Query psy7189
Match_columns 120
No_of_seqs 53 out of 55
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 20:25:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7189.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7189hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13232 Complex1_LYR_1: Compl 83.0 3.5 7.6E-05 25.8 4.5 42 5-53 10-51 (61)
2 PF05347 Complex1_LYR: Complex 82.9 5.1 0.00011 24.5 5.2 43 5-54 10-52 (59)
3 PRK11677 hypothetical protein; 46.5 24 0.00053 26.4 3.1 58 25-82 47-129 (134)
4 PF08637 NCA2: ATP synthase re 41.3 66 0.0014 26.7 5.1 44 26-71 50-93 (290)
5 TIGR02976 phageshock_pspB phag 36.2 1.1E+02 0.0025 20.7 4.8 39 17-63 31-69 (75)
6 smart00831 Cation_ATPase_N Cat 34.8 18 0.00039 22.3 0.7 39 71-109 3-43 (64)
7 PF03637 Mob1_phocein: Mob1/ph 31.4 1.7E+02 0.0036 22.5 5.7 40 37-78 74-113 (175)
8 PF05946 TcpA: Toxin-coregulat 31.1 21 0.00046 26.9 0.7 15 75-89 42-56 (127)
9 PF12108 SF3a60_bindingd: Spli 30.3 61 0.0013 18.3 2.3 26 42-69 3-28 (28)
10 KOG1106|consensus 29.8 1.4E+02 0.0031 23.6 5.1 39 1-39 98-139 (177)
11 PRK05445 hypothetical protein; 29.3 29 0.00062 27.0 1.1 44 44-89 22-65 (164)
12 PF09713 A_thal_3526: Plant pr 27.8 78 0.0017 20.4 2.8 20 89-108 34-53 (54)
13 KOG0717|consensus 26.8 2.5E+02 0.0053 25.7 6.6 87 4-106 28-116 (508)
14 PRK13858 type IV secretion sys 25.2 1.3E+02 0.0028 23.1 4.0 69 17-88 45-126 (147)
15 TIGR01589 A_thal_3526 uncharac 25.1 1E+02 0.0023 20.1 3.0 20 89-108 37-56 (57)
16 PF10548 P22_AR_C: P22AR C-ter 24.8 77 0.0017 21.3 2.4 43 45-91 27-70 (74)
17 cd06257 DnaJ DnaJ domain or J- 24.1 1.6E+02 0.0034 17.0 3.9 15 4-18 20-35 (55)
18 PRK01379 cyaY frataxin-like pr 23.7 26 0.00056 25.1 -0.1 32 3-36 69-100 (103)
19 PF00177 Ribosomal_S7: Ribosom 23.7 1.5E+02 0.0033 21.8 4.1 31 6-36 96-129 (148)
20 CHL00053 rps7 ribosomal protei 23.5 1.9E+02 0.0042 21.7 4.7 34 6-39 97-133 (155)
21 PRK05302 30S ribosomal protein 23.1 1.9E+02 0.004 21.8 4.5 34 6-39 97-133 (156)
22 TIGR03450 mycothiol_INO1 inosi 23.0 40 0.00088 29.2 1.0 17 10-26 51-68 (351)
23 PF14824 Sirohm_synth_M: Siroh 22.5 96 0.0021 17.8 2.2 16 19-34 15-30 (30)
24 cd07321 Extradiol_Dioxygenase_ 22.0 1.6E+02 0.0035 19.6 3.6 21 77-97 34-54 (77)
25 smart00586 ZnF_DBF Zinc finger 21.1 1.3E+02 0.0029 18.9 2.8 34 20-57 16-49 (49)
26 TIGR01029 rpsG_bact ribosomal 20.8 2.3E+02 0.0049 21.3 4.6 31 6-36 95-128 (154)
27 KOG3442|consensus 20.4 53 0.0011 24.9 1.0 57 14-90 12-68 (132)
28 TIGR02905 spore_yutH spore coa 20.4 1.4E+02 0.003 24.2 3.5 34 17-57 218-251 (313)
No 1
>PF13232 Complex1_LYR_1: Complex1_LYR-like
Probab=83.03 E-value=3.5 Score=25.83 Aligned_cols=42 Identities=21% Similarity=0.328 Sum_probs=29.4
Q ss_pred HHHHHHHhhcCCcccccHHHHHHHHHHHHhhhCCCcChhhHHHHHHHHH
Q psy7189 5 YQVVVIYWVGEGKKYRDFAEYLRELTRAQFVSNNKFTIEEEETLKKNLA 53 (120)
Q Consensus 5 fl~L~e~W~D~tK~gRDLG~~lR~~v~~~F~~g~~t~~~d~e~c~k~~~ 53 (120)
+|+-|..| +.-+..++++.+|...|+.+.+ +.||+..++.++
T Consensus 10 lLR~~~~~-----~~~~~r~~~~~~ir~~Fr~~~~--~td~~~i~~~l~ 51 (61)
T PF13232_consen 10 LLREASKF-----PDYNFRSYFRRRIRDRFRRNKN--VTDPEKIAKLLK 51 (61)
T ss_pred HHHHhhhc-----CCcchHHHHHHHHHHHHHHcCC--CCCHHHHHHHHH
Confidence 45556666 2223339999999999998777 468887766654
No 2
>PF05347 Complex1_LYR: Complex 1 protein (LYR family); InterPro: IPR008011 This family of short proteins includes proteins from the NADH-ubiquinone oxidoreductase complex I. The family includes the B14 subunit from bovine NADH-ubiquinone oxidoreductase B14 subunit Q02366 from SWISSPROT, and the B22 subunit from the human enzyme Q9Y6M9 from SWISSPROT. The family has been named LYR after a highly conserved tripeptide motif close to the N terminus of these proteins. Members of this family also found in yeast which do contain this complex. In these organisms they are believed to be be required for iron-sulphur custer biogenesis.
