Query 035443
Match_columns 65
No_of_seqs 22 out of 24
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 03:01:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035443.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035443hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14987 NADHdh_A3: NADH dehyd 95.7 0.0038 8.2E-08 41.0 0.6 31 3-33 5-35 (84)
2 PF15061 DUF4538: Domain of un 91.1 0.059 1.3E-06 33.2 -0.1 29 16-44 8-37 (58)
3 PF02532 PsbI: Photosystem II 71.7 4.4 9.5E-05 23.2 2.2 23 4-26 1-23 (36)
4 PF11511 RhodobacterPufX: Intr 67.3 2.9 6.3E-05 26.4 0.9 19 23-51 45-63 (67)
5 COG2205 KdpD Osmosensitive K+ 43.9 10 0.00022 33.3 0.8 14 50-63 146-159 (890)
6 PRK10591 hypothetical protein; 43.9 13 0.00028 24.7 1.1 22 14-35 41-62 (92)
7 PF07214 DUF1418: Protein of u 43.5 13 0.00028 24.7 1.0 22 14-35 41-62 (96)
8 PF10399 UCR_Fe-S_N: Ubiquitin 41.7 19 0.00041 20.3 1.4 25 17-43 16-40 (41)
9 PRK11056 hypothetical protein; 41.1 16 0.00034 25.3 1.2 22 14-36 64-85 (120)
10 COG4989 Predicted oxidoreducta 40.7 7.7 0.00017 30.3 -0.4 15 15-30 204-218 (298)
11 KOG3808 Uncharacterized conser 37.7 24 0.00052 22.8 1.6 19 8-26 50-68 (74)
12 PF07226 DUF1422: Protein of u 37.0 20 0.00043 24.7 1.2 22 14-36 64-85 (117)
13 KOG1655 Protein involved in va 30.4 32 0.00069 26.0 1.5 20 41-60 5-25 (218)
14 CHL00024 psbI photosystem II p 30.1 5.1 0.00011 22.9 -2.2 21 6-26 3-23 (36)
15 smart00542 FYRC "FY-rich" doma 29.6 22 0.00048 21.8 0.4 20 26-46 53-72 (86)
16 PRK15471 chain length determin 28.2 31 0.00066 26.0 1.1 48 5-55 22-70 (325)
17 PRK14813 NADH dehydrogenase su 28.1 40 0.00086 24.5 1.6 54 5-59 83-146 (189)
18 PF09012 FeoC: FeoC like trans 26.4 53 0.0012 18.7 1.6 42 5-47 3-44 (69)
19 COG4042 Predicted membrane pro 25.3 43 0.00093 22.8 1.3 31 22-52 25-57 (104)
20 PF05957 DUF883: Bacterial pro 25.2 98 0.0021 18.6 2.7 31 3-34 61-91 (94)
21 PRK02655 psbI photosystem II r 24.9 7.5 0.00016 22.5 -2.1 21 6-26 3-23 (38)
22 PRK10132 hypothetical protein; 24.6 83 0.0018 20.6 2.5 29 5-34 76-104 (108)
23 PF07613 DUF1576: Protein of u 23.3 42 0.00091 24.1 1.0 17 13-29 62-78 (183)
24 TIGR02593 CRISPR_cas5 CRISPR-a 22.8 58 0.0013 17.4 1.3 31 31-61 10-41 (42)
25 PF13286 HD_assoc: Phosphohydr 22.7 38 0.00082 19.7 0.5 10 52-61 74-83 (92)
26 PRK10884 SH3 domain-containing 21.1 78 0.0017 22.6 1.9 25 6-33 170-194 (206)
No 1
>PF14987 NADHdh_A3: NADH dehydrogenase 1 alpha subcomplex subunit 3
Probab=95.68 E-value=0.0038 Score=41.03 Aligned_cols=31 Identities=29% Similarity=0.505 Sum_probs=27.0
Q ss_pred HHHHHHHHHhhchhhhhhhhhhhhcchhhhh
Q 035443 3 VMEKLRMFVAQEPVVAASCLMGAFGLFLPAV 33 (65)
Q Consensus 3 vmeklr~fv~qEPVvaaSclI~G~GLfLpAv 33 (65)
+..-||..-.||||+++||.|+|+.+.||.+
T Consensus 5 ~~afLKnAWaKEPVlvvSf~ig~lavilP~l 35 (84)
T PF14987_consen 5 LGAFLKNAWAKEPVLVVSFVIGGLAVILPPL 35 (84)
T ss_pred HHHHHHHhhhcCCeEEeeehhhhhhhhcCCc
Confidence 4556888899999999999999999888865
No 2
>PF15061 DUF4538: Domain of unknown function (DUF4538)
Probab=91.14 E-value=0.059 Score=33.16 Aligned_cols=29 Identities=24% Similarity=0.474 Sum_probs=23.6
Q ss_pred hhhhhhhhhhhcc-hhhhhhhhhhhccccC
Q 035443 16 VVAASCLMGAFGL-FLPAVVRPMLDSFESS 44 (65)
Q Consensus 16 VvaaSclI~G~GL-fLpAvVrPilds~e~s 44 (65)
.+..+|+++.+|+ |+|-++||+|++=|+.
