Query psy4825
Match_columns 122
No_of_seqs 111 out of 725
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 18:44:13 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4825.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4825hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3717|consensus 100.0 9E-39 1.9E-43 260.9 8.7 113 1-113 491-604 (612)
2 PF00755 Carn_acyltransf: Chol 100.0 6.9E-36 1.5E-40 250.1 8.1 109 1-109 482-591 (591)
3 KOG3719|consensus 100.0 9.5E-33 2.1E-37 224.6 9.5 113 1-116 522-635 (638)
4 KOG3716|consensus 100.0 7.8E-30 1.7E-34 212.1 6.6 112 2-116 636-761 (764)
5 KOG3718|consensus 99.9 1.4E-26 3.1E-31 187.3 7.5 108 1-111 491-603 (609)
6 PF06974 DUF1298: Protein of u 96.0 0.06 1.3E-06 38.0 7.8 70 39-109 73-152 (153)
7 TIGR02946 acyl_WS_DGAT acyltra 81.3 11 0.00023 30.5 7.9 67 42-109 367-444 (446)
8 TIGR02681 phage_pRha phage reg 70.0 20 0.00044 24.0 5.6 43 69-114 65-107 (108)
9 PF13774 Longin: Regulated-SNA 63.7 19 0.00042 22.2 4.3 42 64-106 21-62 (83)
10 PF13222 DUF4030: Protein of u 59.7 33 0.00071 24.3 5.1 46 63-108 70-117 (142)
11 PF15560 Imm8: Immunity protei 58.9 30 0.00066 24.2 4.8 36 78-113 78-115 (133)
12 KOG3438|consensus 40.5 67 0.0015 21.6 4.1 43 63-111 40-85 (105)
13 PRK12729 fliE flagellar hook-b 36.4 46 0.00099 23.2 2.9 26 89-114 51-76 (127)
14 cd01207 Ena-Vasp Enabled-VASP- 36.2 42 0.00092 22.7 2.7 18 90-107 93-110 (111)
15 PRK12566 glycine dehydrogenase 35.8 94 0.002 28.7 5.5 42 73-116 845-886 (954)
16 PF05137 PilN: Fimbrial assemb 35.5 98 0.0021 18.3 4.2 38 62-102 9-47 (78)
17 PF01193 RNA_pol_L: RNA polyme 34.1 1E+02 0.0022 18.2 4.2 40 66-111 26-65 (66)
18 PF01797 Y1_Tnp: Transposase I 33.4 1.3E+02 0.0029 19.3 5.2 35 69-106 43-77 (121)
19 PF02662 FlpD: Methyl-viologen 32.2 83 0.0018 21.4 3.7 33 73-110 91-123 (124)
20 PF09669 Phage_pRha: Phage reg 31.3 66 0.0014 20.5 3.0 39 69-110 54-92 (93)
21 cd00460 RNAP_RPB11_RPB3 RPB11 31.1 1.4E+02 0.003 18.8 6.0 32 75-112 53-84 (86)
22 PF09564 RE_NgoBV: NgoBV restr 27.9 1.1E+02 0.0023 23.5 3.8 39 67-106 163-201 (240)
23 PF11281 DUF3083: Protein of u 27.8 96 0.0021 24.8 3.8 74 48-121 41-116 (316)
24 PF10590 PNPOx_C: Pyridoxine 5 26.4 61 0.0013 18.0 1.9 15 68-82 1-15 (42)
25 PF13230 GATase_4: Glutamine a 26.2 94 0.002 24.0 3.5 24 59-83 28-51 (271)
26 PF05524 PEP-utilisers_N: PEP- 25.9 44 0.00094 22.2 1.4 45 67-113 12-57 (123)
27 TIGR01821 5aminolev_synth 5-am 24.6 1.1E+02 0.0024 24.2 3.7 30 76-107 368-397 (402)
28 PRK10449 heat-inducible protei 24.2 1.5E+02 0.0032 20.5 3.9 27 65-91 68-96 (140)
29 PF00659 POLO_box: POLO box du 24.1 92 0.002 18.5 2.5 16 66-81 4-19 (68)
30 COG0121 Predicted glutamine am 23.2 81 0.0018 24.3 2.6 20 56-75 25-44 (252)
31 PF06117 DUF957: Enterobacteri 22.1 1.9E+02 0.004 17.8 3.5 25 90-114 35-59 (65)
32 PHA02668 GM-CSF/IL-2 inhibitio 21.2 95 0.0021 24.0 2.5 48 31-86 70-117 (265)
33 cd03770 SR_TndX_transposase Se 20.9 1E+02 0.0022 20.9 2.5 29 6-34 16-45 (140)
34 PLN02414 glycine dehydrogenase 20.6 2.5E+02 0.0054 26.1 5.4 40 73-114 876-915 (993)
35 PF10438 Cyc-maltodext_C: Cycl 20.5 1.6E+02 0.0035 18.5 3.2 41 59-101 5-46 (78)
36 PRK15265 subtilase cytotoxin s 20.4 1.3E+02 0.0027 21.2 2.8 54 6-63 72-133 (134)
37 cd01220 PH_CDEP Chondrocyte-de 20.4 1.7E+02 0.0037 18.9 3.4 34 70-106 66-99 (99)
38 PRK14012 cysteine desulfurase; 20.4 1.1E+02 0.0024 24.3 3.0 42 67-110 342-383 (404)
39 PF07687 M20_dimer: Peptidase 20.3 2E+02 0.0043 17.9 3.7 38 70-108 71-108 (111)
40 PF07660 STN: Secretin and Ton 20.2 1.1E+02 0.0025 16.7 2.3 18 63-80 32-49 (52)
41 PRK10118 flagellar hook-length 20.2 3.8E+02 0.0082 22.3 5.9 43 67-116 304-346 (408)
No 1
>KOG3717|consensus
Probab=100.00 E-value=9e-39 Score=260.94 Aligned_cols=113 Identities=53% Similarity=0.952 Sum_probs=110.5
Q ss_pred CcccccCCchhHHHHHHHHHHHhCCCCc-ccccchhhhhcCCceEeecCCCCCCcCccccCCccCCceeEEeeecCCeEE
Q psy4825 1 MTENIQGEGIDLHLLGLRQTALEHNIPC-ELFQDEAYKLSNYFKLSTSQVACKSDSFMGYGPVVPDGYGCSYNPREATIV 79 (122)
Q Consensus 1 ~~~a~~G~G~DRHL~aL~~~a~~~~~~~-~lF~d~~~~~~~~~~LSTS~~~~~~~~~~gfgp~~~dGyGi~Y~i~~d~i~ 79 (122)
+++|++|.||||||+|||++|.|.+.++ +||.||.|..+++|.|||||+++..+..+||||+++||||+||++++++|.
