Query psy548
Match_columns 84
No_of_seqs 103 out of 364
Neff 4.6
Searched_HMMs 46136
Date Fri Aug 16 18:36:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy548.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/548hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3405|consensus 100.0 6E-38 1.3E-42 218.3 7.8 82 2-83 55-136 (136)
2 PLN00152 DNA-directed RNA poly 100.0 2.2E-36 4.8E-41 210.2 9.3 82 2-83 49-130 (130)
3 PRK01099 rpoK DNA-directed RNA 100.0 4.1E-28 8.9E-33 150.5 7.6 61 8-68 2-62 (62)
4 COG1758 RpoZ DNA-directed RNA 99.8 6.2E-21 1.3E-25 120.8 4.7 70 3-72 4-74 (74)
5 PF01192 RNA_pol_Rpb6: RNA pol 99.8 2.2E-19 4.8E-24 108.0 4.9 56 7-62 2-57 (57)
6 PRK00392 rpoZ DNA-directed RNA 99.6 1E-14 2.2E-19 90.2 5.9 49 14-63 15-63 (69)
7 TIGR00690 rpoZ DNA-directed RN 99.5 1E-14 2.3E-19 89.1 5.5 46 13-59 13-59 (59)
8 PF05320 Pox_RNA_Pol_19: Poxvi 83.8 2.5 5.4E-05 31.0 4.5 56 9-64 76-135 (167)
9 CHL00191 ycf61 DNA-directed RN 79.4 2.8 6E-05 27.2 3.1 47 14-61 26-72 (76)
10 PF15277 Sec3-PIP2_bind: Exocy 71.4 5.1 0.00011 25.9 2.8 26 58-83 20-48 (91)
11 PLN00041 photosystem I reactio 30.1 56 0.0012 24.5 2.7 35 44-78 113-156 (196)
12 PRK01406 gltX glutamyl-tRNA sy 24.7 3.5E+02 0.0076 22.3 6.6 49 20-69 113-161 (476)
13 COG1751 Uncharacterized conser 23.6 2.3E+02 0.005 21.1 4.9 51 16-69 13-63 (186)
14 PF02601 Exonuc_VII_L: Exonucl 22.3 49 0.0011 24.9 1.2 39 42-81 56-99 (319)
15 PF11535 Calci_bind_CcbP: Calc 22.1 1.3E+02 0.0028 20.1 3.1 35 47-84 56-90 (106)
16 PF08813 Phage_tail_3: Phage t 21.1 2.7E+02 0.0059 19.6 4.8 32 42-73 98-129 (165)
17 KOG0083|consensus 21.0 77 0.0017 23.3 2.0 20 20-39 153-172 (192)
No 1
>KOG3405|consensus
Probab=100.00 E-value=6e-38 Score=218.34 Aligned_cols=82 Identities=71% Similarity=1.051 Sum_probs=80.3
Q ss_pred CCCCCcccCCCccHHHHHHHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCCCeEEEEecCCCcEEEeeccccce
Q psy548 2 VFSPSFIITIVIKRYERARVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPIIIRRYLPDNSYEDWGIDELKI 81 (84)
Q Consensus 2 ~~~~~r~t~~~ltrYelari~g~RArQL~~GA~plV~~~~~~kp~~IAl~Ei~~gkI~~~i~R~~p~~~~e~~~l~el~~ 81 (84)
||.++|+|.|||||||+||++|.||+|||||||+||+.++.++|+.||.+||+++||||+|||+||||+||||+++||++
T Consensus 55 v~~s~R~TtpyMTKYErArvLGtRAlQIsm~APvmVeLegETdPL~IAmkEL~qkKIP~iIRRyLPDgSyEDW~vdELiv 134 (136)
T KOG3405|consen 55 VPKSERKTTPYMTKYERARVLGTRALQISMNAPVMVELEGETDPLEIAMKELKQKKIPFIIRRYLPDGSYEDWSVDELIV 134 (136)
T ss_pred ccccccccCcchhHHHHHHhhhHHHHHHhcCCCeEEecCCCCCHHHHHHHHHhhccCceEEeeeCCCCCccccccceeec
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred ec
Q psy548 82 ID 83 (84)
Q Consensus 82 ~~ 83 (84)
.|
T Consensus 135 ~d 136 (136)
T KOG3405|consen 135 ED 136 (136)
T ss_pred cC
Confidence 65
No 2
>PLN00152 DNA-directed RNA polymerase; Provisional
Probab=100.00 E-value=2.2e-36 Score=210.20 Aligned_cols=82 Identities=68% Similarity=1.054 Sum_probs=78.6