T Consensus 8 ~~~~ggfVg~iG~a~Ypi~~~Pmm~~eeYk 37 (58)
T PF15061_consen 8 ALFVGGFVGLIGAALYPIYFRPMMNPEEYK 37 (58)
T ss_pred hhhHHHHHHHHHHHHhhhhcccccChHHHH
Confidence 4567899999998 5799999999985554
No 3
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=71.75 E-value=4.4 Score=23.15 Aligned_cols=23 Identities=26% Similarity=0.346 Sum_probs=15.4
Q ss_pred HHHHHHHHhhchhhhhhhhhhhh
Q 035443 4 MEKLRMFVAQEPVVAASCLMGAF 26 (65)
Q Consensus 4 meklr~fv~qEPVvaaSclI~G~ 26 (65)
|..||++|+--=....|++|.||
T Consensus 1 M~~LK~~Vy~vV~ffv~LFifGf 23 (36)
T PF02532_consen 1 MLTLKIFVYTVVIFFVSLFIFGF 23 (36)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CeEEEEeehhhHHHHHHHHhccc
Confidence 66789888865555566666665
No 4
>PF11511 RhodobacterPufX: Intrinsic membrane protein PufX; InterPro: IPR020169 PufX organises RC-LH1, the photosynthesis reaction centre-light harvesting complex 1 core complex of Rhodobacter sphaeroides []. It also facilitates the exchange of quinol for quinone between the reaction centre and cytochrome bc(1) complexes. In organic solvent, PufX contains two hydrophobic helices which are flanked by unstructured regions and connected by a helical bend [].; PDB: 2DW3_A 2ITA_A 2NRG_A.
Probab=67.30 E-value=2.9 Score=26.41 Aligned_cols=19 Identities=47% Similarity=0.852 Sum_probs=14.3
Q ss_pred hhhhcchhhhhhhhhhhccccCCCCCCCc
Q 035443 23 MGAFGLFLPAVVRPMLDSFESSKQVPQPA 51 (65)
Q Consensus 23 I~G~GLfLpAvVrPilds~e~sk~vp~p~ 51 (65)
++++|++|| |.|++.|.|.
T Consensus 45 ~~~iG~~LP----------e~s~~aP~P~ 63 (67)
T PF11511_consen 45 LYFIGLLLP----------ERSRQAPDPN 63 (67)
T ss_dssp HHHHHHSST----------TTCSS-SSSS
T ss_pred HHHHHHhCc----------hhcccCCCCC
Confidence 356788888 7899999885
No 5
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=43.93 E-value=10 Score=33.32 Aligned_cols=14 Identities=57% Similarity=0.933 Sum_probs=12.0
Q ss_pred CchHHhhhhccccc
Q 035443 50 PALSDVVAGVTGKK 63 (65)
Q Consensus 50 p~L~dVvag~tgKk 63 (65)
=||||+|++|||-.