T Consensus 491 t~~ai~G~gvDrHLlgLk~~a~e~~~~iPelF~dp~y~~s~~F~lSTSQV~t~~d~~m~yGpvv~dGYG~cYNp~~~~i~ 570 (612)
T KOG3717|consen 491 TKRAIRGNGVDRHLLGLKLMAIENCKPIPELFKDPSYAISMHFLLSTSQVPTKTDIFMGYGPVVPDGYGCCYNPQEEHII 570 (612)
T ss_pred HHHHhccccchHHHHHHHHHHHHhCCCcchhhcCcHhhHhheeeeecccCccccceeeeecCcCCCCcccccCCCcceEE
Confidence 4679999999999999999999999999 999999999999999999999999999999999999999999999999999
Q ss_pred EEEEecCCCCCccHHHHHHHHHHHHHHHHHHHhc
Q psy4825 80 FCVSAFKSCLTTSAAKFATSLDESLSAIGNLVES 113 (122)
Q Consensus 80 f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll~~ 113 (122)
|+||+|++|++|++.||+.+|++|++||+++|+.
T Consensus 571 f~isaf~sc~~Ts~~rfak~L~~al~dmkdll~~ 604 (612)
T KOG3717|consen 571 FAISAFRSCPETSASRFAKYLEQALDDMRDLLSN 604 (612)
T ss_pred EEeeccccCccccHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999985
No 2
>PF00755 Carn_acyltransf: Choline/Carnitine o-acyltransferase; InterPro: IPR000542 A number of eukaryotic acetyltransferases can, on the basis of sequence similarities, be grouped together into a family. These enzymes include: Choline o-acetyltransferase 2.3.1.6 from EC, an enzyme that catalyses the biosynthesis of the neurotransmitter acetylcholine []. Carnitine o-acetyltransferase 2.3.1.7 from EC []. Peroxisomal carnitine octanoyltransferase 2.3.1.137 from EC, a fatty acid beta-oxidation pathway enzyme which is involved in the transport of medium-chain acyl-coenzyme A's from peroxisome to mitochondria []. Mitochondrial carnitine palmitoyltransferases I and II 2.3.1.21 from EC (CPT), enzymes involved in fatty acid metabolism and transport []. Mycoplasma pneumoniae putative acetyltransferase C09_orf600. ; GO: 0016746 transferase activity, transferring acyl groups; PDB: 2DEB_B 2H4T_A 2FW3_A 2RCU_B 2FYO_A 1S5O_A 1NM8_A 1T7Q_B 2H3W_B 1NDI_B ....
Probab=100.00 E-value=6.9e-36 Score=250.13 Aligned_cols=109 Identities=49% Similarity=0.775 Sum_probs=100.0
Q ss_pred CcccccCCchhHHHHHHHHHHHhCCCCc-ccccchhhhhcCCceEeecCCCCCCcCccccCCccCCceeEEeeecCCeEE
Q psy4825 1 MTENIQGEGIDLHLLGLRQTALEHNIPC-ELFQDEAYKLSNYFKLSTSQVACKSDSFMGYGPVVPDGYGCSYNPREATIV 79 (122)
Q Consensus 1 ~~~a~~G~G~DRHL~aL~~~a~~~~~~~-~lF~d~~~~~~~~~~LSTS~~~~~~~~~~gfgp~~~dGyGi~Y~i~~d~i~ 79 (122)
|++|++|+||||||+||+++|++.|.++ +||.||+|.++++|.||||++++.....+|||||+||||||+|+|++|+|.