Probab=82.89 E-value=5.1 Score=24.51 Aligned_cols=43 Identities=19% Similarity=0.217 Sum_probs=31.1
Q ss_pred HHHHHHHhhcCCcccccHHHHHHHHHHHHhhhCCCcChhhHHHHHHHHHH
Q psy7189 5 YQVVVIYWVGEGKKYRDFAEYLRELTRAQFVSNNKFTIEEEETLKKNLAS 54 (120)
Q Consensus 5 fl~L~e~W~D~tK~gRDLG~~lR~~v~~~F~~g~~t~~~d~e~c~k~~~S 54 (120)
+|+.+..| ++.+.-.+++..|+..|+++... +||+..+..+..
T Consensus 10 lLR~~~~~-----~~~~~r~~~~~~iR~~Fr~n~~~--~d~~~I~~~l~~ 52 (59)
T PF05347_consen 10 LLRAARSF-----PDDSEREYIRAEIRQEFRKNRNE--TDPEKIEELLKK 52 (59)
T ss_pred HHHHHHHc-----CCcchHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHH
Confidence 44555555 33337889999999999998884 688887766543
No 3
>PRK11677 hypothetical protein; Provisional
Probab=46.50 E-value=24 Score=26.42 Aligned_cols=58 Identities=16% Similarity=0.260 Sum_probs=35.4
Q ss_pred HHHHHHHHHhhhCCCcChhhHHHHHHHHHHHHH----hhhhhhhc------cC---------------CCCCCCcccccc
Q psy7189 25 YLRELTRAQFVSNNKFTIEEEETLKKNLASLKR----LSEDIYNK------KY---------------PRTFQTSASGLN 79 (120)
Q Consensus 25 ~lR~~v~~~F~~g~~t~~~d~e~c~k~~~SL~r----I~~N~y~~------ky---------------PR~~~SsatGlt 79 (120)
..|++|...|.....-.-.=...+.+.|+.|.. |..|...+ +- ||=|..|+|||-
T Consensus 47 ~YkqeV~~HFa~TA~Ll~~L~~~Y~~Ly~HlA~~s~~Llp~~~~q~~pf~~~l~~~~~~~~~~~~~~~PrDYs~gaSGLl 126 (134)
T PRK11677 47 EYRQELVSHFARSAELLDTMAKDYRQLYQHMAKSSSELLPNLPAQDNPFRNRLAESEASNDQAPVQMQPRDYSEGASGLL 126 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccchhHhhhhhcccccccCcccCCCCCcCCCCcccc
Confidence 368888888875433211112457777877754 54443322 11 888889999986
Q ss_pred HHH
Q psy7189 80 GKE 82 (120)
Q Consensus 80 ~ee 82 (120)
..+
T Consensus 127 ~~~ 129 (134)
T PRK11677 127 RGG 129 (134)
T ss_pred ccc
Confidence 554
No 4
>PF08637 NCA2: ATP synthase regulation protein NCA2; InterPro: IPR013946 NCA2 (Nuclear Control of ATPase), is one of the two nuclear genes involved in the control of mitochondrial expression of subunits 6 and 8 of the Fo-F1 ATP synthase in Saccharomyces cerevisiae (Baker's yeast). Mutations in either NCA2 or NCA3 (IPR005556 from INTERPRO) dramatically lower the level of the co-transcript encoding subunits 6 and 8 [, ].
Probab=41.25 E-value=66 Score=26.67 Aligned_cols=44 Identities=20% Similarity=0.342 Sum_probs=32.6
Q ss_pred HHHHHHHHhhhCCCcChhhHHHHHHHHHHHHHhhhhhhhccCCCCC
Q psy7189 26 LRELTRAQFVSNNKFTIEEEETLKKNLASLKRLSEDIYNKKYPRTF 71 (120)
Q Consensus 26 lR~~v~~~F~~g~~t~~~d~e~c~k~~~SL~rI~~N~y~~kyPR~~ 71 (120)
|++.|..-| +....+-+.+..+.-.+||+|+.-++..+.+|...
