKark~m~KLGlk~v~gV~RVti~ksKNilfvI~kPdVyKsp~sdtYiiFGeakiedls 125 (209)
T KOG2239|consen 63 SRSEKKARKAMLKLGLKQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIIFGEAKIEDLS 125 (209)
T ss_pred chHHHHHHHHHHhcCCccccceeEEEEEecccEEEEecCCceeccCCCceEEEecccccchhH
Confidence 358999999999999999999999999999999999999999999999999999999988877
No 4
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=99.16 E-value=6e-11 Score=89.18 Aligned_cols=60 Identities=25% Similarity=0.467 Sum_probs=55.9
Q ss_pred cccHHHHHHHhhccCC--CCCCceeEEEEeeCcEEEEecCCcee--eeccCCeEEEecccchhhhh
Q psy12141 46 TDDKKLQSSLKKLAVN--TIPGIEEVNMIKEDGTIIHFNNPKAQ--ASLAANTFAITGHGETREIT 107 (142)
Q Consensus 46 ~ddKKlq~~LkKlg~~--~i~gIeEVnm~k~dgtvihF~~PkVq--aS~~sNTfvV~G~~e~K~l~ 107 (142)
-+.||++..++|||++ +| ||+||+|.+.| ..|.|++|+|+ .+..++||+|+|++++.+++
T Consensus 5 ~nprk~rkmmkkmGik~e~i-~v~~V~Ir~~~-~~~Vi~~P~V~~m~~~g~~tY~I~Ge~~~e~~~ 68 (115)
T PRK06369 5 MNPRKMKQMMKQMGIDVEEL-DVEEVIIRLKD-KEIVFENPQVTVMDAQGQKTYQIVGEPEEVEKE 68 (115)
T ss_pred CCHHHHHHHHHHcCCcchhc-CeEEEEEEeCC-EEEEEcCCeEEEEecCCCcEEEEEeccEEeecc
Confidence 4789999999999999 99 99999999999 99999999999 79999999999999998654
No 5
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=97.93 E-value=2.4e-05 Score=59.14 Aligned_cols=57 Identities=32% Similarity=0.501 Sum_probs=46.5
Q ss_pred cHHHHHHHhhccCCCC-CCceeEEEEeeCcEEEEecCCcee--eeccCCeEEEecccchhh
Q psy12141 48 DKKLQSSLKKLAVNTI-PGIEEVNMIKEDGTIIHFNNPKAQ--ASLAANTFAITGHGETRE 105 (142)
Q Consensus 48 dKKlq~~LkKlg~~~i-~gIeEVnm~k~dgtvihF~~PkVq--aS~~sNTfvV~G~~e~K~ 105 (142)
-|+++..++++|++.. .+|+||.+.++|+.++ |++|.|. ......||.|+|.+++++
T Consensus 11 ~~~mkkmMk~MGi~~~eidV~~ViIk~~~k~iv-f~~p~V~~m~~~G~~tYqI~G~~~~~~ 70 (116)
T TIGR00264 11 LKQMQKMMKQMGMEMEDLDVEEVIIVFDDEEWI-FENPKVQVMDILGVKTYQITGKPKKEK 70 (116)
T ss_pred HHHHHHHHHHcCCCccccccEEEEEEeCCceEE-EecCeeEEEecCCcEEEEEecccEEee
Confidence 3489999999997654 4499999998887755 9999875 456788999999999875
No 6
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=96.61 E-value=0.0033 Score=48.00 Aligned_cols=55 Identities=24% Similarity=0.488 Sum_probs=46.2
Q ss_pred cccHHHHHHHhhcc--CCCCCCceeEEEEeeCcEEEEecCCceee--eccCCeEEEeccc
Q psy12141 46 TDDKKLQSSLKKLA--VNTIPGIEEVNMIKEDGTIIHFNNPKAQA--SLAANTFAITGHG 101 (142)
Q Consensus 46 ~ddKKlq~~LkKlg--~~~i~gIeEVnm~k~dgtvihF~~PkVqa--S~~sNTfvV~G~~ 101 (142)
.+-++++..++.|| +..++||++|.|...|+. |.|++|.|+- ..+.-||=|+|.+
T Consensus 6 mnpr~l~k~mkqmGi~~eeld~v~~V~i~~kd~e-~vi~~P~V~~~~~~g~~~yqi~g~~ 64 (122)
T COG1308 6 MNPRKLKKLMKQMGIDVEELDGVERVIIKLKDTE-YVIENPQVTVMKAMGQKTYQISGDP 64 (122)
T ss_pred CCHHHHHHHHHHhCCCceeccCceEEEEEcCCce-EEeeCCcEEeehhcchhHHHHhcch
Confidence 46677888899997 999999999999998877 9999999863 3455899999984
No 7
>PRK10877 protein disulfide isomerase II DsbC; Provisional
Probab=56.24 E-value=37 Score=27.62 Aligned_cols=46 Identities=24% Similarity=0.447 Sum_probs=28.3
Q ss_pred CCcccHHHHHHHhhcc-------CCCCCCceeEEEEeeCcEEEEecCCceeeeccCCeEEEecc
Q psy12141 44 AATDDKKLQSSLKKLA-------VNTIPGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGH 100 (142)
Q Consensus 44 a~~ddKKlq~~LkKlg-------~~~i~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~ 100 (142)
+.+++.-++..|+++| -.+++|+-||.+ +|.++ |-.|+ ..|+|.|+
T Consensus 19 a~a~~~~~~~~l~~~~~~v~~v~~sp~~Gl~ev~~---~~~i~-Y~~~d-------g~y~i~G~ 71 (232)
T PRK10877 19 AHADDAAIQQTLAKLGIQSADIQPSPVAGMKTVLT---ESGVL-YITDD-------GKHIIQGP 71 (232)
T ss_pred cccCHHHHHHHHHHcCCceeEEccCCCCCeEEEEE---CCeEE-EEcCC-------CCEEEeee
Confidence 3456667777777754 367899999965 33433 33333 34666664
No 8
>PF10411 DsbC_N: Disulfide bond isomerase protein N-terminus; InterPro: IPR018950 This is the N-terminal domain of the disulphide bond isomerase DsbC. The whole molecule is V-shaped, where each arm is a DsbC monomer of two domains linked by a hinge; and the N-termini of each monomer join to form the dimer interface at the base of the V, so are vital for dimerisation []. DsbC is required for disulphide bond formation and functions as a disulphide bond isomerase during oxidative protein-folding in bacterial periplasm. It also has chaperone activity []. ; PDB: 1EEJ_B 2IYJ_A 1TJD_A 1JZD_B 1JZO_A 1G0T_B 1T3B_A.