T Consensus 482 ~~~a~~G~G~dRHL~~L~~~a~~~~~~~P~lf~d~~~~~~~~~~lsTS~~~~~~~~~~gfgpv~~dGyGi~Y~i~~~~i~ 561 (591)
T PF00755_consen 482 IKEAMRGKGFDRHLFGLRCLAKENGIELPELFSDPAYKRSSNFVLSTSQVPSPALSGGGFGPVVPDGYGICYNIQPDSIS 561 (591)
T ss_dssp HHHHHTTTSSHHHHHHHHHHHHHTTSS--HHHHSHHHHHHTS-SEEEEEEEESSSEEEE---SSTTSEEEEEEEESSEEE
T ss_pred HHHHhcCCchHHHHHHHHHHHHhhccchhhhccChHHHhcCCceeecccccccccccccccCCCCcceEEEEEecCCeEE
Confidence 4789999999999999999999999999 899999999999999999999999999999999999999999999999999
Q ss_pred EEEEecCCCCCccHHHHHHHHHHHHHHHHH
Q psy4825 80 FCVSAFKSCLTTSAAKFATSLDESLSAIGN 109 (122)
Q Consensus 80 f~vss~~s~~~~~~~~f~~~L~~al~~~~~ 109 (122)
|+||++++|+.+++++|+++|++||+||++
T Consensus 562 f~iss~~~~~~t~~~~f~~~l~~al~dm~d 591 (591)
T PF00755_consen 562 FSISSFKSCPETSSERFAKALEQALRDMRD 591 (591)
T ss_dssp EEEEEETTSTTS-HHHHHHHHHHHHHHHHH
T ss_pred EEEEecCCCCcccHHHHHHHHHHHHHHHhC
Confidence 999999999999999999999999999985
No 3
>KOG3719|consensus
Probab=99.98 E-value=9.5e-33 Score=224.64 Aligned_cols=113 Identities=35% Similarity=0.547 Sum_probs=107.4
Q ss_pred CcccccCCchhHHHHHHHHHHHhCCCCc-ccccchhhhhcCCceEeecCCCCCCcCccccCCccCCceeEEeeecCCeEE
Q psy4825 1 MTENIQGEGIDLHLLGLRQTALEHNIPC-ELFQDEAYKLSNYFKLSTSQVACKSDSFMGYGPVVPDGYGCSYNPREATIV 79 (122)
Q Consensus 1 ~~~a~~G~G~DRHL~aL~~~a~~~~~~~-~lF~d~~~~~~~~~~LSTS~~~~~~~~~~gfgp~~~dGyGi~Y~i~~d~i~ 79 (122)
+|+|++|+|+||||+|||++|+.+++++ +||.||+|.++++++||||++++++...+||||||+|||||+|+|++|.+.
T Consensus 522 tKeasmGqG~DRHl~ALk~la~~e~~~~pdlf~dp~y~~~~~nvLstStlgn~a~~~gGfgPvv~~GFGIGY~I~d~~vg 601 (638)
T KOG3719|consen 522 TKEASMGQGYDRHLFALKHLAQKESIPLPDLFEDPAYTRMNNNVLSTSTLGNPALTAGGFGPVVPNGFGIGYIIKDDQVG 601 (638)
T ss_pred HHHHhccCchHHHHHHHHHHHHhcCCCCchhhcCcccccccCceEeeccCCchhhhccCccccccCCcceeeEeecCccc
Confidence 5799999999999999999999999999 999999999999999999999999999999999999999999999999999
Q ss_pred EEEEecCCCCCccHHHHHHHHHHHHHHHHHHHhcCcc
Q psy4825 80 FCVSAFKSCLTTSAAKFATSLDESLSAIGNLVESRKI 116 (122)
Q Consensus 80 f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll~~~~~ 116 (122)
..|||++. ..+.+|..+|+++|++|+..++.++.
T Consensus 602 ~vVsS~~~---q~~~~f~~~leksL~ei~~~~~~~ks 635 (638)
T KOG3719|consen 602 AVVSSYKR---QRGARFMFMLEKSLDEIRSYLRMSKS 635 (638)
T ss_pred eEEecccc---ccHHHHHHHHHHHHHHHHHHHhcccc
Confidence 99999975 34999999999999999999987654
No 4
>KOG3716|consensus
Probab=99.96 E-value=7.8e-30 Score=212.09 Aligned_cols=112 Identities=35% Similarity=0.496 Sum_probs=101.0
Q ss_pred cccccCCchhHHHHHHHHHHHhCCCCcccccchhhhhcCCceEeecCCCCCC-------------cCccccCCccCCcee
Q psy4825 2 TENIQGEGIDLHLLGLRQTALEHNIPCELFQDEAYKLSNYFKLSTSQVACKS-------------DSFMGYGPVVPDGYG 68 (122)
Q Consensus 2 ~~a~~G~G~DRHL~aL~~~a~~~~~~~~lF~d~~~~~~~~~~LSTS~~~~~~-------------~~~~gfgp~~~dGyG 68 (122)
++||.|+|||||||+|+++++..+.+ +.|.|..+ +.+|.|||||+|... ..++|||||.+||||
T Consensus 636 k~aM~G~GvDRHLF~LyVvskyL~~~-SPFL~~v~--s~~W~LSTSq~P~~q~~~~d~~~~p~~i~~GggFGpvaddGYG 712 (764)
T KOG3716|consen 636 KEAMTGQGVDRHLFALYVVSKYLGVQ-SPFLDEVL--SEKWLLSTSQTPNMQENSFDEDKSPDNISLGGGFGPVADDGYG 712 (764)
T ss_pred HHHhhcCCccceeeeeeeehhhcccC-ChHHHhhc--CCceeecccCCcccchhccCcccCccccccCCccCCccCCCce
Confidence 68999999999999999999876666 66778755 789999999999775 277899999999999
Q ss_pred EEeeec-CCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHHHhcCcc
Q psy4825 69 CSYNPR-EATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNLVESRKI 116 (122)
Q Consensus 69 i~Y~i~-~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll~~~~~ 116 (122)
|||++. ++.|.|+|||++|++.||++||.++|.+|+.||++|++..+.