T Consensus 50 I~~tlr~d~--~s~~~i~s~~sL~~d~~SLeRMv~dF~~d~~~~~~ 93 (290)
T PF08637_consen 50 IWDTLRHDE--KSEIAIMSKESLQSDMESLERMVVDFAKDNSPNMP 93 (290)
T ss_pred HHHHHhCCC--CCCcccccHHHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence 444444444 23234568899999999999999999999998754
No 5
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=36.20 E-value=1.1e+02 Score=20.70 Aligned_cols=39 Identities=13% Similarity=0.250 Sum_probs=29.3
Q ss_pred cccccHHHHHHHHHHHHhhhCCCcChhhHHHHHHHHHHHHHhhhhhh
Q psy7189 17 KKYRDFAEYLRELTRAQFVSNNKFTIEEEETLKKNLASLKRLSEDIY 63 (120)
Q Consensus 17 K~gRDLG~~lR~~v~~~F~~g~~t~~~d~e~c~k~~~SL~rI~~N~y 63 (120)
+.|..|.+.-.+++...-. ..+..+++.+.||+|....+
T Consensus 31 ~~~~~ls~~d~~~L~~L~~--------~a~rm~eRI~tLE~ILd~e~ 69 (75)
T TIGR02976 31 KTAASLSTDDQALLQELYA--------KADRLEERIDTLERILDAEH 69 (75)
T ss_pred ccCCCCCHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHcCCC
Confidence 3455577777777776663 45789999999999998764
No 6
>smart00831 Cation_ATPase_N Cation transporter/ATPase, N-terminus. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+, Na+, Ca2+, Na+/K+, and H+/K+. In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases PUBMED:12480547, PUBMED:12529322.
Probab=34.79 E-value=18 Score=22.28 Aligned_cols=39 Identities=18% Similarity=0.283 Sum_probs=23.6
Q ss_pred CCCccc-cccHHHHhhhccHHHHHHHHhc-chhHHHHHHhh
Q psy7189 71 FQTSAS-GLNGKECNTLLSQEFLDAMRED-SKGMFSKLFKR 109 (120)
Q Consensus 71 ~~Ssat-Glt~eec~~vLS~e~l~~~~e~-kk~~~kkl~~~ 109 (120)
+.|+.+ |||.+|+..-+..---..+... .+++|.++++.
T Consensus 3 l~~~~~~GLs~~~v~~r~~~~G~N~l~~~~~~s~~~~~l~~ 43 (64)
T smart00831 3 LQTSLESGLSSEEAARRLERYGPNELPPPKKRSPLLRFLRQ 43 (64)
T ss_pred CCCCcccCCCHHHHHHHHHHhCCCCCCCCCCCCHHHHHHHH
Confidence 455665 9999997644433322233343 57888887764
No 7
>PF03637 Mob1_phocein: Mob1/phocein family; InterPro: IPR005301 Mob1 is an essential Saccharomyces cerevisiae (Baker's yeast) protein, identified from a two-hybrid screen, that binds Mps1p, a protein kinase essential for spindle pole body duplication and mitotic checkpoint regulation. Mob1 contains no known structural motifs; however MOB1 is a member of a conserved gene family and shares sequence similarity with a nonessential yeast gene, MOB2. Mob1 is a phosphoprotein in vivo and a substrate for the Mps1p kinase in vitro. Conditional alleles of MOB1 cause a late nuclear division arrest at restrictive temperature []. This family also includes phocein Q9QYW3 from SWISSPROT, a rat protein that by yeast two hybrid interacts with striatin [].; PDB: 2HJN_A 1PI1_A 1R3B_A.
Probab=31.41 E-value=1.7e+02 Score=22.46 Aligned_cols=40 Identities=10% Similarity=0.065 Sum_probs=28.5
Q ss_pred CCCcChhhHHHHHHHHHHHHHhhhhhhhccCCCCCCCccccc
Q psy7189 37 NNKFTIEEEETLKKNLASLKRLSEDIYNKKYPRTFQTSASGL 78 (120)
Q Consensus 37 g~~t~~~d~e~c~k~~~SL~rI~~N~y~~kyPR~~~SsatGl 78 (120)
+..+.++.|+.++.-+...+.+.+|. +-||-.....|..-
T Consensus 74 ~kp~~~~A~~Yi~~~l~w~~~~l~d~--~iFPt~~~~~fp~~ 113 (175)
T PF03637_consen 74 KKPVKCSAPQYIDHLLDWIQSQLNDE--KIFPTKPGVPFPKN 113 (175)
T ss_dssp TS-BS--HHHHHHHHHHHHHHHHTST--TTSSSSTTS-TTTT
T ss_pred CCCcccCHHHHHHHHHHHHHHHccCc--ccCCCccccchhHH
Confidence 45677788999999999999999987 56888876666443
No 8
>PF05946 TcpA: Toxin-coregulated pilus subunit TcpA; InterPro: IPR010271 This family consists of toxin-coregulated pilus subunit (TcpA) proteins from Vibrio cholerae and related sequences. The major virulence factors of toxigenic V. cholerae are cholera toxin (CT), which is encoded by a lysogenic bacteriophage (CTXPhi), and toxin-coregulated pilus (TCP), an essential colonisation factor which is also the receptor for CTXPhi. The genes for the biosynthesis of TCP are part of a larger genetic element known as the TCP pathogenicity island [].; GO: 0009405 pathogenesis, 0009289 pilus, 0043230 extracellular organelle; PDB: 1OQV_A 3S0T_B 3HRV_A.