Probab=54.24 E-value=29 Score=22.36 Aligned_cols=32 Identities=28% Similarity=0.561 Sum_probs=20.5
Q ss_pred cCCCCCCceeEEEEeeCcEEEEecCCceeeeccCCeEEEecc
Q psy12141 59 AVNTIPGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGH 100 (142)
Q Consensus 59 g~~~i~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~ 100 (142)
...+++|+=||.+ .+|.++.. + ....|+|.|+
T Consensus 18 ~~spi~GlyeV~~--~~~~i~Y~-------~-~dg~yli~G~ 49 (57)
T PF10411_consen 18 SPSPIPGLYEVVL--KGGGILYV-------D-EDGRYLIQGQ 49 (57)
T ss_dssp EE-SSTTEEEEEE---TTEEEEE-------E-TTSSEEEES-
T ss_pred EcCCCCCeEEEEE--CCCeEEEE-------c-CCCCEEEEeE
Confidence 4568999999988 45555542 2 4567888885
No 9
>PRK06049 rpl30p 50S ribosomal protein L30P; Reviewed
Probab=49.82 E-value=25 Score=27.58 Aligned_cols=54 Identities=15% Similarity=0.299 Sum_probs=43.5
Q ss_pred ccHHHHHHHhhccCCCCCCceeEEEEeeCcEEEEecCCceeeecc-CCeEEEecccchhhhhhhhh
Q psy12141 47 DDKKLQSSLKKLAVNTIPGIEEVNMIKEDGTIIHFNNPKAQASLA-ANTFAITGHGETREITEMLP 111 (142)
Q Consensus 47 ddKKlq~~LkKlg~~~i~gIeEVnm~k~dgtvihF~~PkVqaS~~-sNTfvV~G~~e~K~l~emlP 111 (142)
-..+.+.+|+.||+..+.- .|++=++|.+..-+. ..-||..|++..+.+.||+-
T Consensus 14 ~~~~~r~tL~~LgL~ki~~-----------~V~v~~tp~~~GML~kV~~~V~~ge~~~~tv~~Li~ 68 (154)
T PRK06049 14 VPRDIADTLKMLRLHRVNH-----------CVLVPETPSYKGMLQKVKDYVTWGEIDADTLAELLR 68 (154)
T ss_pred CCHHHHHHHHHcCCCcCCC-----------EEEEeCCHHHHHHHHhhhceeEEeeCchHHHHHHHH
Confidence 3467889999999998754 667777887776654 67899999999999999864
No 10
>PF10512 Borealin: Cell division cycle-associated protein 8 ; InterPro: IPR018867 The chromosomal passenger complex of Aurora B kinase, INCENP, and Survivin has essential regulatory roles at centromeres and the central spindle in mitosis. Cell division cycle-associated protein 8, also known as Borealin, is also a member of the complex. Approximately half of Aurora B in mitotic cells is complexed with INCENP, Borealin, and Survivin. Depletion of Borealin by RNA interference delays mitotic progression and results in kinetochore-spindle mis-attachments and an increase in bipolar spindles associated with ectopic asters []. ; PDB: 2KDD_A.
Probab=43.47 E-value=24 Score=26.46 Aligned_cols=43 Identities=30% Similarity=0.413 Sum_probs=28.2
Q ss_pred cCCeEEEecccchhhh--hhhhhHhhhccChhhHHHHHHHHHHhh
Q psy12141 91 AANTFAITGHGETREI--TEMLPGILSQLGPEGLTQLKRLATSVA 133 (142)
Q Consensus 91 ~sNTfvV~G~~e~K~l--~emlP~Il~QlG~d~l~~L~~lae~~~ 133 (142)
.+|..|=.|..+...| .|+=+..+.||.+|.+.+|+.|...+.
T Consensus 65 ~~~vnIPl~~G~~~~l~~~dl~~~~l~~Ld~~tl~~ik~L~~~L~ 109 (116)
T PF10512_consen 65 DANVNIPLGNGKPIRLLASDLDREDLEQLDPETLNQIKTLQANLQ 109 (116)
T ss_dssp S-EE---SSSSS---EETTT--HHHHHTS-HHHHHHHHHHHHHHH
T ss_pred CccEEEecCCCeEEEcchhhcCHHHHHhcCHHHHHHHHHHHHHHH
Confidence 4556666677788888 898899999999999999999988874
No 11
>PF01063 Aminotran_4: Aminotransferase class IV; InterPro: IPR001544 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into subfamilies. One of these, called class-IV, currently consists of proteins of about 270 to 415 amino-acid residues that share a few regions of sequence similarity. Surprisingly, the best conserved region does not include the lysine residue to which the pyridoxal-phosphate group is known to be attached, in ilvE, but is located some 40 residues at the C terminus side of the pyridoxal-phosphate-lysine. The D-amino acid transferases (D-AAT), which are among the members of this entry, are required by bacteria to catalyse the synthesis of D-glutamic acid and D-alanine, which are essential constituents of bacterial cell wall and are the building block for other D-amino acids. Despite the difference in the structure of the substrates, D-AATs and L-ATTs have strong similarity [, ]. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1EKV_A 2HGX_A 1EKP_A 1KTA_B 1KT8_B 2A1H_B 2HDK_A 2HGW_B 1EKF_B 2HG8_A ....