Q ss_pred CCCCCcccCCCccHHHHHHHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCCCeEEEEecCCCcEEEeeccccce
Q psy548 2 VFSPSFIITIVIKRYERARVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPIIIRRYLPDNSYEDWGIDELKI 81 (84)
Q Consensus 2 ~~~~~r~t~~~ltrYelari~g~RArQL~~GA~plV~~~~~~kp~~IAl~Ei~~gkI~~~i~R~~p~~~~e~~~l~el~~ 81 (84)
++.++|+|++||||||+||++|.||+|||+|||+||+.++.++|+.||.+|+.+|+|||+|+|++|||+||+|+++||.+
T Consensus 49 ~~~~~R~T~p~lTkyErARIiG~RALQIsmgApvlV~~~g~tdPl~IA~~El~~~~iP~iVrR~lPdG~yEd~~v~EL~~ 128 (130)
T PLN00152 49 PVQRPRKTTPYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRERKIPFTIRRYLPDGSYEDWGVDELIV 128 (130)
T ss_pred ccccccccccchhHHHHHhhHhHHHHHHhcCCceEEccCCCcCHHHHHHHHHHcCCCCeEEEEECCCCCEEeeEeeeEee
Confidence 35678999999999999999999999999999999999878899999999999999999999999999999999999998
Q ss_pred ec
Q psy548 82 ID 83 (84)
Q Consensus 82 ~~ 83 (84)
.|
T Consensus 129 ~~ 130 (130)
T PLN00152 129 ED 130 (130)
T ss_pred cC
Confidence 76
No 3
>PRK01099 rpoK DNA-directed RNA polymerase subunit K; Provisional
Probab=99.95 E-value=4.1e-28 Score=150.52 Aligned_cols=61 Identities=46% Similarity=0.824 Sum_probs=58.3
Q ss_pred ccCCCccHHHHHHHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCCCeEEEEecCC
Q psy548 8 IITIVIKRYERARVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPIIIRRYLPD 68 (84)
Q Consensus 8 ~t~~~ltrYelari~g~RArQL~~GA~plV~~~~~~kp~~IAl~Ei~~gkI~~~i~R~~p~ 68 (84)
.++++|||||+|+++|+||+||++||+|+|+.++++||++||++||++|+|+++|+|++||
T Consensus 2 ~~~~~ltrfe~a~i~akRArQl~~Ga~~lv~~~~~~kPv~iAl~Ei~~gkI~~~v~r~~p~ 62 (62)
T PRK01099 2 MGPMKLTRFERARIIGARALQISMGAPVLIDIPESTDPLDIAEEEFKRGVLPITVKRPLPN 62 (62)
T ss_pred CCCcccCHHHHHHHHHHHHHHHHcCCCceecCCCCCCHHHHHHHHHHcCCCCeEeecCCCC
Confidence 5789999999999999999999999999999855799999999999999999999999997
No 4
>COG1758 RpoZ DNA-directed RNA polymerase, subunit K/omega [Transcription]
Probab=99.83 E-value=6.2e-21 Score=120.81 Aligned_cols=70 Identities=36% Similarity=0.401 Sum_probs=62.7
Q ss_pred CCCCcccCCCccHHHHHHHHHHHHHHHhcCCCceeeCCCC-CChHHHHHHHHHcCCCCeEEEEecCCCcEE
Q psy548 3 FSPSFIITIVIKRYERARVLGTRALQIAMCAPVMVELEGE-TDPLQIAMKELKARKIPIIIRRYLPDNSYE 72 (84)
Q Consensus 3 ~~~~r~t~~~ltrYelari~g~RArQL~~GA~plV~~~~~-~kp~~IAl~Ei~~gkI~~~i~R~~p~~~~e 72 (84)
|..+.......|||++|+++|+||+||++|++++++.+.. +||+.+|++||++|++++.+.+..++++.+
T Consensus 4 ~~~~~l~~~~~~ryelv~~aa~RA~Ql~~ga~~~~~~~~~~~kpv~iAl~Ei~~g~i~~~i~~~~~~~~~~ 74 (74)
T COG1758 4 PTIEDLLDKVGNRYELVVVAAKRARQLAAGAPPLVDDEENKDKPVVIALREIAEGKIPIEILRELLIHSLQ 74 (74)
T ss_pred cCHHHHHhhccCHHHHHHHHHHHHHHHHcCCCCccccccccCChHHHHHHHHHcCCCCcccchhhhccccC
Confidence 4455667788999999999999999999999999988754 899999999999999999999999998753
No 5