Probab=31.15 E-value=21 Score=26.85 Aligned_cols=15 Identities=33% Similarity=0.851 Sum_probs=11.9
Q ss_pred cccccHHHHhhhccH
Q psy7189 75 ASGLNGKECNTLLSQ 89 (120)
Q Consensus 75 atGlt~eec~~vLS~ 89 (120)
+-|||-||||-|+++
T Consensus 42 vnGLtq~QCrslitq 56 (127)
T PF05946_consen 42 VNGLTQEQCRSLITQ 56 (127)
T ss_dssp EEEE-HHHHHHHHHH
T ss_pred ECCcCHHHHHHHHHh
Confidence 469999999999875
No 9
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=30.25 E-value=61 Score=18.32 Aligned_cols=26 Identities=23% Similarity=0.556 Sum_probs=16.0
Q ss_pred hhhHHHHHHHHHHHHHhhhhhhhccCCC
Q psy7189 42 IEEEETLKKNLASLKRLSEDIYNKKYPR 69 (120)
Q Consensus 42 ~~d~e~c~k~~~SL~rI~~N~y~~kyPR 69 (120)
++.+..+...|+-|..|- .|..+||.
T Consensus 3 is~~d~f~eFY~rlk~Ik--e~Hrr~Pn 28 (28)
T PF12108_consen 3 ISGGDPFSEFYERLKEIK--EYHRRYPN 28 (28)
T ss_dssp --S--HHHHHHHHHHHHH--HHHHS--S
T ss_pred CCCCChHHHHHHHHHHHH--HHHHhCCC
Confidence 345678889999999985 47777873
No 10
>KOG1106|consensus
Probab=29.85 E-value=1.4e+02 Score=23.58 Aligned_cols=39 Identities=18% Similarity=0.160 Sum_probs=32.0
Q ss_pred ChhHHHHHHHHh--hcCCc-ccccHHHHHHHHHHHHhhhCCC
Q psy7189 1 MCYLYQVVVIYW--VGEGK-KYRDFAEYLRELTRAQFVSNNK 39 (120)
Q Consensus 1 ~~~~fl~L~e~W--~D~tK-~gRDLG~~lR~~v~~~F~~g~~ 39 (120)
||=+|--+..+| .|..+ .|+=+.+.+++++..+.....+
T Consensus 98 ~~phFY~fg~kl~~l~s~~~l~~~~se~l~~R~~~~l~~~~s 139 (177)
T KOG1106|consen 98 LCPHFYEFGMKLLPLDSGENLGIILSETLRSRVREILDSSLS 139 (177)
T ss_pred cccHHHHHHHHHhhcccCcchhHHHHHHHHHHHHHHHHHHhh
Confidence 456777788899 78777 6899999999999999877655
No 11
>PRK05445 hypothetical protein; Validated
Probab=29.33 E-value=29 Score=26.95 Aligned_cols=44 Identities=18% Similarity=0.311 Sum_probs=36.9
Q ss_pred hHHHHHHHHHHHHHhhhhhhhccCCCCCCCccccccHHHHhhhccH
Q psy7189 44 EEETLKKNLASLKRLSEDIYNKKYPRTFQTSASGLNGKECNTLLSQ 89 (120)
Q Consensus 44 d~e~c~k~~~SL~rI~~N~y~~kyPR~~~SsatGlt~eec~~vLS~ 89 (120)
||+. ...|.-++.|..+=|. -++|.++.-+.+||-++|+.|+.-
T Consensus 22 ~pen-a~~Y~~~~~ile~Gy~-l~~~el~~~~~~lse~~c~~ViDI 65 (164)
T PRK05445 22 DPEN-AERYRRLQTIIERGYG-LQMRELDREFGELTEETCRTVIDI 65 (164)
T ss_pred Chhh-HHHHHHHHHHHHhhhh-hHHHHHHhhcccCCHHHHHHHHHH
Confidence 6666 3488889999999996 558989999999999999999854
No 12
>PF09713 A_thal_3526: Plant protein 1589 of unknown function (A_thal_3526); InterPro: IPR006476 This plant-specific family of proteins are defined by an uncharacterised region 57 residues in length. It is found toward the N terminus of most proteins that contain it. Examples include at least several proteins from Arabidopsis thaliana (Mouse-ear cress) and Oryza sativa (Rice). The function of the proteins are unknown.