T Consensus 146 ESLnDvV~~iTgv~ 159 (890)
T COG2205 146 ESLNDVVAGITGVR 159 (890)
T ss_pred hHHHHHHHhccCeE
Confidence 48999999999953
No 6
>PRK10591 hypothetical protein; Provisional
Probab=43.92 E-value=13 Score=24.65 Aligned_cols=22 Identities=32% Similarity=0.357 Sum_probs=17.8
Q ss_pred chhhhhhhhhhhhcchhhhhhh
Q 035443 14 EPVVAASCLMGAFGLFLPAVVR 35 (65)
Q Consensus 14 EPVvaaSclI~G~GLfLpAvVr 35 (65)
.|-.+...+..|+|+.+||.+-
T Consensus 41 ~~~aai~mif~Gi~lmiPAav~ 62 (92)
T PRK10591 41 TPTAAILMIFLGVLLMLPAAVV 62 (92)
T ss_pred CchHHHHHHHHHHHHhhHHHHH
Confidence 3556777889999999999863
No 7
>PF07214 DUF1418: Protein of unknown function (DUF1418); InterPro: IPR010815 This family consists of several hypothetical Enterobacterial proteins of around 100 residues in length. Members of this family are often described as YbjC. In Escherichia coli the ybjC gene is located downstream of nfsA (which encodes the major oxygen-insensitive nitroreductase). It is thought that nfsA and ybjC form an operon an its promoter is a class I SoxS-dependent promoter []. The function of this family is unknown.
Probab=43.49 E-value=13 Score=24.73 Aligned_cols=22 Identities=36% Similarity=0.637 Sum_probs=17.7
Q ss_pred chhhhhhhhhhhhcchhhhhhh
Q 035443 14 EPVVAASCLMGAFGLFLPAVVR 35 (65)
Q Consensus 14 EPVvaaSclI~G~GLfLpAvVr 35 (65)
.|-.+-..++.|+|+.+||.+-
T Consensus 41 ~~~aai~MIf~Gi~lMlPAav~ 62 (96)
T PF07214_consen 41 TPTAAIAMIFVGIGLMLPAAVN 62 (96)
T ss_pred CchHHHHHHHHHHHHHHHHHHH
Confidence 3556777889999999999763
No 8
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=41.69 E-value=19 Score=20.26 Aligned_cols=25 Identities=28% Similarity=0.446 Sum_probs=18.6
Q ss_pred hhhhhhhhhhcchhhhhhhhhhhcccc
Q 035443 17 VAASCLMGAFGLFLPAVVRPMLDSFES 43 (65)
Q Consensus 17 vaaSclI~G~GLfLpAvVrPilds~e~ 43 (65)
..+.+.++|+|.. +++-|+++||.-
T Consensus 16 ~~at~~~gavG~~--~~a~Pfv~s~~P 40 (41)
T PF10399_consen 16 TIATSAVGAVGAA--AAAWPFVSSMNP 40 (41)
T ss_dssp HHHHHHHHHHHHH--HHHHHHHHTTSS
T ss_pred HHHHHHHHHHHHH--HHHHHHHhccCC
Confidence 3577788888876 455699999864
No 9
>PRK11056 hypothetical protein; Provisional
Probab=41.10 E-value=16 Score=25.26 Aligned_cols=22 Identities=32% Similarity=0.543 Sum_probs=15.8
Q ss_pred chhhhhhhhhhhhcchhhhhhhh
Q 035443 14 EPVVAASCLMGAFGLFLPAVVRP 36 (65)
Q Consensus 14 EPVvaaSclI~G~GLfLpAvVrP 36 (65)
-|.++|+|++.|+ +.+.|+||-
T Consensus 64 ~P~~a~acFflG~-f~ySA~vra 85 (120)
T PRK11056 64 LPGLAAACFFLGV-FLYSAFVRA 85 (120)
T ss_pred ChHHHHHHHHHHH-HHHHHHHHh
Confidence 3888998887764 446688873
No 10
>COG4989 Predicted oxidoreductase [General function prediction only]