>PF01192 RNA_pol_Rpb6: RNA polymerase Rpb6 ; InterPro: IPR006110 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. A component of 14 to 18 kDa shared by all three forms of eukaryotic RNA polymerases and which has been sequenced in budding yeast (gene RPB6 or RPO26), in Schizosaccharomyces pombe (Fission yeast) (gene rpb6 or rpo15), in human and in African swine fever virus (ASFV) is evolutionary related to the archaebacterial subunit K (gene rpoK). The archaebacterial protein is colinear with the C-terminal part of the eukaryotic subunit. The structures of the omega subunit and RBP6, and the structures of the omega/beta' and RPB6/RPB1 interfaces, suggest a molecular mechanism for the function of omega and RPB6 in promoting RNAP assembly and/or stability. The conserved regions of omega and RPB6 form a compact structural domain that interacts simultaneously with conserved regions of the largest RNAP subunit and with the C-terminal tail following a conserved region of the largest RNAP subunit. The second half of the conserved region of omega and RPB6 forms an arc that projects away from the remainder of the structural domain and wraps over and around the C-terminal tail of the largest RNAP subunit, clamping it in a crevice, and threading the C-terminal tail of the largest RNAP subunit through the narrow gap between omega and RPB6 [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_R 2Y0S_I 3HKZ_U 2PMZ_K 3M3Y_F 3HOX_F 3GTJ_F 4A3K_F 2VUM_F 3S14_F ....
Probab=99.78 E-value=2.2e-19 Score=108.04 Aligned_cols=56 Identities=36% Similarity=0.467 Sum_probs=51.0
Q ss_pred cccCCCccHHHHHHHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCCCeEE
Q psy548 7 FIITIVIKRYERARVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPIII 62 (84)
Q Consensus 7 r~t~~~ltrYelari~g~RArQL~~GA~plV~~~~~~kp~~IAl~Ei~~gkI~~~i 62 (84)
+......|||++++++|+||+||++|++|+++.++..||+++|++||++|+++|+|
T Consensus 2 ~l~~~~~~rY~Lv~~~akRArql~~g~~~~~~~~~~~k~v~iAl~EI~~gki~~~i 57 (57)
T PF01192_consen 2 DLLEKVDNRYELVILAAKRARQLSEGAPPLVEEDNEMKPVSIALEEIAEGKIKIEI 57 (57)
T ss_dssp HHHHSSSSHHHHHHHHHHHHHHHHTTSTTSSSSSSSSSSSHHHHHHHHTTSSCEEE
T ss_pred hhhhccCCHhHHHHHHHHHHHHHHcCcccccccccCCCcHHHHHHHHHcCCCCCcC
Confidence 34567789999999999999999999999998876669999999999999999986
No 6
>PRK00392 rpoZ DNA-directed RNA polymerase subunit omega; Reviewed
Probab=99.55 E-value=1e-14 Score=90.21 Aligned_cols=49 Identities=29% Similarity=0.362 Sum_probs=45.6
Q ss_pred cHHHHHHHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCCCeEEE
Q psy548 14 KRYERARVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPIIIR 63 (84)
Q Consensus 14 trYelari~g~RArQL~~GA~plV~~~~~~kp~~IAl~Ei~~gkI~~~i~ 63 (84)
|||.|+.++|+||+||+.|+++.++.. +.||+++|++||++|+|.+...
T Consensus 15 ~ry~Lv~~aakRArql~~~~~~~~~~~-~~K~~~~Al~EI~~gki~~~~~ 63 (69)
T PRK00392 15 NRYELVLLAAKRARQLRAGAKPPVDKS-SDKPVVIALREIAEGKVTYEIL 63 (69)
T ss_pred CHHHHHHHHHHHHHHHHcCCCCCCCCc-CCChHHHHHHHHHcCCCceecc
Confidence 899999999999999999999997765 6899999999999999999864
No 7
>TIGR00690 rpoZ DNA-directed RNA polymerase, omega subunit. The trusted cutoff excludes archaeal homologs but captures some organellar sequences.