Probab=27.84 E-value=78 Score=20.42 Aligned_cols=20 Identities=5% Similarity=0.336 Sum_probs=16.0
Q ss_pred HHHHHHHHhcchhHHHHHHh
Q psy7189 89 QEFLDAMREDSKGMFSKLFK 108 (120)
Q Consensus 89 ~e~l~~~~e~kk~~~kkl~~ 108 (120)
.-..++|+++|..||+.++.
T Consensus 34 ~~VW~~Le~eN~eFF~aY~~ 53 (54)
T PF09713_consen 34 STVWQKLEKENPEFFKAYYT 53 (54)
T ss_pred HHHHHHHHHHCHHHHHHhhc
Confidence 34678899999999988764
No 13
>KOG0717|consensus
Probab=26.80 E-value=2.5e+02 Score=25.71 Aligned_cols=87 Identities=9% Similarity=0.143 Sum_probs=55.5
Q ss_pred HHHHHHHHh-hcCCcccccHHHHHHHHHHHHhhhCCCcChhhHHHHHHHHHH-HHHhhhhhhhccCCCCCCCccccccHH
Q psy7189 4 LYQVVVIYW-VGEGKKYRDFAEYLRELTRAQFVSNNKFTIEEEETLKKNLAS-LKRLSEDIYNKKYPRTFQTSASGLNGK 81 (120)
Q Consensus 4 ~fl~L~e~W-~D~tK~gRDLG~~lR~~v~~~F~~g~~t~~~d~e~c~k~~~S-L~rI~~N~y~~kyPR~~~SsatGlt~e 81 (120)
.|-+|+=+| .|+...+-.=++.+=+.|.+|.- .++||..= .-|+| =++|..+.|- .||.+.+
T Consensus 28 ~YRklALq~HPDknpd~ieeat~~F~~i~aAYe-----VLSdp~eR-~wyd~hreqil~~~~s----------~~~~~~~ 91 (508)
T KOG0717|consen 28 NYRKLALQYHPDKNPDRIEEATQQFQLIQAAYE-----VLSDPQER-AWYDSHREQILRGKNS----------DTGVQIE 91 (508)
T ss_pred HHHHHHHhhCCCCCCccHHHHHHHHHHHHHHHH-----HhcChHhh-hhHHHHHHHHhcCCCC----------ccccchH
Confidence 477888899 99887776666666677777763 23455431 12322 3445555432 7899999
Q ss_pred HHhhhccHHHHHHHHhcchhHHHHH
Q psy7189 82 ECNTLLSQEFLDAMREDSKGMFSKL 106 (120)
Q Consensus 82 ec~~vLS~e~l~~~~e~kk~~~kkl 106 (120)
++=+-+++---........||++-+
T Consensus 92 dlf~ff~~~~y~gy~~~~~gfy~vy 116 (508)
T KOG0717|consen 92 DLFQFFTSSCYIGYENTSAGFYRVY 116 (508)
T ss_pred HHHHHhhhhhhcccccccchhHHHH
Confidence 8877776665566666677776543
No 14
>PRK13858 type IV secretion system T-DNA border endonuclease VirD1; Provisional
Probab=25.18 E-value=1.3e+02 Score=23.13 Aligned_cols=69 Identities=23% Similarity=0.180 Sum_probs=42.4
Q ss_pred cccccHHHHHHHHHHH--HhhhCCCcChhhHHHHHHHHHHHHHhhhhh-----hhccCCCCC------CCccccccHHHH
Q psy7189 17 KKYRDFAEYLRELTRA--QFVSNNKFTIEEEETLKKNLASLKRLSEDI-----YNKKYPRTF------QTSASGLNGKEC 83 (120)
Q Consensus 17 K~gRDLG~~lR~~v~~--~F~~g~~t~~~d~e~c~k~~~SL~rI~~N~-----y~~kyPR~~------~SsatGlt~eec 83 (120)
..|.-..+|||+.+.. .+-.. .-..++...+.+.+|..|.||. +.+.+|++- +--++|...+++
T Consensus 45 ~aGlS~SEfIRqAi~~~~g~V~v---~r~T~e~~~~lir~l~gianNLNQLAr~aN~~~~~~~~~l~~er~~~g~~~~~l 121 (147)
T PRK13858 45 LLGLSDSMAIRVAVRRIGGFLEI---DAETREKMEAILQSIGTLSSNIAALLSAYAENPRPDLEALRAERIAFGKEFADL 121 (147)
T ss_pred HcCCCHHHHHHHHHHhcCCeEee---cccCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHHHH
Confidence 3688899999999986 33321 1124456667788888888884 555567522 112466666666
Q ss_pred hhhcc
Q psy7189 84 NTLLS 88 (120)
Q Consensus 84 ~~vLS 88 (120)
.-+|-
T Consensus 122 ~~~l~ 126 (147)
T PRK13858 122 DGLLR 126 (147)
T ss_pred HHHHH
Confidence 55543
No 15
>TIGR01589 A_thal_3526 uncharacterized plant-specific domain TIGR01589. This model represents an uncharacterized plant-specific domain 57 residues in length. It is found toward the N-terminus of most proteins that contain it. Examples include at least 10 proteins from Arabidopsis thaliana and at least one from Oryza sativa.