Probab=39.33 E-value=34 Score=26.50 Aligned_cols=52 Identities=27% Similarity=0.453 Sum_probs=34.8
Q ss_pred CceeEEEEeeCcEEEEecCCceeeeccCCeEEEecccchh-hhhh-hhhHhhhccChhhHHHHHHHHHH
Q psy12141 65 GIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGHGETR-EITE-MLPGILSQLGPEGLTQLKRLATS 131 (142)
Q Consensus 65 gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~e~K-~l~e-mlP~Il~QlG~d~l~~L~~lae~ 131 (142)
|.+||-++-.+|.|.. ...+|.|++.|..=.- ++.+ +||||.- ..+-+++++
T Consensus 124 g~de~ll~d~~G~v~E--------~~~sNif~~~~~~~~TP~~~~giL~Gitr-------~~ll~~~~~ 177 (231)
T PF01063_consen 124 GADEALLLDEDGNVTE--------GSTSNIFFVKDGTLYTPPLDSGILPGITR-------QLLLELAKE 177 (231)
T ss_dssp TSSEEEEEETTSBEEE--------ESSSEEEEEETTEEEEESGSSSSB--HHH-------HHHHHHHHH
T ss_pred CcchhheecCCCCcCC--------CCCcccccccCCEEEcCChhhhhccHHHH-------HHHHHHHHh
Confidence 8889988888998665 6688999987754333 4555 8999963 345555554
No 12
>PF05481 Myco_19_kDa: Mycobacterium 19 kDa lipoprotein antigen; InterPro: IPR008691 Most of the antigens of Mycobacterium leprae and Mycobacterium tuberculosis that have been identified are members of stress protein families, which are highly conserved throughout many diverse species. Of the M. leprae and M. tuberculosis antigens identified by monoclonal antibodies, all except the 18 kDa M. leprae antigen and the 19 kDa M. tuberculosis antigen are strongly cross-reactive between these two species and are coded within very similar genes [, ].; GO: 0016020 membrane
Probab=38.20 E-value=69 Score=25.37 Aligned_cols=41 Identities=27% Similarity=0.432 Sum_probs=30.6
Q ss_pred CCCceeEEEEeeCcEEEEecCC----ceeeeccCCeEEEecccch
Q psy12141 63 IPGIEEVNMIKEDGTIIHFNNP----KAQASLAANTFAITGHGET 103 (142)
Q Consensus 63 i~gIeEVnm~k~dgtvihF~~P----kVqaS~~sNTfvV~G~~e~ 103 (142)
=|-++.|.|---||..+-|..- ...+....|||.|+|.+.-
T Consensus 95 ~p~V~sV~i~~v~G~tl~y~~g~~~g~A~vtkdG~tYtItGtA~G 139 (160)
T PF05481_consen 95 PPTVESVGIGNVDGFTLGYSEGVGGGSATVTKDGNTYTITGTATG 139 (160)
T ss_pred CceEEEEEeEccCCeEEEEeCCCCCCceEEEeCCCEEEEEEEEEe
Confidence 4567888887778877777743 4556678999999999873
No 13
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=38.18 E-value=53 Score=21.72 Aligned_cols=36 Identities=11% Similarity=0.361 Sum_probs=28.1
Q ss_pred EEecCCceeeeccCCeEEEecccchhhhhhhhhHhh
Q psy12141 79 IHFNNPKAQASLAANTFAITGHGETREITEMLPGIL 114 (142)
Q Consensus 79 ihF~~PkVqaS~~sNTfvV~G~~e~K~l~emlP~Il 114 (142)
++|....-.-......|.|.+...+++|++++-.+|
T Consensus 4 v~F~t~~~~~~~~~~~~~VP~~~t~~~Ls~LvN~LL 39 (65)
T PF08154_consen 4 VQFVTEDGEYEVPGTPISVPSNITRKELSELVNQLL 39 (65)
T ss_pred EEEEcCCCCccCCCCCEEEeCCCCHHHHHHHHHHHh
Confidence 445544443455778999999999999999999888
No 14
>cd01657 Ribosomal_L7_archeal_euk Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds domain II of the 23S rRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L7 members have an N-terminal extension not found in the archeal L7 orthologs. L7 is closely related to the ribosomal L30 protein found in eukaryotes and prokaryotes.
Probab=35.34 E-value=46 Score=26.05 Aligned_cols=54 Identities=13% Similarity=0.191 Sum_probs=41.8
Q ss_pred ccHHHHHHHhhccCCCCCCceeEEEEeeCcEEEEecCCceeeecc-CCeEEEecccchhhhhhhhh
Q psy12141 47 DDKKLQSSLKKLAVNTIPGIEEVNMIKEDGTIIHFNNPKAQASLA-ANTFAITGHGETREITEMLP 111 (142)
Q Consensus 47 ddKKlq~~LkKlg~~~i~gIeEVnm~k~dgtvihF~~PkVqaS~~-sNTfvV~G~~e~K~l~emlP 111 (142)
-..+.+.+|+.||++.+.- .|++=++|.+..-+. ..-||..|++..+.+.+|+-
T Consensus 13 ~~~~~r~tL~~LgL~k~~~-----------~v~~~~t~~~~gmL~kV~~~V~~ge~~~~tv~~Li~ 67 (159)
T cd01657 13 VPPKIRKTLQLLRLRRINN-----------AVFVKLTKATIGMLKKVEPYVTWGEPNLETLRELIY 67 (159)
T ss_pred CCHHHHHHHHHcCCCcCCC-----------EEEEeCCHHHHHHHHHhhhheEeccCcHHHHHHHHH
Confidence 3467899999999998754 566667777766543 56899999999999988853
No 15
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=33.96 E-value=58 Score=21.93 Aligned_cols=31 Identities=29% Similarity=0.385 Sum_probs=25.9
Q ss_pred hhhhhhhhhHhhh--ccChhhHHHHHHHHHHhh
Q psy12141 103 TREITEMLPGILS--QLGPEGLTQLKRLATSVA 133 (142)
Q Consensus 103 ~K~l~emlP~Il~--QlG~d~l~~L~~lae~~~ 133 (142)
...|+||++.|-+ .+++|....|.++++.|-
T Consensus 4 k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv 36 (72)
T cd07981 4 KRKLQELLKEIDPREQLDPDVEELLLEIADDFV 36 (72)
T ss_pred HHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHH
Confidence 3568899998876 689999999999999873
No 16
>TIGR01309 L30P_arch 50S ribosomal protein L30P, archaeal. This model represents the archaeal ribosomal protein similar to longer (~ 250 residue) eukaryotic 60S ribosomal protein L7 and to the much shorter (~ 60 residue) bacterial 50S ribosomal protein L30. Protein naming follows the SwissProt designation as L30P, while the gene symbol rpmD follows TIGR usage.
Probab=32.32 E-value=49 Score=25.90 Aligned_cols=54 Identities=9% Similarity=0.211 Sum_probs=42.7
Q ss_pred ccHHHHHHHhhccCCCCCCceeEEEEeeCcEEEEecCCceeeecc-CCeEEEecccchhhhhhhhh
Q psy12141 47 DDKKLQSSLKKLAVNTIPGIEEVNMIKEDGTIIHFNNPKAQASLA-ANTFAITGHGETREITEMLP 111 (142)
Q Consensus 47 ddKKlq~~LkKlg~~~i~gIeEVnm~k~dgtvihF~~PkVqaS~~-sNTfvV~G~~e~K~l~emlP 111 (142)
-..+.+.+|+-||++.+.- .|++=++|.+..-+. ..-||..|++..+.+.||+-
T Consensus 12 ~~~~~r~tL~~LrL~ri~~-----------~V~v~~tp~~~gML~kV~~yV~~ge~~~~tv~~Li~ 66 (152)
T TIGR01309 12 VPRDIADTLEMLRLHRVNH-----------CVLYPETPTYLGMLQKVKDYVTWGEIDEDTLELLIR 66 (152)
T ss_pred CCHHHHHHHHHcCCCcCCC-----------EEEEeCCHHHHHHHHHhHhheeEecCCHHHHHHHHH
Confidence 4477899999999998654 566667787766554 67899999999999999853
No 17
>PF00821 PEPCK: Phosphoenolpyruvate carboxykinase; InterPro: IPR008209 Phosphoenolpyruvate carboxykinase (PEPCK) catalyses the first committed (rate-limiting) step in hepatic gluconeogenesis, namely the reversible decarboxylation of oxaloacetate to phosphoenolpyruvate (PEP) and carbon dioxide, using either ATP or GTP as a source of phosphate. The ATP-utilising (4.1.1.49 from EC) and GTP-utilising (4.1.1.32 from EC) enzymes form two divergent subfamilies, which have little sequence similarity but which retain conserved active site residues. ATP-utilising PEPCKs are monomers or oligomers of identical subunits found in certain bacteria, yeast, trypanosomatids, and plants, while GTP-utilising PEPCKs are mainly monomers found in animals and some bacteria []. Both require divalent cations for activity, such as magnesium or manganese. One cation interacts with the enzyme at metal binding site 1 to elicit activation, while the second cation interacts at metal binding site 2 to serve as a metal-nucleotide substrate. In bacteria, fungi and plants, PEPCK is involved in the glyoxylate bypass, an alternative to the tricarboxylic acid cycle. PEPCK helps to regulate blood glucose levels. The rate of gluconeogenesis can be controlled through transcriptional regulation of the PEPCK gene by cAMP (the mediator of glucagon and catecholamines), glucocorticoids and insulin. In general, PEPCK expression is induced by glucagon, catecholamines and glucocorticoids during periods of fasting and in response to stress, but is inhibited by (glucose-induced) insulin upon feeding []. With type II diabetes, this regulation system can fail, resulting in increased gluconeogenesis that in turn raises glucose levels []. PEPCK consists of an N-terminal and a catalytic C-terminal domain, with the active site and metal ions located in a cleft between them. Both domains have an alpha/beta topology that is partly similar to one another [, ]. Substrate binding causes PEPCK to undergo a conformational change, which accelerates catalysis by forcing bulk solvent molecules out of the active site []. PCK uses an alpha/beta/alpha motif for nucleotide binding, this motif differing from other kinase domains. GTP-utilising PEPCK has a PEP-binding domain and two kinase motifs to bind GTP and magnesium. This entry represents GTP-utilising phosphoenolpyruvate carboxykinase enzymes.; GO: 0004611 phosphoenolpyruvate carboxykinase activity, 0005525 GTP binding, 0006094 gluconeogenesis; PDB: 2FAH_A 2FAF_A 2QZY_B 2ZCI_D 3MOE_A 3DT7_B 2RKD_A 2RKA_A 2RK8_A 2QF2_B ....