Probab=40.65 E-value=7.7 Score=30.35 Aligned_cols=15 Identities=53% Similarity=0.578 Sum_probs=13.3
Q ss_pred hhhhhhhhhhhhcchh
Q 035443 15 PVVAASCLMGAFGLFL 30 (65)
Q Consensus 15 PVvaaSclI~G~GLfL 30 (65)
..++||||=+| |+|+
T Consensus 204 ~pmaWSpl~gG-~~F~ 218 (298)
T COG4989 204 RPMAWSPLGGG-GLFL 218 (298)
T ss_pred CcccccccCCC-cccc
Confidence 57899999999 8886
No 11
>KOG3808 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.66 E-value=24 Score=22.81 Aligned_cols=19 Identities=42% Similarity=0.523 Sum_probs=14.8
Q ss_pred HHHHhhchhhhhhhhhhhh
Q 035443 8 RMFVAQEPVVAASCLMGAF 26 (65)
Q Consensus 8 r~fv~qEPVvaaSclI~G~ 26 (65)
++=.-..|.|+++|+|..|
T Consensus 50 vIG~Rlh~~Va~aClimAf 68 (74)
T KOG3808|consen 50 VIGERLHPWVAAACLIMAF 68 (74)
T ss_pred HHHhhhhHHHHHHHHHHHH
Confidence 3445567999999999876
No 12
>PF07226 DUF1422: Protein of unknown function (DUF1422); InterPro: IPR009867 This family consists of several hypothetical bacterial proteins of around 120 residues in length. The function of this family is unknown.
Probab=37.04 E-value=20 Score=24.67 Aligned_cols=22 Identities=27% Similarity=0.474 Sum_probs=15.7
Q ss_pred chhhhhhhhhhhhcchhhhhhhh
Q 035443 14 EPVVAASCLMGAFGLFLPAVVRP 36 (65)
Q Consensus 14 EPVvaaSclI~G~GLfLpAvVrP 36 (65)
-|.++|+|+..|+ +.+.|+||-
T Consensus 64 ~P~~a~acFflG~-f~ySA~vra 85 (117)
T PF07226_consen 64 TPKLALACFFLGL-FGYSAFVRA 85 (117)
T ss_pred ChHHHHHHHHHHH-HHHHHHHHH
Confidence 3889999988765 345677773
No 13
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.41 E-value=32 Score=25.98 Aligned_cols=20 Identities=35% Similarity=0.690 Sum_probs=16.1
Q ss_pred cccCC-CCCCCchHHhhhhcc
Q 035443 41 FESSK-QVPQPALSDVVAGVT 60 (65)
Q Consensus 41 ~e~sk-~vp~p~L~dVvag~t 60 (65)
|.+.| ..|+|+|+|...+|-
T Consensus 5 FG~~k~k~p~psL~dai~~v~ 25 (218)
T KOG1655|consen 5 FGRGKPKEPPPSLQDAIDSVN 25 (218)
T ss_pred ccCCCCCCCChhHHHHHHHHH
Confidence 45555 789999999999875
No 14
>CHL00024 psbI photosystem II protein I
Probab=30.14 E-value=5.1 Score=22.90 Aligned_cols=21 Identities=24% Similarity=0.360 Sum_probs=10.7
Q ss_pred HHHHHHhhchhhhhhhhhhhh
Q 035443 6 KLRMFVAQEPVVAASCLMGAF 26 (65)
Q Consensus 6 klr~fv~qEPVvaaSclI~G~ 26 (65)
.||++|+--=....|++|.||
T Consensus 3 ~LKi~Vy~vV~ffvsLFifGF 23 (36)
T CHL00024 3 TLKLFVYTVVIFFVSLFIFGF 23 (36)
T ss_pred eEEeeehhHHHHHHHHHHccc
Confidence 355555544444455555554
No 15
>smart00542 FYRC "FY-rich" domain, C-terminal region. is sometimes closely juxtaposed with the N-terminal region (FYRN), but sometimes is far distant. Unknown function, but occurs frequently in chromatin-associated proteins.