Probab=25.09 E-value=1e+02 Score=20.09 Aligned_cols=20 Identities=5% Similarity=0.054 Sum_probs=15.9
Q ss_pred HHHHHHHHhcchhHHHHHHh
Q psy7189 89 QEFLDAMREDSKGMFSKLFK 108 (120)
Q Consensus 89 ~e~l~~~~e~kk~~~kkl~~ 108 (120)
+-..++|+++|+.||+-++-
T Consensus 37 ~~VW~~LekeN~eFF~aY~~ 56 (57)
T TIGR01589 37 RFVWYLLEKENADFFRCYKT 56 (57)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 44778899999999988764
No 16
>PF10548 P22_AR_C: P22AR C-terminal domain; InterPro: IPR018876 This entry represents the carboxy-terminal domain of the Enterobacteria phage P22 antirepressor ((P03037 from SWISSPROT) []. It is found associated with IPR018875 from INTERPRO.
Probab=24.76 E-value=77 Score=21.32 Aligned_cols=43 Identities=14% Similarity=0.179 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHhhhhhhhccCCCCCCCcc-ccccHHHHhhhccHHH
Q psy7189 45 EETLKKNLASLKRLSEDIYNKKYPRTFQTSA-SGLNGKECNTLLSQEF 91 (120)
Q Consensus 45 ~e~c~k~~~SL~rI~~N~y~~kyPR~~~Ssa-tGlt~eec~~vLS~e~ 91 (120)
.+.|...|..|+.|.|++.. +.++-.. .+-+++..+.||.-++
T Consensus 27 ~~~~~~l~p~L~~lgS~~a~----~~ys~a~Ey~~~~~~~r~iL~R~t 70 (74)
T PF10548_consen 27 RELCQELYPALKALGSNYAG----KVYSIAYEYRRTLERARKILKRET 70 (74)
T ss_pred HHHHHHHHHHHHHhCCCcCc----cccchHHHHHHHHHHHHHHHHHHh
Confidence 36789999999999999854 4444444 5666777777765543
No 17
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=24.05 E-value=1.6e+02 Score=17.01 Aligned_cols=15 Identities=7% Similarity=0.288 Sum_probs=10.5
Q ss_pred HHHHHHHHh-hcCCcc
Q psy7189 4 LYQVVVIYW-VGEGKK 18 (120)
Q Consensus 4 ~fl~L~e~W-~D~tK~ 18 (120)
+|.+|+..| .|....
T Consensus 20 ~y~~l~~~~HPD~~~~ 35 (55)
T cd06257 20 AYRKLALKYHPDKNPD 35 (55)
T ss_pred HHHHHHHHHCcCCCCC
Confidence 567777788 777653
No 18
>PRK01379 cyaY frataxin-like protein; Provisional
Probab=23.71 E-value=26 Score=25.14 Aligned_cols=32 Identities=16% Similarity=0.205 Sum_probs=24.8
Q ss_pred hHHHHHHHHhhcCCcccccHHHHHHHHHHHHhhh
Q psy7189 3 YLYQVVVIYWVGEGKKYRDFAEYLRELTRAQFVS 36 (120)
Q Consensus 3 ~~fl~L~e~W~D~tK~gRDLG~~lR~~v~~~F~~ 36 (120)
|||--.-..|+ ++-|++|.++|.+++..+|.+
T Consensus 69 ~hF~y~~g~W~--~r~g~el~~~L~~e~~~~~~~ 100 (103)
T PRK01379 69 YHFFYEQGKWK--NRAGLELMAILTEELNIKFDT 100 (103)
T ss_pred cceecCCCeeE--ECCCchHHHHHHHHHHHHhCc
Confidence 34433346888 578999999999999999854
No 19
>PF00177 Ribosomal_S7: Ribosomal protein S7p/S5e; InterPro: IPR023798 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S7 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S7 is known to bind directly to part of the 3'end of 16S ribosomal RNA. It belongs to a family of ribosomal proteins which have been grouped on the basis of sequence similarities [, , ]. This entry represents the S7 structural domain, which consists of a bundle of six helices and an extended beta hairpin between helices 3 and 4, with two or more RNA-binding sites on its surface [].; PDB: 3IZ6_F 3V28_G 2WRN_G 2HHH_G 2V46_G 3KNL_G 2UUC_G 2Y16_G 2Y0W_G 2J02_G ....
Probab=23.65 E-value=1.5e+02 Score=21.78 Aligned_cols=31 Identities=19% Similarity=0.302 Sum_probs=25.1
Q ss_pred HHHHHHh-hcCCc--ccccHHHHHHHHHHHHhhh
Q psy7189 6 QVVVIYW-VGEGK--KYRDFAEYLRELTRAQFVS 36 (120)
Q Consensus 6 l~L~e~W-~D~tK--~gRDLG~~lR~~v~~~F~~ 36 (120)
..++-+| ++..+ .+..+.+.|-+++-.++..