Probab=29.46 E-value=23 Score=33.55 Aligned_cols=52 Identities=21% Similarity=0.289 Sum_probs=32.2
Q ss_pred ccHHHHHHHhhccCCCCCCceeEEEEeeCcEEEEecCCceeeeccCCeEEEecccch
Q psy12141 47 DDKKLQSSLKKLAVNTIPGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGHGET 103 (142)
Q Consensus 47 ddKKlq~~LkKlg~~~i~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~e~ 103 (142)
+...|...+-.-| .+.+.|..+-++..+||..|.=+|-+.++||+++-..+.
T Consensus 24 E~~~l~~~~~~~G-----~~~~L~~~~~~n~~l~~sdp~DvARve~~TfI~t~~~~d 75 (586)
T PF00821_consen 24 ENDRLRDELVEQG-----EEIPLNPPKHPNCYLHRSDPSDVARVESRTFICTEDKED 75 (586)
T ss_dssp HHHHHHHHHHHTT-----SEEEE-TTTSBSEEEE---TTSSS--GGGEEEE-SSHHH
T ss_pred HHHHHHHHHHHcC-----CEEeCCCCCCCCcEEEecCccccceecCceEEEcCCccc
Confidence 4455666665444 345555577788899999999999999999999866543
No 18
>PF03958 Secretin_N: Bacterial type II/III secretion system short domain; InterPro: IPR005644 This is a group of NolW-like proteins, which are closely related to bacterial type II and III secretion system protein (IPR004846 from INTERPRO).; PDB: 3EZJ_C 2Y3M_A 3OSS_D.
Probab=28.69 E-value=68 Score=20.94 Aligned_cols=23 Identities=17% Similarity=0.228 Sum_probs=18.9
Q ss_pred ecCCceeeeccCCeEEEecccch
Q psy12141 81 FNNPKAQASLAANTFAITGHGET 103 (142)
Q Consensus 81 F~~PkVqaS~~sNTfvV~G~~e~ 103 (142)
..++.|.+....|+.+|+|.++.
T Consensus 43 ~~~~~i~~d~~tNsliv~g~~~~ 65 (82)
T PF03958_consen 43 SSSGRIVADERTNSLIVRGTPED 65 (82)
T ss_dssp HTTTEEEEECTTTEEEEEEEHHH
T ss_pred CCCeEEEEECCCCEEEEEeCHHH
Confidence 45677888889999999997765
No 19
>COG0115 IlvE Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=28.21 E-value=1.1e+02 Score=25.17 Aligned_cols=52 Identities=31% Similarity=0.523 Sum_probs=37.4
Q ss_pred CceeEEEEeeCcEEEEecCCceeeeccCCeEEEecc--cchhhhh-hhhhHhhhccChhhHHHHHHHHHH
Q psy12141 65 GIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGH--GETREIT-EMLPGILSQLGPEGLTQLKRLATS 131 (142)
Q Consensus 65 gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~--~e~K~l~-emlP~Il~QlG~d~l~~L~~lae~ 131 (142)
|.+|+-|.-.+|.|.. ...+|.|+|.|. --|-+++ .+||||.- .+|-.+|+.
T Consensus 168 G~~eal~~~~~G~V~E--------g~~sNvf~v~~dg~~~TP~~~~~iL~GitR-------~~li~la~~ 222 (284)
T COG0115 168 GADEALLLDEDGYVTE--------GAGSNVFFVKGDGVLVTPPLSGGILPGITR-------DSLLELAKE 222 (284)
T ss_pred CCCEEEEecCCCeEEE--------cCcceEEEEEECCEEECCCCCCCccccHHH-------HHHHHHHHH
Confidence 4678877777888776 457999999966 4677774 68999963 355555553
No 20
>PF03471 CorC_HlyC: Transporter associated domain; InterPro: IPR005170 This small domain is found in a family of proteins with the CBS IPR002550 from INTERPRO domain and two CBS domains with this domain found at the C terminus of the proteins, the domain is also found at the C terminus of some Na+/H+ antiporters. This domain is also found in CorC that is involved in Magnesium and cobalt efflux. The function of this domain is uncertain but might be involved in modulating transport of ion substrates.; PDB: 3DED_F 2PLI_C 2R2Z_A 2P4P_A 2O3G_A 2P3H_A 3LLB_A 3LAE_A 2P13_B 2NQW_A ....
Probab=27.91 E-value=72 Score=21.38 Aligned_cols=33 Identities=18% Similarity=0.262 Sum_probs=24.5
Q ss_pred cCCeEEEecccchhhhhhhhhHhhhccChhhHH
Q psy12141 91 AANTFAITGHGETREITEMLPGILSQLGPEGLT 123 (142)
Q Consensus 91 ~sNTfvV~G~~e~K~l~emlP~Il~QlG~d~l~ 123 (142)
..++|+|+|...-+++.+.|.-=++.-..+.+.