T Consensus 713 VsY~~~G~~~I~fHIsSk~Ss~~TDS~Rfg~hl~eal~di~~Lf~~~~~ 761 (764)
T KOG3716|consen 713 VSYIFAGENAIFFHISSKHSSENTDSHRFGQHLKEALHDIADLFEDATA 761 (764)
T ss_pred eEEEEecCceEEEEeecccccccccHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 999997 678999999999999999999999999999999999988763
No 5
>KOG3718|consensus
Probab=99.93 E-value=1.4e-26 Score=187.33 Aligned_cols=108 Identities=31% Similarity=0.486 Sum_probs=92.8
Q ss_pred CcccccCCchhHHHHHHHHHHHhCCCCc-ccccchhhhhcC---CceEeecCCCCCCcCcccc-CCccCCceeEEeeecC
Q psy4825 1 MTENIQGEGIDLHLLGLRQTALEHNIPC-ELFQDEAYKLSN---YFKLSTSQVACKSDSFMGY-GPVVPDGYGCSYNPRE 75 (122)
Q Consensus 1 ~~~a~~G~G~DRHL~aL~~~a~~~~~~~-~lF~d~~~~~~~---~~~LSTS~~~~~~~~~~gf-gp~~~dGyGi~Y~i~~ 75 (122)
|++|+.|+||||||+||+++|.+.+.++ +||.||.|.++. +|+||||.++.. ..+|| +|+++||||+.|.|.+
T Consensus 491 M~d~~~GkG~DRHl~GL~laa~e~~~~iPefl~dp~fskSGGgGNFvLSTSf~Gy~--~tfG~VapMv~dGYG~FY~I~~ 568 (609)
T KOG3718|consen 491 MNDARKGKGIDRHLFGLWLAAYESKMDIPEFLDDPMFSKSGGGGNFVLSTSFLGYT--ATFGFVAPMVFDGYGVFYSITS 568 (609)
T ss_pred HHHHhcCCCccHHHHHHHHHHHHhcCCchhhhcCccccccCCCCcEEEEeehhcch--hccceeeeecccCcceEEEecc
Confidence 6889999999999999999999999999 899999999977 799999999985 46676 7999999999999999
Q ss_pred CeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHHH
Q psy4825 76 ATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNLV 111 (122)
Q Consensus 76 d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll 111 (122)
++|.+.+|+|++|+.++++ |.+.|..++..+..+|
T Consensus 569 ~r~~va~Saw~ds~~t~ae-k~~ni~~~lf~~~~~L 603 (609)
T KOG3718|consen 569 ERVFVATSAWRDSLKTSAE-KFNNIFKDLFRRISVL 603 (609)
T ss_pred ceEEEehhhhhccchhhHH-HHHHHHHHHHhhHHHh
Confidence 9999999999999766555 5555555555554444
No 6
>PF06974 DUF1298: Protein of unknown function (DUF1298); InterPro: IPR009721 This entry represents the C terminus (approximately 170 residues) of a number of hypothetical plant proteins. O-acyltransferase WSD1 is a bifunctional wax ester synthase/diacylglycerol acyltransferase, which is involved in cuticular wax biosynthesis [].; GO: 0004144 diacylglycerol O-acyltransferase activity
Probab=95.98 E-value=0.06 Score=38.05 Aligned_cols=70 Identities=14% Similarity=0.182 Sum_probs=49.9
Q ss_pred cCCceEeecCCCCCCc---------CccccCC-ccCCceeEEeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHH
Q psy4825 39 SNYFKLSTSQVACKSD---------SFMGYGP-VVPDGYGCSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIG 108 (122)
Q Consensus 39 ~~~~~LSTS~~~~~~~---------~~~gfgp-~~~dGyGi~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~ 108 (122)
..+..+..|++|.+.. ..+.+.| ..+.|.+|+..=..+++.|.|++-++- --|.++|.+++++++++|+
T Consensus 73 ~~~~~~viSNVPGP~~~l~~~G~~v~~i~~~~~~~~~~L~itv~SY~g~l~~gi~ad~~~-vpD~~~l~~~~~~~l~eL~ 151 (153)
T PF06974_consen 73 SPKANLVISNVPGPQEPLYFAGARVEYIYPSPLGDGQALNITVFSYAGKLDFGIVADRDA-VPDPQRLADCFEEALEELK 151 (153)
T ss_pred cCcceEEEecCCCChhheEECCeeeEEEEeeeecCCcceEEEEEEeCCEEEEEEEEcccc-CCCHHHHHHHHHHHHHHHH
Confidence 3456788889998852 1122222 334455566665689999999997653 3599999999999999998
Q ss_pred H
Q psy4825 109 N 109 (122)
Q Consensus 109 ~ 109 (122)
+
T Consensus 152 ~ 152 (153)
T PF06974_consen 152 E 152 (153)
T ss_pred c
Confidence 5
No 7
>TIGR02946 acyl_WS_DGAT acyltransferase, WS/DGAT/MGAT. This bacteria-specific protein family includes a characterized, homodimeric, broad specificity acyltransferase from Acinetobacter sp. strain ADP1, active as wax ester synthase, as acyl coenzyme A:diacylglycerol acyltransferase, and as acyl-CoA:monoacylglycerol acyltransferase.
Probab=81.31 E-value=11 Score=30.49 Aligned_cols=67 Identities=16% Similarity=0.287 Sum_probs=45.4
Q ss_pred ceEeecCCCCCCc----------CccccCCc-cCCceeEEeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHH
Q psy4825 42 FKLSTSQVACKSD----------SFMGYGPV-VPDGYGCSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGN 109 (122)
Q Consensus 42 ~~LSTS~~~~~~~----------~~~gfgp~-~~dGyGi~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ 109 (122)
..+..|+++.+.. ..+.+.|. .+.|.+|+-.-..+++.+++++-+.. -.+.++|.+++++++.+|.+
T Consensus 367 ~~~~~SNvpg~~~~~~~~g~~v~~~~~~~p~~~~~~l~~~~~sy~g~l~~~~~~d~~~-~~d~~~l~~~~~~~l~~l~~ 444 (446)
T TIGR02946 367 FNLVISNVPGPREPLYLAGAKLDELYPLSPLLDGQGLNITVTSYNGQLDFGLLADRDA-VPDPQELADALEAALEELEA 444 (446)
T ss_pred eeEEEeCCCCCCcccEecCeeEEEeeccccccCCCeEEEEEEecCCeEEEEEeechhh-CCCHHHHHHHHHHHHHHHHh
Confidence 3456677766542 11233443 34455565555689999999987543 34799999999999999965
No 8
>TIGR02681 phage_pRha phage regulatory protein, rha family. Members of this protein family are found in temperate phage and bacterial prophage regions. Members include the product of the rha gene of the lambdoid phage phi-80, a late operon gene. The presence of this gene interferes with infection of bacterial strains that lack integration host factor (IHF), which regulates the rha gene. It is suggested that pRha is a phage regulatory protein.