T Consensus 96 ~~lAikWi~~~~~~r~~~~~~~~La~Eii~a~~~ 129 (148)
T PF00177_consen 96 IFLAIKWILEAARKRKEKSFSERLANEIIDASNN 129 (148)
T ss_dssp HHHHHHHHHHHHHTSSSSSHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHhhcccchHHHHHHHHHHHHHcC
Confidence 4577889 75544 7999999999999999943
No 20
>CHL00053 rps7 ribosomal protein S7
Probab=23.54 E-value=1.9e+02 Score=21.67 Aligned_cols=34 Identities=15% Similarity=0.204 Sum_probs=27.3
Q ss_pred HHHHHHh-hcCCc--ccccHHHHHHHHHHHHhhhCCC
Q psy7189 6 QVVVIYW-VGEGK--KYRDFAEYLRELTRAQFVSNNK 39 (120)
Q Consensus 6 l~L~e~W-~D~tK--~gRDLG~~lR~~v~~~F~~g~~ 39 (120)
..|+-+| ++..+ .++.+.+.|-+++-.++.....
T Consensus 97 ~~lAirWil~~ar~r~~~~~~~~La~Eii~A~~~~g~ 133 (155)
T CHL00053 97 KALAIRWLLKASRKRSGRNMAFKLSSELVDAAKGSGN 133 (155)
T ss_pred HHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhCCCc
Confidence 4678899 86655 6999999999999999965443
No 21
>PRK05302 30S ribosomal protein S7; Validated
Probab=23.13 E-value=1.9e+02 Score=21.83 Aligned_cols=34 Identities=18% Similarity=0.240 Sum_probs=27.4
Q ss_pred HHHHHHh-hcCC--cccccHHHHHHHHHHHHhhhCCC
Q psy7189 6 QVVVIYW-VGEG--KKYRDFAEYLRELTRAQFVSNNK 39 (120)
Q Consensus 6 l~L~e~W-~D~t--K~gRDLG~~lR~~v~~~F~~g~~ 39 (120)
..|+-+| ++.. +.|+++.+.|.+++-.|......
T Consensus 97 ~~lAirwil~~a~~r~~~~~~~~La~Eii~A~~~~g~ 133 (156)
T PRK05302 97 QALAMRWLVEAARKRGEKTMAERLANELLDAANNRGA 133 (156)
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCCCC
Confidence 4578899 7665 47999999999999999975433
No 22
>TIGR03450 mycothiol_INO1 inositol 1-phosphate synthase, Actinobacterial type. This enzyme, inositol 1-phosphate synthase as found in Actinobacteria, produces an essential precursor for several different products, including mycothiol, which is a glutathione analog, and phosphatidylinositol, which is a phospholipid.
Probab=22.96 E-value=40 Score=29.24 Aligned_cols=17 Identities=18% Similarity=0.167 Sum_probs=14.2
Q ss_pred HHh-hcCCcccccHHHHH
Q psy7189 10 IYW-VGEGKKYRDFAEYL 26 (120)
Q Consensus 10 e~W-~D~tK~gRDLG~~l 26 (120)
.-| +|+.|+|+||.+.|
T Consensus 51 aafDVd~~KVGkdlseai 68 (351)
T TIGR03450 51 AAFDVDAKKVGFDLSDAI 68 (351)
T ss_pred EEEeccccccCccHHHHH
Confidence 347 89999999999865
No 23
>PF14824 Sirohm_synth_M: Sirohaem biosynthesis protein central; PDB: 1KYQ_B.
Probab=22.47 E-value=96 Score=17.83 Aligned_cols=16 Identities=13% Similarity=0.152 Sum_probs=12.2
Q ss_pred cccHHHHHHHHHHHHh
Q psy7189 19 YRDFAEYLRELTRAQF 34 (120)
Q Consensus 19 gRDLG~~lR~~v~~~F 34 (120)
+--|+..||+++++.|
T Consensus 15 sP~la~~iR~~ie~~l 30 (30)
T PF14824_consen 15 SPRLARLIRKEIERLL 30 (30)
T ss_dssp -HHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHhC
Confidence 3457889999998876
No 24
>cd07321 Extradiol_Dioxygenase_3A_like Subunit A of Class III extradiol dioxygenases. Extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. There are two major groups of dioxygenases according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents subunit A of c
Probab=22.04 E-value=1.6e+02 Score=19.63 Aligned_cols=21 Identities=24% Similarity=0.229 Sum_probs=17.1
Q ss_pred cccHHHHhhhccHHHHHHHHh
Q psy7189 77 GLNGKECNTLLSQEFLDAMRE 97 (120)
Q Consensus 77 Glt~eec~~vLS~e~l~~~~e 97 (120)
|||-||...|++-|...=+..