T Consensus 4 ~~~~~~v~G~~~l~~l~~~~~~~l~~~~~~Tl~ 36 (81)
T PF03471_consen 4 DDGTYIVSGSTPLDDLNELLGLDLPEEDYDTLG 36 (81)
T ss_dssp TTSEEEEETTSBHHHHHHHHTS-TTTTTTSBHH
T ss_pred cCCEEEEEecCCHHHHHHHHCcCCCccchhhHH
Confidence 679999999999999999887545543444444
No 21
>PRK00831 rpmJ 50S ribosomal protein L36; Validated
Probab=26.36 E-value=90 Score=19.69 Aligned_cols=33 Identities=27% Similarity=0.544 Sum_probs=22.4
Q ss_pred HHHHHHhhccCCCCCCceeEEEEeeCcEEEEec--CCce
Q psy12141 50 KLQSSLKKLAVNTIPGIEEVNMIKEDGTIIHFN--NPKA 86 (142)
Q Consensus 50 Klq~~LkKlg~~~i~gIeEVnm~k~dgtvihF~--~PkV 86 (142)
|++++++++--.. +..-+++-.|.++++. ||+-
T Consensus 2 KVr~SvKk~~~~~----~~c~vvrR~grv~Vick~nprh 36 (41)
T PRK00831 2 KVRNSLKSLKNRH----RDCQVVRRKGRVYVINKKNPRF 36 (41)
T ss_pred chhhhhhhhhccC----CCCEEEEeCCEEEEEcCCCCcc
Confidence 5667777754221 3566788899999988 7764
No 22
>cd00819 PEPCK_GTP Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity, this model describes the GTP-dependent group.
Probab=25.78 E-value=56 Score=30.98 Aligned_cols=49 Identities=14% Similarity=0.200 Sum_probs=33.5
Q ss_pred ccHHHHHHHhhccCCCCCCceeEEEEeeCcEEEEecCCceeeeccCCeEEEecccc
Q psy12141 47 DDKKLQSSLKKLAVNTIPGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGHGE 102 (142)
Q Consensus 47 ddKKlq~~LkKlg~~~i~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~e 102 (142)
|-..|...+-.-| ...+.|. ..|..+||++|.=+|-..++||+.+=+.+
T Consensus 26 e~~~l~~~~v~~G-----~~~~L~~--~~~~~l~rs~p~DvARve~rTfI~s~~~~ 74 (579)
T cd00819 26 EYDRLRDLMVEQG-----EEIRLNK--YPNSYLARSDPSDVARVESRTFICSEDEE 74 (579)
T ss_pred HHHHHHHHHHhcC-----cEeeCCC--CCCCEEEeCCccccceeccceEEecCchh
Confidence 3345555544333 2233333 37899999999999999999999985554
No 23
>TIGR01310 L7 60S ribosomal protein L7, eukaryotic. Members of this family average ~ 250 residues in length, somewhat longer than the archaeal L30P/L7E homolog (~ 155 residues) and much longer than the related bacterial/organellar form (~ 60 residues).
Probab=25.70 E-value=81 Score=26.47 Aligned_cols=52 Identities=13% Similarity=0.200 Sum_probs=34.0
Q ss_pred HHHHHHHhhccCCCCCCceeEEEEeeCcEEEEecCCceeeecc-CCeEEEecccchhhhhhhhh
Q psy12141 49 KKLQSSLKKLAVNTIPGIEEVNMIKEDGTIIHFNNPKAQASLA-ANTFAITGHGETREITEMLP 111 (142)
Q Consensus 49 KKlq~~LkKlg~~~i~gIeEVnm~k~dgtvihF~~PkVqaS~~-sNTfvV~G~~e~K~l~emlP 111 (142)
.+++.+|+.|++..+.. -||.=.+|....-+. ...||..|.|..+.+.+|+-
T Consensus 88 p~v~k~L~lLRL~~in~-----------~Vfvk~~~~~~~ML~~VepYVt~G~p~l~tvr~Li~ 140 (235)
T TIGR01310 88 PKPRKVLRLLRLKQVHN-----------GVFVKVNKATLQMLRIVEPYVAYGYPNLKSVRELIY 140 (235)
T ss_pred HHHHHHHHHhCCCccce-----------EEEEECCHHHHHHHHhcCCeEEEecCCHHHHHHHHH
Confidence 55777777777776532 233333444333322 57899999999999998853
No 24
>PF01873 eIF-5_eIF-2B: Domain found in IF2B/IF5; InterPro: IPR002735 The beta subunit of archaeal and eukaryotic translation initiation factor 2 (IF2beta) and the N-terminal domain of translation initiation factor 5 (IF5) show significant sequence homology []. Archaeal IF2beta contains two independent structural domains: an N-terminal mixed alpha/beta core domain (topological similarity to the common core of ribosomal proteins L23 and L15e), and a C-terminal domain consisting of a zinc-binding C4 finger []. Archaeal IF2beta is a ribosome-dependent GTPase that stimulates the binding of initiator Met-tRNA(i)(Met) to the ribosomes, even in the absence of other factors []. The C-terminal domain of eukaryotic IF5 is involved in the formation of the multi-factor complex (MFC), an important intermediate for the 43S pre-initiation complex assembly []. IF5 interacts directly with IF1, IF2beta and IF3c, which together with IF2-bound Met-tRNA(i)(Met) form the MFC. This entry represents both the N-terminal and zinc-binding domains of IF2, as well as a domain in IF5.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2DCU_B 2D74_B 2E9H_A 2G2K_A 1NEE_A 3CW2_L 2QMU_C 3V11_C 2NXU_A 2QN6_C ....
Probab=25.16 E-value=76 Score=23.95 Aligned_cols=29 Identities=21% Similarity=0.438 Sum_probs=23.1
Q ss_pred eeeccC-CeEEEecccchhhhhhhhhHhhh
Q psy12141 87 QASLAA-NTFAITGHGETREITEMLPGILS 115 (142)
Q Consensus 87 qaS~~s-NTfvV~G~~e~K~l~emlP~Il~ 115 (142)
++++.. +.++|.|..+.++|+++|-..+.
T Consensus 62 ~~~id~~~~lii~G~~~~~~i~~~L~~fI~ 91 (125)
T PF01873_consen 62 QGSIDGKGRLIINGRFSSKQIQDLLDKFIK 91 (125)
T ss_dssp EEEEETTTEEEEESSSSCCHHHHHHHHHHC
T ss_pred ceEECCCCEEEEEEecCHHHHHHHHHHHHH
Confidence 344444 89999999999999999877654
No 25
>cd04437 DEP_Epac DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by cyclic AMP, a second messenger that plays a role in the control of diverse cellular processes, such as cell adhesion and insulin secretion. Epac-like proteins share a common domain architecture, containing RasGEF, DEP and CAP-effector (cAMP binding) domains. The DEP domain is involved in membrane localization.