Probab=69.97 E-value=20 Score=23.98 Aligned_cols=43 Identities=12% Similarity=0.186 Sum_probs=36.5
Q ss_pred EEeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHHHhcC
Q psy4825 69 CSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNLVESR 114 (122)
Q Consensus 69 i~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll~~~ 114 (122)
-+|.+..|.+.+-|..+. ...+..|...+-+++.+|.+-|...
T Consensus 65 ~~Y~ltkdgf~lLvmg~t---g~ka~~fK~~yI~~Fn~ME~~l~~~ 107 (108)
T TIGR02681 65 PMFNLTEDGFTIVAMGYT---TPKAMKMKEKFIKEFNEMKEHLQKV 107 (108)
T ss_pred EEEEEcCCceEEEEecCC---hHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 589999998988888773 3578889999999999999988754
No 9
>PF13774 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3BW6_A 1H8M_A 3EGX_C 2NUP_C 3EGD_C 2NUT_C 3KYQ_A 1IFQ_B 2VX8_D ....
Probab=63.73 E-value=19 Score=22.24 Aligned_cols=42 Identities=19% Similarity=0.192 Sum_probs=27.4
Q ss_pred CCceeEEeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHH
Q psy4825 64 PDGYGCSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSA 106 (122)
Q Consensus 64 ~dGyGi~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~ 106 (122)
.++|=++|.+ +|.+.+.+.+-++.|.+-+-.|.+.|.+.+..
T Consensus 21 ~~~~~fh~~~-~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~ 62 (83)
T PF13774_consen 21 SGNYVFHYLV-EDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQ 62 (83)
T ss_dssp ETTEEEEEEE-ETTEEEEEEEETTS-HHHHHHHHHHHHHHHHH
T ss_pred ECCEEEEEEE-cCCeEEEEEEcCCCCcchHHHHHHHHHHHHHH
Confidence 4568889999 55566655556666666677777777665544
No 10
>PF13222 DUF4030: Protein of unknown function (DUF4030)
Probab=59.67 E-value=33 Score=24.26 Aligned_cols=46 Identities=11% Similarity=0.273 Sum_probs=34.8
Q ss_pred cCCceeEE-eeecCCe-EEEEEEecCCCCCccHHHHHHHHHHHHHHHH
Q psy4825 63 VPDGYGCS-YNPREAT-IVFCVSAFKSCLTTSAAKFATSLDESLSAIG 108 (122)
Q Consensus 63 ~~dGyGi~-Y~i~~d~-i~f~vss~~s~~~~~~~~f~~~L~~al~~~~ 108 (122)
--.|+||. |++..+. +.+.|-+.-+..+-.+.+|.+-+++-.+++.
T Consensus 70 ~Y~~~gI~~~n~k~~qp~~v~I~t~in~~d~~AKE~g~kiEkei~~~l 117 (142)
T PF13222_consen 70 GYKGFGIQQINVKSSQPVTVTIKTKINSSDPGAKEFGKKIEKEINEVL 117 (142)
T ss_pred CccccceeEeeecCCCcEEEEEeccccccccchHHHHHHHHHHHHHHH
Confidence 34689999 9998765 5788887555556678899999998766553
No 11
>PF15560 Imm8: Immunity protein 8
Probab=58.94 E-value=30 Score=24.16 Aligned_cols=36 Identities=22% Similarity=0.514 Sum_probs=31.5
Q ss_pred EEEEEEe--cCCCCCccHHHHHHHHHHHHHHHHHHHhc
Q psy4825 78 IVFCVSA--FKSCLTTSAAKFATSLDESLSAIGNLVES 113 (122)
Q Consensus 78 i~f~vss--~~s~~~~~~~~f~~~L~~al~~~~~ll~~ 113 (122)
..||+.. |.+++..++..|.-.++..+.++..|++.