Probab=99.55 E-value=1e-14 Score=89.13 Aligned_cols=46 Identities=28% Similarity=0.366 Sum_probs=39.7
Q ss_pred ccHHHHHHHHHHHHHHHhcCC-CceeeCCCCCChHHHHHHHHHcCCCC
Q psy548 13 IKRYERARVLGTRALQIAMCA-PVMVELEGETDPLQIAMKELKARKIP 59 (84)
Q Consensus 13 ltrYelari~g~RArQL~~GA-~plV~~~~~~kp~~IAl~Ei~~gkI~ 59 (84)
=|||.||.++++|||||+.|+ +++++.. ++||+++|++||++|+|.
T Consensus 13 ~srY~Lv~~aakRArqL~~~~~~~~~~~~-~~Kp~~iAl~EIa~gkvs 59 (59)
T TIGR00690 13 GSRYDLVLVAARRARQLQLKGTDPIVPEE-NDKPTVIALREIAAGLVS 59 (59)
T ss_pred CCHhHHHHHHHHHHHHHHhCCCCCccCcc-cCchHHHHHHHHHcCCCC
Confidence 389999999999999999766 5555554 699999999999999974
No 8
>PF05320 Pox_RNA_Pol_19: Poxvirus DNA-directed RNA polymerase 19 kDa subunit; InterPro: IPR007984 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The poxvirus DNA-directed RNA polymerase (2.7.7.6 from EC) catalyses the transcription of DNA into RNA. It consists of at least eight subunits, this is the 19 kDa subunit.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=83.77 E-value=2.5 Score=30.98 Aligned_cols=56 Identities=18% Similarity=0.239 Sum_probs=46.4
Q ss_pred cCCCccHHHHHHHHHHHHHHHhcCCCceeeCC--C--CCChHHHHHHHHHcCCCCeEEEE
Q psy548 9 ITIVIKRYERARVLGTRALQIAMCAPVMVELE--G--ETDPLQIAMKELKARKIPIIIRR 64 (84)
Q Consensus 9 t~~~ltrYelari~g~RArQL~~GA~plV~~~--~--~~kp~~IAl~Ei~~gkI~~~i~R 64 (84)
-..+++=||+.=++|.==.-|+-|--|||.-- . ..+-+.+-++||.+|.-|++|-+
T Consensus 76 YTRRiSLfEiTGIiaESyNLLqRGRlPLv~dlsdeT~k~n~L~vvi~EIeEg~CPIVIeK 135 (167)
T PF05320_consen 76 YTRRISLFEITGIIAESYNLLQRGRLPLVSDLSDETLKDNILHVVIKEIEEGTCPIVIEK 135 (167)
T ss_pred HHhhhhHHHHHHHHHHHHHHHHccccccccccchHHHHHhHHHHHHHHHhcCCCcEEEee
Confidence 34567889999999999999999999999632 1 24567899999999999999986
No 9
>CHL00191 ycf61 DNA-directed RNA polymerase subunit omega; Provisional
Probab=79.37 E-value=2.8 Score=27.20 Aligned_cols=47 Identities=15% Similarity=0.084 Sum_probs=35.9
Q ss_pred cHHHHHHHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCCCeE
Q psy548 14 KRYERARVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPII 61 (84)
Q Consensus 14 trYelari~g~RArQL~~GA~plV~~~~~~kp~~IAl~Ei~~gkI~~~ 61 (84)
|||-.+.-+|.||+|=-.-..--++-. ..||+.-|+-|+..-..--+
T Consensus 26 NRY~iTvqVAnRAKrrRyed~d~~d~~-~~KPv~RAIiEMsDEl~qPe 72 (76)
T CHL00191 26 NRYKITIQVANRAKRRRYEDIDIINDP-SIKPIIRAILEMVDEINQPE 72 (76)
T ss_pred cceeehHHHHHHHHHhhhhcccccccc-cccHHHHHHHHHhccccccc
Confidence 789999999999999866554444433 79999999999876654433
No 10
>PF15277 Sec3-PIP2_bind: Exocyst complex component SEC3 N-terminal PIP2 binding PH; PDB: 3HIE_D 3A58_E.