Probab=29.62 E-value=22 Score=21.77 Aligned_cols=20 Identities=40% Similarity=0.748 Sum_probs=15.5
Q ss_pred hcchhhhhhhhhhhccccCCC
Q 035443 26 FGLFLPAVVRPMLDSFESSKQ 46 (65)
Q Consensus 26 ~GLfLpAvVrPilds~e~sk~ 46 (65)
|||.-|+|++ ++++++.+++
T Consensus 53 FGls~p~V~~-lie~Lpga~~ 72 (86)
T smart00542 53 FGLSSPAVVK-LIEQLPGVHQ 72 (86)
T ss_pred hCCCcHHHHH-HHHhCCCchh
Confidence 8999999998 6667666553
No 16
>PRK15471 chain length determinant protein WzzB; Provisional
Probab=28.22 E-value=31 Score=26.02 Aligned_cols=48 Identities=15% Similarity=0.177 Sum_probs=32.2
Q ss_pred HHHHHHHhhch-hhhhhhhhhhhcchhhhhhhhhhhccccCCCCCCCchHHh
Q 035443 5 EKLRMFVAQEP-VVAASCLMGAFGLFLPAVVRPMLDSFESSKQVPQPALSDV 55 (65)
Q Consensus 5 eklr~fv~qEP-VvaaSclI~G~GLfLpAvVrPilds~e~sk~vp~p~L~dV 55 (65)
+-++....+-. ++++.++.+.+|+++-.+.+|+..+ .-.+-+|.++|+
T Consensus 22 ~l~~~L~r~k~~Ii~~~~~~~~lg~~Ya~~a~p~YtA---~a~v~~P~~~~l 70 (325)
T PRK15471 22 DLLVQLWRGKMTIIISVIVAIALAVGYLAVAKEKWTS---TAIITQPDVGQI 70 (325)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHhCCceeEE---eEEEcCCChhHH
Confidence 33444444443 5556677778899998888998554 556678888875
No 17
>PRK14813 NADH dehydrogenase subunit B; Provisional
Probab=28.11 E-value=40 Score=24.53 Aligned_cols=54 Identities=24% Similarity=0.426 Sum_probs=36.2
Q ss_pred HHHHHHHhh--ch--hhh-hhhhhhhhcchhh---hhhhhhhhccccCCCCC--CCchHHhhhhc
Q 035443 5 EKLRMFVAQ--EP--VVA-ASCLMGAFGLFLP---AVVRPMLDSFESSKQVP--QPALSDVVAGV 59 (65)
Q Consensus 5 eklr~fv~q--EP--Vva-aSclI~G~GLfLp---AvVrPilds~e~sk~vp--~p~L~dVvag~ 59 (65)
+.|+....| || ||| -||.+.| |.|.. ++++|+=+-.+-.-.+| ||.-..++.|+
T Consensus 83 ~~l~~~y~qmPePK~VIA~GaCA~sG-G~~~~~sY~~~~gvd~vIpVDv~IPGCPP~PeaIl~gl 146 (189)
T PRK14813 83 ERVVRLYEQMPEPRYVLSMGSCSNCG-GPYWEHGYHVLKGVDRIIPVDVYVPGCPPRPEALIGGL 146 (189)
T ss_pred HHHHHHHHhCCCCCEEEEecccccCC-CCcccCCcccccCCCCccCCcEEccCCCCCHHHHHHHH
Confidence 456666667 77 333 3688877 44533 77888866666666677 88877777776
No 18
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=26.43 E-value=53 Score=18.71 Aligned_cols=42 Identities=19% Similarity=0.335 Sum_probs=32.2
Q ss_pred HHHHHHHhhchhhhhhhhhhhhcchhhhhhhhhhhccccCCCC
Q 035443 5 EKLRMFVAQEPVVAASCLMGAFGLFLPAVVRPMLDSFESSKQV 47 (65)
Q Consensus 5 eklr~fv~qEPVvaaSclI~G~GLfLpAvVrPilds~e~sk~v 47 (65)
..+|.++.+...+..+-|---||+.. ..|++||+.|+.--.+
T Consensus 3 ~~i~~~l~~~~~~S~~eLa~~~~~s~-~~ve~mL~~l~~kG~I 44 (69)
T PF09012_consen 3 QEIRDYLRERGRVSLAELAREFGISP-EAVEAMLEQLIRKGYI 44 (69)
T ss_dssp HHHHHHHHHS-SEEHHHHHHHTT--H-HHHHHHHHHHHCCTSC