T Consensus 34 ~Lt~eE~~al~~rD~~~L~~l 54 (77)
T cd07321 34 GLTPEEKAALLARDVGALYVL 54 (77)
T ss_pred CCCHHHHHHHHcCCHHHHHHc
Confidence 999999999999886654444
No 25
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=21.09 E-value=1.3e+02 Score=18.93 Aligned_cols=34 Identities=24% Similarity=0.365 Sum_probs=24.5
Q ss_pred ccHHHHHHHHHHHHhhhCCCcChhhHHHHHHHHHHHHH
Q psy7189 20 RDFAEYLRELTRAQFVSNNKFTIEEEETLKKNLASLKR 57 (120)
Q Consensus 20 RDLG~~lR~~v~~~F~~g~~t~~~d~e~c~k~~~SL~r 57 (120)
-||.+||..+--+.|..+.. |=...|..+.+|++
T Consensus 16 d~l~~Hi~s~~Hr~FA~~~~----Nf~~lD~Li~~l~r 49 (49)
T smart00586 16 DDLETHLLSEKHRRFAENND----NFQALDDLISQLRR 49 (49)
T ss_pred hhHHHHhccHHHHHHHcCch----hHHHHHHHHHHhcC
Confidence 47888898888888887665 44666666666653
No 26
>TIGR01029 rpsG_bact ribosomal protein S7, bacterial/organelle. This model describes the bacterial and organellar branch of the ribosomal protein S7 family (includes prokaroytic S7 and eukaryotic S5). The eukaryotic and archaeal branch is described by model TIGR01028.
Probab=20.83 E-value=2.3e+02 Score=21.33 Aligned_cols=31 Identities=16% Similarity=0.224 Sum_probs=25.9
Q ss_pred HHHHHHh-hcCCc--ccccHHHHHHHHHHHHhhh
Q psy7189 6 QVVVIYW-VGEGK--KYRDFAEYLRELTRAQFVS 36 (120)
Q Consensus 6 l~L~e~W-~D~tK--~gRDLG~~lR~~v~~~F~~ 36 (120)
..|+-+| ++..+ .|+++.+.|.+++-.+...
T Consensus 95 ~~lAirWil~~a~~r~~~~~~~~La~Eii~A~~~ 128 (154)
T TIGR01029 95 YALAIRWLIEAARKRGGKSMAERLANEILDAANN 128 (154)
T ss_pred HHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhC
Confidence 4678899 76655 6999999999999999874
No 27
>KOG3442|consensus
Probab=20.39 E-value=53 Score=24.91 Aligned_cols=57 Identities=16% Similarity=0.111 Sum_probs=33.7
Q ss_pred cCCcccccHHHHHHHHHHHHhhhCCCcChhhHHHHHHHHHHHHHhhhhhhhccCCCCCCCccccccHHHHhhhccHH
Q psy7189 14 GEGKKYRDFAEYLRELTRAQFVSNNKFTIEEEETLKKNLASLKRLSEDIYNKKYPRTFQTSASGLNGKECNTLLSQE 90 (120)
Q Consensus 14 D~tK~gRDLG~~lR~~v~~~F~~g~~t~~~d~e~c~k~~~SL~rI~~N~y~~kyPR~~~SsatGlt~eec~~vLS~e 90 (120)
..+=+||-|...+|++++..-..+.. -+++ ..-.|-.-.++..|+|++|-+.||--+
T Consensus 12 G~qvvgrAf~~A~RQeia~s~~aa~~------------~~a~--------k~g~~~~~~~~~~~iTlqEa~qILnV~ 68 (132)
T KOG3442|consen 12 GSQVVGRAFVQAYRQEIAASQQAAAR------------QAAG--------KSGTRSAEANSNGKITLQEAQQILNVK 68 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH------------HHhh--------hcCcccccccccccccHHHHhhHhCCC
Confidence 34447888888888888765432211 0111 111233334556889999999998543
No 28
>TIGR02905 spore_yutH spore coat protein YutH. Members of this family are homologs of the Bacillus subtilis spore coat protein CotS. Members of this family, designated YutH, are found only in the family Bacillaceae from among the endospore-forming members of the Firmicutes branch of the Bacteria.
Probab=20.35 E-value=1.4e+02 Score=24.24 Aligned_cols=34 Identities=21% Similarity=0.364 Sum_probs=21.0
Q ss_pred cccccHHHHHHHHHHHHhhhCCCcChhhHHHHHHHHHHHHH
Q psy7189 17 KKYRDFAEYLRELTRAQFVSNNKFTIEEEETLKKNLASLKR 57 (120)
Q Consensus 17 K~gRDLG~~lR~~v~~~F~~g~~t~~~d~e~c~k~~~SL~r 57 (120)
=+.|||+.|||+.+..-.. . |-+.|...+++-++
T Consensus 218 ~~~~DL~~firk~~~k~~~---~----~~~~~~~~l~~Y~~ 251 (313)
T TIGR02905 218 HPARDLAEWIRERYMGEIR---Q----NQRAIASFLQEYEQ 251 (313)
T ss_pred cchhHHHHHHHHHHHHhcc---c----cHHHHHHHHHHhhh
Confidence 3788999999997753321 1 22356666655443
Done!