T Consensus 78 ~~fcid~~~W~s~k~~dv~kFL~~~~~~li~lg~lI~~ 115 (133)
T PF15560_consen 78 VEFCIDRNYWTSEKLEDVNKFLLFIEDLLIQLGDLIKK 115 (133)
T ss_pred EEEEeccccccCCccccHHHHHHHHHHHHHHhHHHHHH
Confidence 4577776 88999899999999999999999999864
No 12
>KOG3438|consensus
Probab=40.49 E-value=67 Score=21.59 Aligned_cols=43 Identities=19% Similarity=0.250 Sum_probs=25.0
Q ss_pred cCCceeEEeee-c--CCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHHH
Q psy4825 63 VPDGYGCSYNP-R--EATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNLV 111 (122)
Q Consensus 63 ~~dGyGi~Y~i-~--~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll 111 (122)
.|+-=-++|.| + ++.+.|.|-+..+. +-.+ .|.++|.++.+++
T Consensus 40 ~peVefcGYtIPHPse~k~niRIQt~~~~--~A~e----vl~kgl~el~~~c 85 (105)
T KOG3438|consen 40 NPEVEFCGYTIPHPSEDKINIRIQTRDGD--PAVE----VLKKGLEELMQLC 85 (105)
T ss_pred CCceEEEeccCCCCchhhheEEEEecCCC--cchH----HHHHHHHHHHHHH
Confidence 34445677876 3 57899999988543 2233 4444444444444
No 13
>PRK12729 fliE flagellar hook-basal body protein FliE; Provisional
Probab=36.40 E-value=46 Score=23.20 Aligned_cols=26 Identities=15% Similarity=0.312 Sum_probs=20.4
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHhcC
Q psy4825 89 LTTSAAKFATSLDESLSAIGNLVESR 114 (122)
Q Consensus 89 ~~~~~~~f~~~L~~al~~~~~ll~~~ 114 (122)
+.....-|.+.|..|++++-+.-..+
T Consensus 51 ~~~~~~sF~d~Lk~Al~~VN~~Q~~A 76 (127)
T PRK12729 51 PDYVAESFSEAMKNALTSVNDLQVEA 76 (127)
T ss_pred CCcccCCHHHHHHHHHHHHHHHHHHH
Confidence 34566779999999999998776544
No 14
>cd01207 Ena-Vasp Enabled-VASP-type homology (EVH1) domain. Enabled-VASP-type homology (EVH1) domain. The EVH1 domain binds to other proteins at proline rich sequences. It is found in proteins involved in cytoskeletal reorganization such as Enabled and VASP. Ena-VASP type EVH1 domains specifically recognize FPPPP motifs in the focal adhesion proteins zyxin and vinculin, and the ActA surface protein of Listeria monocytogenes. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=36.22 E-value=42 Score=22.73 Aligned_cols=18 Identities=22% Similarity=0.396 Sum_probs=16.4
Q ss_pred CccHHHHHHHHHHHHHHH
Q psy4825 90 TTSAAKFATSLDESLSAI 107 (122)
Q Consensus 90 ~~~~~~f~~~L~~al~~~ 107 (122)
+.++.+|...+++||++|
T Consensus 93 e~eA~~F~~~v~~Al~~L 110 (111)
T cd01207 93 KEDATMFASAMLSALEVL 110 (111)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 578999999999999987
No 15
>PRK12566 glycine dehydrogenase; Provisional
Probab=35.84 E-value=94 Score=28.68 Aligned_cols=42 Identities=17% Similarity=0.209 Sum_probs=34.7
Q ss_pred ecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHHHhcCcc
Q psy4825 73 PREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNLVESRKI 116 (122)
Q Consensus 73 i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll~~~~~ 116 (122)
+.++.+.++.|=.++ ..+..+|+++|.....++.++-+....
T Consensus 845 Pv~~~LmIepTE~es--keEIDrf~eAL~~I~~e~~~v~~g~~~ 886 (954)
T PRK12566 845 PVPGTLMVEPTESES--KAELDRFVEAMLSIRAEIGKVQEGNWP 886 (954)
T ss_pred ccCCEEEEEeeeeCC--HHHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 457889999988765 579999999999999999998765543
No 16
>PF05137 PilN: Fimbrial assembly protein (PilN); InterPro: IPR007813 PilN is a plasmid-encoded, lipoprotein which locates to the outer membrane of bacteria and are part of a thin pilus required only for liquid mating [].
Probab=35.47 E-value=98 Score=18.34 Aligned_cols=38 Identities=24% Similarity=0.242 Sum_probs=26.8
Q ss_pred ccCCceeE-EeeecCCeEEEEEEecCCCCCccHHHHHHHHHH
Q psy4825 62 VVPDGYGC-SYNPREATIVFCVSAFKSCLTTSAAKFATSLDE 102 (122)
Q Consensus 62 ~~~dGyGi-~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~ 102 (122)
..|+|.|+ .+.+.++.+.+.-.+.. ..++..|.+.|++
T Consensus 9 ~~P~~v~l~~l~~~~~~l~i~G~a~~---~~~v~~f~~~L~~ 47 (78)
T PF05137_consen 9 ALPEGVWLTSLSINGNTLSISGYADS---YQSVAAFLRNLEQ 47 (78)
T ss_pred hCCCCEEEEEEEEeCCEEEEEEEECC---HHHHHHHHHHHhh
Confidence 46788886 56677887777766653 4577778888765
No 17
>PF01193 RNA_pol_L: RNA polymerase Rpb3/Rpb11 dimerisation domain; InterPro: IPR011261 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. RNA polymerase (RNAP) II, which is responsible for all mRNA synthesis in eukaryotes, consists of 12 subunits. Subunits Rpb3 and Rpb11 form a heterodimer that is functionally analogous to the archaeal RNAP D/L heterodimer, and to the prokaryotic RNAP alpha subunit (RpoA) homodimer. In each case, they play a key role in RNAP assembly by forming a platform on which the catalytic subunits (eukaryotic Rpb1/Rpb2, and prokaryotic beta/beta') can interact []. These different subunits share regions of homology required for dimerisation. In eukaryotic Rpb11 and archaeal L subunits, the dimerisation domain consists of a contiguous Rpb11-like domain, whereas in eukaryotic Rpb3, archaeal D and bacterial RpoA subunits (IPR011263 from INTERPRO), the dimerisation domain consists of the Rpb11-like domain interrupted by an insert domain. In the prokaryotic alpha subunit, this dimerisation domain is the N-terminal domain [].; GO: 0003899 DNA-directed RNA polymerase activity, 0046983 protein dimerization activity, 0006351 transcription, DNA-dependent; PDB: 1HQM_B 1YNJ_A 1YNN_A 1I6V_A 2GHO_A 3HKZ_V 2PMZ_X 2PA8_L 3GTK_C 1TWH_C ....