T ss_pred HHHHHHHHHcCCcCHHHHHHHHCcCH-HHHHHHHHHHHHCCcE
Confidence 56899999999999999999999874 5689999998865443
No 19
>COG4042 Predicted membrane protein [Function unknown]
Probab=25.33 E-value=43 Score=22.83 Aligned_cols=31 Identities=32% Similarity=0.518 Sum_probs=23.8
Q ss_pred hhhhhcchhhhhh--hhhhhccccCCCCCCCch
Q 035443 22 LMGAFGLFLPAVV--RPMLDSFESSKQVPQPAL 52 (65)
Q Consensus 22 lI~G~GLfLpAvV--rPilds~e~sk~vp~p~L 52 (65)
.|-..-|-||-+- ||+.-|||+|--.|.|.+
T Consensus 25 vivalvLgLP~i~~ekP~R~Swe~SaiFPTPvi 57 (104)
T COG4042 25 VIVALVLGLPIIPKEKPIRFSWETSAIFPTPVI 57 (104)
T ss_pred HHHHHHhCCCCCCcccccccccccccccCccHH
Confidence 3444455667655 899999999999999975
No 20
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=25.16 E-value=98 Score=18.62 Aligned_cols=31 Identities=16% Similarity=0.375 Sum_probs=22.7
Q ss_pred HHHHHHHHHhhchhhhhhhhhhhhcchhhhhh
Q 035443 3 VMEKLRMFVAQEPVVAASCLMGAFGLFLPAVV 34 (65)
Q Consensus 3 vmeklr~fv~qEPVvaaSclI~G~GLfLpAvV 34 (65)
..+....+|...|+-+.. +-+|+|+.|-.++
T Consensus 61 ~~~~~~~~V~e~P~~svg-iAagvG~llG~Ll 91 (94)
T PF05957_consen 61 AAEQTEDYVRENPWQSVG-IAAGVGFLLGLLL 91 (94)
T ss_pred HHHHHHHHHHHChHHHHH-HHHHHHHHHHHHH
Confidence 356778899999986643 5567898887665
No 21
>PRK02655 psbI photosystem II reaction center I protein I; Provisional
Probab=24.89 E-value=7.5 Score=22.46 Aligned_cols=21 Identities=14% Similarity=0.072 Sum_probs=11.5
Q ss_pred HHHHHHhhchhhhhhhhhhhh
Q 035443 6 KLRMFVAQEPVVAASCLMGAF 26 (65)
Q Consensus 6 klr~fv~qEPVvaaSclI~G~ 26 (65)
.||+||+--=....|++|.||
T Consensus 3 tLKi~Vy~vV~ffvsLFiFGf 23 (38)
T PRK02655 3 ALKISVYIVVFFFVGLFVFGF 23 (38)
T ss_pred eEEeeehhhHHHHHHHHHccc
Confidence 456666654444555555554
No 22
>PRK10132 hypothetical protein; Provisional
Probab=24.65 E-value=83 Score=20.58 Aligned_cols=29 Identities=24% Similarity=0.431 Sum_probs=22.1
Q ss_pred HHHHHHHhhchhhhhhhhhhhhcchhhhhh
Q 035443 5 EKLRMFVAQEPVVAASCLMGAFGLFLPAVV 34 (65)
Q Consensus 5 eklr~fv~qEPVvaaSclI~G~GLfLpAvV 34 (65)
+..+.+|...|.-+.. +-+|+|+++-+.+
T Consensus 76 ~~~~~~V~~~Pw~svg-iaagvG~llG~Ll 104 (108)
T PRK10132 76 GCADTFVRERPWCSVG-TAAAVGIFIGALL 104 (108)
T ss_pred HHHHHHHHhCcHHHHH-HHHHHHHHHHHHH
Confidence 4556799999998877 4677999886654
No 23
>PF07613 DUF1576: Protein of unknown function (DUF1576); InterPro: IPR011470 This small family is found in several undescribed proteins. The alignment is distinguished by the frequent occurrence of conserved glycine and aromatic residues.