Probab=25.03 E-value=70 Score=24.30 Aligned_cols=46 Identities=22% Similarity=0.442 Sum_probs=28.4
Q ss_pred EEeeCcEEEEecCCceeeeccCCeEEEecccchhhhhhhhhHhhhccChhhHH
Q psy12141 71 MIKEDGTIIHFNNPKAQASLAANTFAITGHGETREITEMLPGILSQLGPEGLT 123 (142)
Q Consensus 71 m~k~dgtvihF~~PkVqaS~~sNTfvV~G~~e~K~l~emlP~Il~QlG~d~l~ 123 (142)
-|+++...|.|....-... .+ ...+-++.++|-+ .+|+|+|||.+-
T Consensus 74 ~F~D~~~fYrF~~d~~~~~----~~--~~~~~eee~~~~v-~~l~q~~p~~~~ 119 (125)
T cd04437 74 HFQDKYQFYRFSDDECSPA----PL--EKREAEEELQEAV-TLLSQLGPDALL 119 (125)
T ss_pred ccccCCeeEEECCccCCcc----cc--hhhhhHHHHHHHH-HHHHhhCcHHHH
Confidence 5667667888987744221 11 2333445566653 588999999863
No 26
>cd00472 Ribosomal_L24e_L24 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor binding site. L24e/L24 appears to play a role in the kinetics of peptide synthesis, and may be involved in interactions between the large and small subunits, either directly or through other factors. In mouse, a deletion mutation in L24 has been identified as the cause for the belly spot and tail (Bst) mutation that results in disrupted pigmentation, somitogenesis and retinal cell fate determination. L24 may be an important protein in eukaryotic reproduction: in shrimp, L24 expression is elevated in the ovary, suggesting a role in oogenesis, and in Arabidopsis, L24 has been proposed to have a specific function in gynoecium development. No protein with sequence or structural homology to L24e/L24 has been identifi
Probab=24.76 E-value=50 Score=21.70 Aligned_cols=18 Identities=22% Similarity=0.632 Sum_probs=14.3
Q ss_pred EEeeCcEEEEecCCceee
Q psy12141 71 MIKEDGTIIHFNNPKAQA 88 (142)
Q Consensus 71 m~k~dgtvihF~~PkVqa 88 (142)
+.+.||+|++|-+.|-..
T Consensus 21 ~Vr~Dgkv~~F~s~Kc~~ 38 (54)
T cd00472 21 YVRNDGKVFRFCSSKCEK 38 (54)
T ss_pred EEecCCCEEEEECHHHHH
Confidence 457899999999887543
No 27
>COG1325 Predicted exosome subunit [Translation, ribosomal structure and biogenesis]
Probab=24.32 E-value=3.6e+02 Score=21.35 Aligned_cols=73 Identities=25% Similarity=0.432 Sum_probs=51.6
Q ss_pred ccCCCCcccHHHHHHHhhccCCCCCCce--eEEEEeeCcEEEEecCCceeeeccCCeEEEecccch-hhhhhhhhHhhhc
Q psy12141 40 VHTTAATDDKKLQSSLKKLAVNTIPGIE--EVNMIKEDGTIIHFNNPKAQASLAANTFAITGHGET-REITEMLPGILSQ 116 (142)
Q Consensus 40 vh~~a~~ddKKlq~~LkKlg~~~i~gIe--EVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~e~-K~l~emlP~Il~Q 116 (142)
+|. +.|+.|+-.+|.-+ +|+.- |++.....| ||-|| -++++..-+. +.+.+.|-.|+.+
T Consensus 16 iHa--TED~~kV~eAL~~~----~p~~~~~e~ev~~aeG---hyGNp---------I~il~~~l~~~~~~~~flk~i~e~ 77 (149)
T COG1325 16 IHA--TEDEEKVLEALENF----FPEAIDVEIEVTEAEG---HYGNP---------ITILEVRLERSREARKFLKKLREL 77 (149)
T ss_pred EEc--cCCHHHHHHHHHHh----cCcccccceEEEEeec---ccCCe---------EEEEEEEecCcHHHHHHHHHHHHh
Confidence 454 47999999999765 33333 444444454 56666 3477777777 7899999999999
Q ss_pred cChhhHHHHHHHHH
Q psy12141 117 LGPEGLTQLKRLAT 130 (142)
Q Consensus 117 lG~d~l~~L~~lae 130 (142)
++-+-...|+...+
T Consensus 78 l~~ed~~~l~~~le 91 (149)
T COG1325 78 LGEEDREYLLETLE 91 (149)
T ss_pred cChHHHHHHHHhhH
Confidence 99887777766443
No 28
>PF11016 DUF2854: Protein of unknown function (DUF2854); InterPro: IPR021275 This family of proteins has no known function.
Probab=23.55 E-value=96 Score=24.53 Aligned_cols=43 Identities=21% Similarity=0.458 Sum_probs=31.5
Q ss_pred cccHHHHHHHhhccCC-------CCCCceeEEEEeeCcEEEEecCCceee
Q psy12141 46 TDDKKLQSSLKKLAVN-------TIPGIEEVNMIKEDGTIIHFNNPKAQA 88 (142)
Q Consensus 46 ~ddKKlq~~LkKlg~~-------~i~gIeEVnm~k~dgtvihF~~PkVqa 88 (142)
.++--|-.+|++||+. .+-||.|...--.=+-+++|..|.|.-
T Consensus 74 GqeaHLe~aL~~L~L~~~~~~~P~L~~irE~~~~g~Y~LvL~F~s~~v~l 123 (147)
T PF11016_consen 74 GQEAHLEEALERLGLSWDDDEPPQLQGIREEVIDGAYGLVLEFESPAVPL 123 (147)
T ss_pred cHHHHHHHHHHHhcCCCCcccChhhhheeeeeeCCceEEEEEEecCCCcH
Confidence 5677789999999993 355788876433334889999998854
No 29
>PRK09266 hypothetical protein; Provisional
Probab=23.01 E-value=79 Score=25.66 Aligned_cols=42 Identities=19% Similarity=0.279 Sum_probs=26.6
Q ss_pred CCceeEEEEeeCcEEEEecCCceeeeccCCeEEEeccc-chhhhhhhhhHhh
Q psy12141 64 PGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGHG-ETREITEMLPGIL 114 (142)
Q Consensus 64 ~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~-e~K~l~emlP~Il 114 (142)
.|.+|+-|...+|. |-....+|.|++.|.- -|=+. .+||||.
T Consensus 151 ~g~de~l~ln~~g~--------v~E~~~sNlf~v~~~~l~TP~~-~~L~GIt 193 (266)
T PRK09266 151 AGFDDALFVDPDGR--------VSEGATWNLGFWDGGAVVWPQA-PALPGVT 193 (266)
T ss_pred cCCCeEEEEcCCCc--------EEEcCceEEEEEECCEEECCCC-CccchHH
Confidence 46677766655554 4457789999987732 22222 5788885
No 30
>PRK14553 hypothetical protein; Provisional
Probab=22.86 E-value=1.3e+02 Score=21.81 Aligned_cols=21 Identities=33% Similarity=0.819 Sum_probs=14.5
Q ss_pred eEEEEeeCcEEEEecCCceeeeccCCeEEEecccc
Q psy12141 68 EVNMIKEDGTIIHFNNPKAQASLAANTFAITGHGE 102 (142)
Q Consensus 68 EVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~e 102 (142)
+|++++++|.+. .|.|+|||.