Probab=34.10 E-value=1e+02 Score=18.21 Aligned_cols=40 Identities=18% Similarity=0.228 Sum_probs=27.6
Q ss_pred ceeEEeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHHH
Q psy4825 66 GYGCSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNLV 111 (122)
Q Consensus 66 GyGi~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll 111 (122)
|+-|.+...++.+.|.|-+..+. + =.+.|.+|+..+++.+
T Consensus 26 ~~ai~~~~~~~~~~~~IeT~g~~---~---p~~~l~~A~~~l~~~~ 65 (66)
T PF01193_consen 26 GVAIDGHPNEDKFVFRIETDGSL---T---PKEALLKAIKILKEKL 65 (66)
T ss_dssp EEEEEESSEEEEEEEEEEEBSSS-------HHHHHHHHHHHHHHHH
T ss_pred CceEEecCCCCEEEEEEEECCCC---C---HHHHHHHHHHHHHHhc
Confidence 45555566778899999988542 2 2357888888887765
No 18
>PF01797 Y1_Tnp: Transposase IS200 like; InterPro: IPR002686 Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This entry represents a domain found in transposases for IS200 from Escherichia coli []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2F5G_B 2F4F_B 2EC2_F 2XM3_C 2XQC_D 2XO6_A 2XMA_E 2VJV_B 2VIH_B 2VJU_A ....
Probab=33.38 E-value=1.3e+02 Score=19.29 Aligned_cols=35 Identities=20% Similarity=0.147 Sum_probs=25.3
Q ss_pred EEeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHH
Q psy4825 69 CSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSA 106 (122)
Q Consensus 69 i~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~ 106 (122)
+.|.+.+|.+.+.|+... ..+..+|.+.+......
T Consensus 43 ~~~~vm~nHvHllv~~~~---~~~is~~~~~lK~~~s~ 77 (121)
T PF01797_consen 43 IAFVVMPNHVHLLVSIPP---KQSISKFMQRLKGRSSR 77 (121)
T ss_dssp EEEEEETTEEEEEEEE-T---TS-HHHHHHHHHHHHHH
T ss_pred eeecccCcccceeeeecc---cccchheeecccccccc
Confidence 578899999999999873 45778888777765443
No 19
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=32.16 E-value=83 Score=21.35 Aligned_cols=33 Identities=15% Similarity=0.160 Sum_probs=25.1
Q ss_pred ecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHH
Q psy4825 73 PREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNL 110 (122)
Q Consensus 73 i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~l 110 (122)
|.+++|.+.-.+- .+.++|.+.+++-..+|++|
T Consensus 91 i~~eRv~~~~~~~-----~~~~~fa~~~~~f~~~i~~l 123 (124)
T PF02662_consen 91 IEPERVRLYWISA-----PEGKRFAEIVNEFTERIKEL 123 (124)
T ss_pred CChhHeEEEEeCc-----ccHHHHHHHHHHHHHHHHHc
Confidence 5678888755443 58899999999888888764
No 20
>PF09669 Phage_pRha: Phage regulatory protein Rha (Phage_pRha); InterPro: IPR019104 This entry represents a family of proteins which are encoded in temperate phages and bacterial prophage regions. They include the product of the late operon rha gene from lambdoid phage phi-80. The presence of this gene interferes with the infection of bacterial strains lacking the integration host factor that regulates the rha gene. Rha is thought to function as a phage regulatory protein.
Probab=31.31 E-value=66 Score=20.49 Aligned_cols=39 Identities=13% Similarity=0.187 Sum_probs=32.8
Q ss_pred EEeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHH
Q psy4825 69 CSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNL 110 (122)
Q Consensus 69 i~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~l 110 (122)
=+|.+..+...+-++.+. ...+.+|...+-+++.+|.+-
T Consensus 54 ~~y~Ltk~g~~lL~~~~~---g~~a~~~k~~~I~~f~~me~~ 92 (93)
T PF09669_consen 54 PCYLLTKDGFTLLVMGYS---GKKAVEFKAAYIERFNEMEEE 92 (93)
T ss_pred EEEEEccChhheehhhhc---cchHHHHHHHHHHHHHHHHhc
Confidence 488899999999999885 247789999999999999864
No 21
>cd00460 RNAP_RPB11_RPB3 RPB11 and RPB3 subunits of RNA polymerase. The eukaryotic RPB11 and RPB3 subunits of RNA polymerase (RNAP), as well as their archaeal (L and D subunits) and bacterial (alpha subunit) counterparts, are involved in the assembly of RNAP, a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III, for the synthesis of ribosomal RNA precursor, mRNA precursor, and 5S and tRNA, respectively. A single distinct RNAP complex is found in prokaryotes and archaea, which may be responsible for the synthesis of all RNAs. The assembly of the two largest eukaryotic RNAP subunits that provide most of the enzyme's catalytic functions depends on the presence of RPB3/RPB11 heterodimer subunits. This is also true for the
Probab=31.12 E-value=1.4e+02 Score=18.79 Aligned_cols=32 Identities=13% Similarity=0.270 Sum_probs=22.4
Q ss_pred CCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHHHh
Q psy4825 75 EATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNLVE 112 (122)
Q Consensus 75 ~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll~ 112 (122)
.|.+.|.|.+..+ -++ .++|.+|+..|.+.++
T Consensus 53 ~d~~~~~VeT~Gs---~~P---~~al~~Ai~~L~~~~~ 84 (86)
T cd00460 53 EDKFILRIETVGS---IPP---EEALRRAVEILRKKLE 84 (86)
T ss_pred CCeEEEEEEECCC---CCH---HHHHHHHHHHHHHHHh
Confidence 5689999998743 233 3577888888877664
No 22
>PF09564 RE_NgoBV: NgoBV restriction endonuclease; InterPro: IPR019064 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the restriction endonuclease NgoBV, which recognises the sequence GGNNCC, but whose cleavage site is unknown.