Probab=23.29 E-value=42 Score=24.13 Aligned_cols=17 Identities=29% Similarity=0.462 Sum_probs=15.1
Q ss_pred hchhhhhhhhhhhhcch
Q 035443 13 QEPVVAASCLMGAFGLF 29 (65)
Q Consensus 13 qEPVvaaSclI~G~GLf 29 (65)
.-|++++-+.+.|||+|
T Consensus 62 nGp~iaaiftv~GFs~F 78 (183)
T PF07613_consen 62 NGPTIAAIFTVVGFSAF 78 (183)
T ss_pred CcHHHHHHHHHHHHHHc
Confidence 35999999999999987
No 24
>TIGR02593 CRISPR_cas5 CRISPR-associated protein Cas5, N-terminal domain. This model represents a shared N-terminal domain, about 43 amino acids in length, common to a number of related protein families each of which is associated with a distinct subtype of CRISPR/cas system, where CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeat and Cas is an abbreviation for CRISPR-associated. Members of this family are widely distributed enough that we designated the family Cas5. Homology appears remote, or absent, between the more C-terminal regions different subfamilies of these proteins, which typically are 210 to 265 amino acids in total length. Cas5 proteins of six different CRISPR/cas subtypes so far defined are described by respective full-length models TIGR01868, TIGR01876, TIGR01895, TIGR01874, TIGR02586, and TIGR02592. The best characterized protein in this family is DevS or Myxococcus xanthus, a Cas protein that appears to participate in a species-specific
Probab=22.78 E-value=58 Score=17.37 Aligned_cols=31 Identities=19% Similarity=0.324 Sum_probs=19.9
Q ss_pred hhhhhhhhhccccCCCCCCCc-hHHhhhhccc
Q 035443 31 PAVVRPMLDSFESSKQVPQPA-LSDVVAGVTG 61 (65)
Q Consensus 31 pAvVrPilds~e~sk~vp~p~-L~dVvag~tg 61 (65)
..|-+|.-.+...+-.+|+|+ +.-.++.+.|
T Consensus 10 a~f~~p~~~~~~~ty~~Pp~Stv~Gll~a~~G 41 (42)
T TIGR02593 10 ASFRKPETFGERPTYPVPPPSALLGLLGAALG 41 (42)
T ss_pred ccccCcccCccCccCCCCCHHHHHHHHHHHhC
Confidence 356688777777777888776 4444444443
No 25
>PF13286 HD_assoc: Phosphohydrolase-associated domain; PDB: 2DQB_D.
Probab=22.73 E-value=38 Score=19.75 Aligned_cols=10 Identities=40% Similarity=0.727 Sum_probs=7.4
Q ss_pred hHHhhhhccc
Q 035443 52 LSDVVAGVTG 61 (65)
Q Consensus 52 L~dVvag~tg 61 (65)
.-|-+||||-
T Consensus 74 v~DyIaGMTD 83 (92)
T PF13286_consen 74 VCDYIAGMTD 83 (92)
T ss_dssp HHHHHHTS-H
T ss_pred HHHHhhcCcH
Confidence 6789999983
No 26
>PRK10884 SH3 domain-containing protein; Provisional
Probab=21.06 E-value=78 Score=22.61 Aligned_cols=25 Identities=28% Similarity=0.501 Sum_probs=16.2
Q ss_pred HHHHHHhhchhhhhhhhhhhhcchhhhh
Q 035443 6 KLRMFVAQEPVVAASCLMGAFGLFLPAV 33 (65)
Q Consensus 6 klr~fv~qEPVvaaSclI~G~GLfLpAv 33 (65)
.++.|++--=|+..+.| +||+||.+
T Consensus 170 ~~~wf~~Gg~v~~~Gll---lGlilp~l 194 (206)
T PRK10884 170 IMQWFMYGGGVAGIGLL---LGLLLPHL 194 (206)
T ss_pred HHHHHHHchHHHHHHHH---HHHHhccc
Confidence 34567666666666655 67777776
Done!