Probab=71.44 E-value=5.1 Score=25.93 Aligned_cols=26 Identities=31% Similarity=0.569 Sum_probs=18.1
Q ss_pred CCeEEEEecCCCcEEE---eeccccceec
Q psy548 58 IPIIIRRYLPDNSYED---WGIDELKIID 83 (84)
Q Consensus 58 I~~~i~R~~p~~~~e~---~~l~el~~~~ 83 (84)
+.+.-.|..+||+|+. |+|+||..+|
T Consensus 20 v~l~k~K~~~~g~f~i~ktW~L~eL~~I~ 48 (91)
T PF15277_consen 20 VRLHKVKQNDNGSFQIGKTWDLDELKAID 48 (91)
T ss_dssp EEEEEEEE-CCS-EEEEEEEEGGG--EEE
T ss_pred EEEEEEEecCCCcEEEeeEEehhhceeee
Confidence 5667788899998875 9999999887
No 11
>PLN00041 photosystem I reaction center subunit II; Provisional
Probab=30.12 E-value=56 Score=24.46 Aligned_cols=35 Identities=26% Similarity=0.348 Sum_probs=25.2
Q ss_pred ChHHHHHHH--------HH-cCCCCeEEEEecCCCcEEEeeccc
Q psy548 44 DPLQIAMKE--------LK-ARKIPIIIRRYLPDNSYEDWGIDE 78 (84)
Q Consensus 44 kp~~IAl~E--------i~-~gkI~~~i~R~~p~~~~e~~~l~e 78 (84)
+-+..|-+| |. .=||.+.|.|.+|||..+.+-.++
T Consensus 113 NLlylARKEQCLALgtQLrtkfKIdykiYRifP~Ge~q~LHPkD 156 (196)
T PLN00041 113 NLLKLARKEQCLALGTRLRSKYKITYQFYRVFPNGEVQYLHPKD 156 (196)
T ss_pred hHHHHHHHHHHHHHHHHHhhhcccceeEEEEcCCCceEEecCCC
Confidence 355566665 22 457899999999999998765543
No 12
>PRK01406 gltX glutamyl-tRNA synthetase; Reviewed
Probab=24.70 E-value=3.5e+02 Score=22.28 Aligned_cols=49 Identities=22% Similarity=0.182 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCCCeEEEEecCCC
Q psy548 20 RVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPIIIRRYLPDN 69 (84)
Q Consensus 20 ri~g~RArQL~~GA~plV~~~~~~kp~~IAl~Ei~~gkI~~~i~R~~p~~ 69 (84)
.+-+.|..|...|.+|..+...-+.+.+-....+.+|+ ++.+|=+.|++
T Consensus 113 el~~~r~~~~~~~~~~~y~~~cr~~~~~~~~~~~~~g~-~~~iR~k~p~~ 161 (476)
T PRK01406 113 ELEAMREEQRAAGEPPRYDGRCRDLTKEEVAARLAAGE-PPVIRFKVPDE 161 (476)
T ss_pred HHHHHHHHHHhCCCCCCCCccccCCCHHHHHHHHhCCC-CeeEEEEcCCC
Confidence 34566888888898887665421223332333455666 78888889876
No 13
>COG1751 Uncharacterized conserved protein [Function unknown]
Probab=23.64 E-value=2.3e+02 Score=21.09 Aligned_cols=51 Identities=12% Similarity=0.098 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCCCeEEEEecCCC
Q psy548 16 YERARVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPIIIRRYLPDN 69 (84)
Q Consensus 16 Yelari~g~RArQL~~GA~plV~~~~~~kp~~IAl~Ei~~gkI~~~i~R~~p~~ 69 (84)
=+-..+++.||.||..-. +|-.+ ++-.+..-+-|..+|.+.+.+.-+--+-
T Consensus 13 ~~tle~a~erA~elgik~--~vVAS-~tG~tA~k~lemveg~lkvVvVthh~Gf 63 (186)
T COG1751 13 DETLEIAVERAKELGIKH--IVVAS-STGYTALKALEMVEGDLKVVVVTHHAGF 63 (186)
T ss_pred HHHHHHHHHHHHhcCcce--EEEEe-cccHHHHHHHHhcccCceEEEEEeeccc
Confidence 356788999999986533 33322 2335566667889998888888775443
No 14
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=22.25 E-value=49 Score=24.92 Aligned_cols=39 Identities=18% Similarity=0.334 Sum_probs=27.5
Q ss_pred CCChHHHHHHHHHcCC----CCeEEEEecCCCcEEE-eeccccce
Q psy548 42 ETDPLQIAMKELKARK----IPIIIRRYLPDNSYED-WGIDELKI 81 (84)
Q Consensus 42 ~~kp~~IAl~Ei~~gk----I~~~i~R~~p~~~~e~-~~l~el~~ 81 (84)
.-..+.-|++++.+-. ...+|.=+- ||+.|| |++++..+
T Consensus 56 A~~~I~~al~~~~~~~~~~~~Dviii~RG-GGs~eDL~~FN~e~v 99 (319)
T PF02601_consen 56 AAASIVSALRKANEMGQADDFDVIIIIRG-GGSIEDLWAFNDEEV 99 (319)
T ss_pred hHHHHHHHHHHHHhccccccccEEEEecC-CCChHHhcccChHHH
Confidence 3445677899998754 677766665 778887 88887653
No 15
>PF11535 Calci_bind_CcbP: Calcium binding; InterPro: IPR020994 CcbP is a Ca(2+) binding protein found in bacteria which is thought to bind Ca(2+) by protein surface charge. When bound to Ca(2+), the protein becomes more compact and the level of free calcium decreases. Within the bacteria, Ca(2+) has a role in the early stages of heterocyst differentiation. The free Ca(2+) concentration which is regulated by CcbP is critical for the differentiation process []. Calcium signalling is widespread in bacterial species, and prokaryotic cells like eukaryotes are equipped with all the elements to maintain Ca2+ homeostasis [].; PDB: 2P0P_A 2K2V_A 2P0Q_A.