T Consensus 3 ~v~i~~~~~~i~--------------~~~i~GHA~ 23 (108)
T PRK14553 3 KVTIKRKNGQII--------------SFTMSGHAG 23 (108)
T ss_pred EEEEEEeCCEEE--------------EEEEEeCCC
Confidence 567767666554 567888887
No 31
>cd01559 ADCL_like ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most members of this subgroup are likely to function as dimers. The enzyme from E.Coli, the structure of which is available, is a homodimer that is folded into a small and a larger domain. The coenzyme pyridoxal 5; -phosphate resides at the interface of the two domains that is linked by a flexible loop. Members of this subgroup are found in Eukaryotes and bacteria.
Probab=22.42 E-value=81 Score=25.23 Aligned_cols=45 Identities=29% Similarity=0.417 Sum_probs=29.6
Q ss_pred CCceeEEEEeeCcEEEEecCCceeeeccCCeEEEec-ccchhhhhh-hhhHhhhc
Q psy12141 64 PGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITG-HGETREITE-MLPGILSQ 116 (142)
Q Consensus 64 ~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G-~~e~K~l~e-mlP~Il~Q 116 (142)
.|.+|+-|..++|.|. -...+|-|++.| .--|-+++. +||||.-+
T Consensus 141 ~g~de~l~l~~~g~v~--------E~~~~Nif~~~~~~~~TP~~~~g~L~Gitr~ 187 (249)
T cd01559 141 RGADEALFLDTDGRVI--------EGTASNLFFVKDGELVTPSLDRGGLAGITRQ 187 (249)
T ss_pred cCCCEEEEEcCCCCEE--------EecceEEEEEECCEEECCCcccCccccHHHH
Confidence 4667776666666544 466889999976 333445654 89998643
No 32
>PF08680 DUF1779: Protein of unknown function (DUF1779); InterPro: IPR014794 This entry represents uncharacterised proteins. The structure of the YwmB protein from Bacillus subtilis has shown it to adopt an alpha/beta fold. ; PDB: 2FPN_A.
Probab=22.29 E-value=99 Score=24.45 Aligned_cols=49 Identities=24% Similarity=0.414 Sum_probs=23.4
Q ss_pred cHHHHHHHhhccCCCCCCceeEEEE-------------eeCcEEEEecCCceeeeccCC-----eEEEeccc
Q psy12141 48 DKKLQSSLKKLAVNTIPGIEEVNMI-------------KEDGTIIHFNNPKAQASLAAN-----TFAITGHG 101 (142)
Q Consensus 48 dKKlq~~LkKlg~~~i~gIeEVnm~-------------k~dgtvihF~~PkVqaS~~sN-----TfvV~G~~ 101 (142)
++++...|+.|+++++.++.+-+++ ...|.-+ -||.++..+ ||++-|.|
T Consensus 131 ~~~~~~~l~~l~A~~vE~~~~~~~vSvsaYt~~~~~~i~~~~~k~-----NlqiAlr~~~~~~~T~I~iGTP 197 (203)
T PF08680_consen 131 EKIAERLLKKLGAKPVESLKDENFVSVSAYTPKWDDSIQTGGKKM-----NLQIALRYNSYGGKTYITIGTP 197 (203)
T ss_dssp HHHHHHHHHHH---------BTTEEEEEE--TTSS--EEETTEEE------EEEEEE--------EEEEESS
T ss_pred HHHHHHHHHHcCCcEeeEEecccEEEEEEEccchhhhhhcCCeEE-----EEEEEEEecCCCCCEEEEEEec
Confidence 5667889999999999999887763 1222222 356666555 99998865
No 33
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=21.47 E-value=2.6e+02 Score=19.02 Aligned_cols=40 Identities=30% Similarity=0.473 Sum_probs=28.9
Q ss_pred CcEEEEecCCceeeec-cCCeEEEecccchhhhhhhhhHhh
Q psy12141 75 DGTIIHFNNPKAQASL-AANTFAITGHGETREITEMLPGIL 114 (142)
Q Consensus 75 dgtvihF~~PkVqaS~-~sNTfvV~G~~e~K~l~emlP~Il 114 (142)
-|-++-+.+|++-..+ ++.-++|+|....+++.+-+..|+
T Consensus 39 pgl~~r~~~p~~t~~IF~sGki~itGaks~~~~~~a~~~i~ 79 (86)
T PF00352_consen 39 PGLIYRLRNPKATVLIFSSGKIVITGAKSEEEAKKAIEKIL 79 (86)
T ss_dssp SSEEEEETTTTEEEEEETTSEEEEEEESSHHHHHHHHHHHH
T ss_pred CeEEEeecCCcEEEEEEcCCEEEEEecCCHHHHHHHHHHHH
Confidence 3677888888887774 677888999877777665554443
No 34
>PF15335 CAAP1: Caspase activity and apoptosis inhibitor 1
Probab=21.27 E-value=88 Score=21.42 Aligned_cols=21 Identities=33% Similarity=0.564 Sum_probs=16.1
Q ss_pred chhhhhhhhhHhhhccChhhH
Q psy12141 102 ETREITEMLPGILSQLGPEGL 122 (142)
Q Consensus 102 e~K~l~emlP~Il~QlG~d~l 122 (142)
..|.|..|+|.+|...--+.+
T Consensus 24 ~~kkl~~MlPd~LK~~~l~el 44 (64)
T PF15335_consen 24 KEKKLQKMLPDILKGCSLEEL 44 (64)
T ss_pred CHHHHHHHCHHHHhcCCHHHH
Confidence 358899999999987754443
No 35
>PRK06606 branched-chain amino acid aminotransferase; Validated
Probab=21.03 E-value=1.5e+02 Score=24.68 Aligned_cols=44 Identities=23% Similarity=0.356 Sum_probs=28.4
Q ss_pred CCceeEEEEeeCcEEEEecCCceeeeccCCeEEEeccc-chhhhhh-hhhHhhh
Q psy12141 64 PGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGHG-ETREITE-MLPGILS 115 (142)
Q Consensus 64 ~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~-e~K~l~e-mlP~Il~ 115 (142)
.|.+|+-|.-+||.|. -...+|.|+|.|.. -|-++.. +||||.-
T Consensus 177 ~G~de~l~l~~~g~v~--------E~~~sNlf~v~~~~l~TP~~~~giL~GitR 222 (306)
T PRK06606 177 NGYDEALLLDVEGYVS--------EGSGENIFIVRDGVLYTPPLTSSILEGITR 222 (306)
T ss_pred cCCCEEEEECCCCCEE--------EcCceEEEEEECCEEECCCCcCCcCCCHHH
Confidence 3666766665566544 46689999997743 2334654 8888863
No 36
>PF03548 LolA: Outer membrane lipoprotein carrier protein LolA; InterPro: IPR004564 This protein, LolA, is known so far only in the gamma subdivision of the Proteobacteria. In Escherichia coli, lipoproteins are anchored to the periplasmic side of either the inner or outer membrane through N-terminal lipids, depending on the lipoprotein-sorting signal present at position 2 []. Five Lol proteins are involved in the sorting and outer membrane localization of lipoproteins. LolCDE, an ATP binding cassette (ABC) transporter, in the inner membrane releases outer membrane-directed lipoproteins from the inner membrane in an ATP-dependent manner, leading to the formation of a water-soluble complex between the lipoprotein and the molecular chaperone, LolA. The LolA-lipoprotein complex crosses the periplasm and then interacts with outer membrane receptor LolB, which is essential for the anchoring of lipoproteins to the outer membrane. E. coli lipoproteins are anchored to the inner or outer membrane depending on the residue at position 2. Aspartate at this position makes lipoproteins specific to the inner membrane, whereas other residues cause the release of lipoproteins from the inner membrane.; GO: 0015031 protein transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2W7Q_B 1UA8_A 1IWL_A 2ZPC_A 2ZPD_A 3KSN_A.