Probab=22.14 E-value=1.3e+02 Score=20.13 Aligned_cols=35 Identities=20% Similarity=0.135 Sum_probs=25.3
Q ss_pred HHHHHHHHcCCCCeEEEEecCCCcEEEeeccccceecC
Q psy548 47 QIAMKELKARKIPIIIRRYLPDNSYEDWGIDELKIIDR 84 (84)
Q Consensus 47 ~IAl~Ei~~gkI~~~i~R~~p~~~~e~~~l~el~~~~~ 84 (84)
.+|..+-...-|-..++| |++.-.+||.+|+.+|.
T Consensus 56 gm~~~~~~~~~I~V~v~~---~~~~~~vpL~dLe~~d~ 90 (106)
T PF11535_consen 56 GMADEDDCEYGIFVEVRR---DRRKFTVPLSDLEPPDE 90 (106)
T ss_dssp EE--HHHHTTS-EEEEEE---SSSEEEEEGGGEEEES-
T ss_pred EecCccccccceEEEEEe---CCeEEEEEhHHccCCCC
Confidence 345555656777788888 88999999999998873
No 16
>PF08813 Phage_tail_3: Phage tail protein; InterPro: IPR014918 This entry is represented by Bacteriophage T1, Orf41. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Proteins of this entry include phage tail proteins. They probably include bacterial Ig-like domains related to IPR003343 from INTERPRO. Which also includes a number of phage tail invasin proteins.
Probab=21.08 E-value=2.7e+02 Score=19.60 Aligned_cols=32 Identities=25% Similarity=0.175 Sum_probs=28.1
Q ss_pred CCChHHHHHHHHHcCCCCeEEEEecCCCcEEE
Q psy548 42 ETDPLQIAMKELKARKIPIIIRRYLPDNSYED 73 (84)
Q Consensus 42 ~~kp~~IAl~Ei~~gkI~~~i~R~~p~~~~e~ 73 (84)
..+|...||+...+.+-...++..+|||+.-.
T Consensus 98 p~~~~y~aL~~a~~~~~~~a~r~~~p~G~~~~ 129 (165)
T PF08813_consen 98 PDDPGYKALRAADDSKEVRAFRVTLPNGSTIY 129 (165)
T ss_pred CCCHHHHHHHHHhhcCCeEEEEEEcCCCCEEE
Confidence 36799999999999999999999999997433
No 17
>KOG0083|consensus
Probab=21.01 E-value=77 Score=23.32 Aligned_cols=20 Identities=20% Similarity=0.217 Sum_probs=16.3
Q ss_pred HHHHHHHHHHhcCCCceeeC
Q psy548 20 RVLGTRALQIAMCAPVMVEL 39 (84)
Q Consensus 20 ri~g~RArQL~~GA~plV~~ 39 (84)
..+|+|-+|+++|+||--+.
T Consensus 153 ~~ia~~l~k~~~~~~~~~~~ 172 (192)
T KOG0083|consen 153 LAIAEELKKLKMGAPPEGEF 172 (192)
T ss_pred HHHHHHHHHhccCCCCCCcc
Confidence 46789999999999995443
Done!