Probab=20.98 E-value=54 Score=23.62 Aligned_cols=41 Identities=24% Similarity=0.468 Sum_probs=26.5
Q ss_pred hccCCCCCCceeEEEEeeCc--EEEEecCCceeeeccCCeEEE
Q psy12141 57 KLAVNTIPGIEEVNMIKEDG--TIIHFNNPKAQASLAANTFAI 97 (142)
Q Consensus 57 Klg~~~i~gIeEVnm~k~dg--tvihF~~PkVqaS~~sNTfvV 97 (142)
+|.+..=..|.++.++-.+| +.|.|.+.+.-..+..+.|.+
T Consensus 122 ~l~~~~~~~i~~i~i~~~~G~~t~i~f~~~~~n~~i~~~~F~f 164 (165)
T PF03548_consen 122 KLWFDKKTWIKRIEIVDKNGNRTTIEFSNVKTNQPISDSLFKF 164 (165)
T ss_dssp EEEEETTC-EEEEEEEETTS-EEEEEEEEEEECS---GGGGS-
T ss_pred EEEECCCCCeEEEEEEECCCCEEEEEEEeeEeCCCCCccceEe
Confidence 34444444489999998776 788898888877777777754
No 37
>cd00449 PLPDE_IV PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate lyases (ADCL). BCAT catalyzes the reversible transamination reaction between the L-branched-chain amino and alpha-keto acids. DAAT catalyzes the synthesis of D-glutamic acid and D-alanine, and ADCL converts 4-amino-4-deoxychorismate to p-aminobenzoate and pyruvate. Except for a few enzymes, i. e., Escherichia coli and Salmonella BCATs, which are homohexamers arranged as a double trimer, the class IV PLPDEs are homodimers. Homodimer formation is required for catalytic activity.
Probab=20.83 E-value=71 Score=25.29 Aligned_cols=45 Identities=24% Similarity=0.465 Sum_probs=30.5
Q ss_pred CCceeEEEEeeCcEEEEecCCceeeeccCCeEEEecc-cchhhhhh-hhhHhhhc
Q psy12141 64 PGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGH-GETREITE-MLPGILSQ 116 (142)
Q Consensus 64 ~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~-~e~K~l~e-mlP~Il~Q 116 (142)
.|.+|+-|..++|.|.. ...+|.|++.|. --|=++.. +||||.-+
T Consensus 145 ~g~de~llld~~g~v~E--------~s~sNlf~~~~~~l~TP~~~~g~L~GitR~ 191 (256)
T cd00449 145 AGADEALLLDDNGYVTE--------GSASNVFIVKDGELVTPPLDGGILPGITRD 191 (256)
T ss_pred cCCCEEEEECCCCcEEE--------cCceEEEEEECCEEEeCCCCCCcCcchhHH
Confidence 46677777766665554 668999999763 33445655 89998754
No 38
>PRK07546 hypothetical protein; Provisional
Probab=20.77 E-value=93 Score=24.40 Aligned_cols=45 Identities=27% Similarity=0.497 Sum_probs=31.7
Q ss_pred CCceeEEEEeeCcEEEEecCCceeeeccCCeEEEecccch--hhhh-hhhhHhhhc
Q psy12141 64 PGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAITGHGET--REIT-EMLPGILSQ 116 (142)
Q Consensus 64 ~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~e~--K~l~-emlP~Il~Q 116 (142)
.|.+|+-|+-+||.|.- ...+|-|++.|..-. =++. .+||||.-+
T Consensus 123 ~g~de~l~l~~~G~v~E--------~s~~Ni~~~~~~~~~~TP~~~~g~L~Gi~R~ 170 (209)
T PRK07546 123 AEADEVILLNERGEVCE--------GTITNVFLDRGGGMLTTPPLSCGLLPGVLRA 170 (209)
T ss_pred CCCCEEEEECCCCcEEE--------cCceeEEEEECCEEEECCCCcCCCCccHHHH
Confidence 78899988888887765 557899999864332 3444 378888543
No 39
>COG2868 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]
Probab=20.65 E-value=1.3e+02 Score=22.54 Aligned_cols=20 Identities=25% Similarity=0.675 Sum_probs=13.5
Q ss_pred eEEEEeeCcEEEEecCCceeeeccCCeEEEeccc
Q psy12141 68 EVNMIKEDGTIIHFNNPKAQASLAANTFAITGHG 101 (142)
Q Consensus 68 EVnm~k~dgtvihF~~PkVqaS~~sNTfvV~G~~ 101 (142)
.|++++.||.+. .|+++|||
T Consensus 3 ~v~i~rk~~~i~--------------s~~~sGHA 22 (109)
T COG2868 3 KVVIKRKNGQIV--------------SLTASGHA 22 (109)
T ss_pred EEEEEecCCeEE--------------EEEEeccc
Confidence 466777666654 56788887
No 40
>PLN02845 Branched-chain-amino-acid aminotransferase-like protein
Probab=20.12 E-value=83 Score=26.96 Aligned_cols=45 Identities=18% Similarity=0.192 Sum_probs=29.2
Q ss_pred CCceeEEEEeeCcEEEEecCCceeeeccCCeEEEe--cccchhhhhhhhhHhhhc
Q psy12141 64 PGIEEVNMIKEDGTIIHFNNPKAQASLAANTFAIT--GHGETREITEMLPGILSQ 116 (142)
Q Consensus 64 ~gIeEVnm~k~dgtvihF~~PkVqaS~~sNTfvV~--G~~e~K~l~emlP~Il~Q 116 (142)
.|.+|+-|...+|.|. ....+|.|.|. |.--|=++..+||||.-+
T Consensus 202 ~G~deaLlln~~G~V~--------Egt~sNiF~v~~~~~l~TP~l~~iL~GItR~ 248 (336)
T PLN02845 202 RGAFAGIWLDEEGFVA--------EGPNMNVAFLTNDGELVLPPFDKILSGCTAR 248 (336)
T ss_pred cCCCEEEEECCCCcEE--------EcCcceEEEEEECCEEEeCCCCCcCccHHHH
Confidence 5667776666666544 46789997663 444444565689999643
Done!