Probab=27.88 E-value=1.1e+02 Score=23.52 Aligned_cols=39 Identities=21% Similarity=0.298 Sum_probs=24.8
Q ss_pred eeEEeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHH
Q psy4825 67 YGCSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSA 106 (122)
Q Consensus 67 yGi~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~ 106 (122)
.|+.|+|+|.. -|.+.-.....-.+.++|..++..++..
T Consensus 163 r~~iyniRP~~-~f~~~k~~~~~Fes~edfI~Ai~et~~~ 201 (240)
T PF09564_consen 163 RGVIYNIRPGS-WFKTNKTNASVFESLEDFISAIYETVYQ 201 (240)
T ss_pred cceeEEecCCc-eeeecCCCchhhhhHHHHHHHHHHHHHh
Confidence 56789999885 3343322112235778888888888764
No 23
>PF11281 DUF3083: Protein of unknown function (DUF3083); InterPro: IPR021433 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=27.82 E-value=96 Score=24.80 Aligned_cols=74 Identities=12% Similarity=0.140 Sum_probs=51.7
Q ss_pred CCCCCCcCccccCCccCCceeEEeeec--CCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHHHhcCccchhcc
Q psy4825 48 QVACKSDSFMGYGPVVPDGYGCSYNPR--EATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNLVESRKISTENR 121 (122)
Q Consensus 48 ~~~~~~~~~~gfgp~~~dGyGi~Y~i~--~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll~~~~~~~~~~ 121 (122)
++.+.--..+-|-|-..++-.+.|.-. ...|.+..-+-...-..+++.|...+++.|.++...|...++.-+.|
T Consensus 41 ~~~T~eQilFFYNP~yHea~~~~~~~~~~ArKIrilFLATG~diR~NsA~FH~kV~~~l~~l~~~l~~~~~~iKiR 116 (316)
T PF11281_consen 41 CLQTAEQILFFYNPEYHEAQKLFSDGDYRARKIRILFLATGDDIRANSAKFHQKVQKVLNDLQPQLPIKQLEIKIR 116 (316)
T ss_pred eeccccEEEEEeCcchhhhhhccccCcceeeeEEEEEEccCchhhhhHHHHHHHHHHHHHHHHHhcCCCCCCceec
Confidence 344434455667888888888777643 55677655554333356899999999999999999987776655544
No 24
>PF10590 PNPOx_C: Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; InterPro: IPR019576 Pyridoxamine 5'-phosphate oxidase (1.4.3.5 from EC) is an enzyme that is involved in the de novo synthesis of pyridoxine (vitamin B6) and pyridoxal phosphate. It oxidizes pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P. The enzyme requires the presence of flavin mononucleotide (FMN) as a cofactor, although there is some evidence that coenzyme F420 may perform this role in some species []. The sequences of the enzyme from bacterial (genes pdxH or fprA) [] and fungal (gene PDX3) [] sources show that this protein has been highly conserved throughout evolution. PdxH is evolutionary related [] to one of the enzymes in the phenazine biosynthesis protein pathway, phzD (also known as phzG). This entry represents one of the two dimerisation regions of the protein, located at the edge of the dimer interface, at the C terminus, being the last three beta strands, S6, S7, and S8 along with the last three residues to the end. In P21159 from SWISSPROT, S6 runs from residues 178-192, S7 from 200-206 and S8 from 211-215. the extended loop, of residues 167-177 may well be involved in the pocket formed between the two dimers that positions the FMN molecule []. ; GO: 0016638 oxidoreductase activity, acting on the CH-NH2 group of donors, 0055114 oxidation-reduction process; PDB: 1WV4_B 1DNL_A 1G76_A 1G79_A 1G77_A 1JNW_A 1G78_A 1TY9_A 1CI0_A 1NRG_A ....
Probab=26.39 E-value=61 Score=17.98 Aligned_cols=15 Identities=20% Similarity=0.095 Sum_probs=11.6
Q ss_pred eEEeeecCCeEEEEE
Q psy4825 68 GCSYNPREATIVFCV 82 (122)
Q Consensus 68 Gi~Y~i~~d~i~f~v 82 (122)
+-+|.|.|+.|.|=-
T Consensus 1 WgGy~l~P~~iEFWq 15 (42)
T PF10590_consen 1 WGGYRLVPEEIEFWQ 15 (42)
T ss_dssp EEEEEEEECEEEEEE
T ss_pred CCeEEEEcCEEEEeC
Confidence 457899999888844
No 25
>PF13230 GATase_4: Glutamine amidotransferases class-II; PDB: 3MDN_D.
Probab=26.16 E-value=94 Score=23.97 Aligned_cols=24 Identities=25% Similarity=0.364 Sum_probs=10.1
Q ss_pred cCCccCCceeEEeeecCCeEEEEEE
Q psy4825 59 YGPVVPDGYGCSYNPREATIVFCVS 83 (122)
Q Consensus 59 fgp~~~dGyGi~Y~i~~d~i~f~vs 83 (122)
-.+.++||+||+|.-.+. +.+.-.
T Consensus 28 ~~~~h~DGwGiawy~~~~-~~~~k~ 51 (271)
T PF13230_consen 28 KTPPHPDGWGIAWYDGGG-PRVFKS 51 (271)
T ss_dssp --------EEEEEESSSS--EEEEE
T ss_pred CcCCCCCeeEEEEEeCCe-EEEEEC
Confidence 346799999999988544 444333
No 26
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=25.90 E-value=44 Score=22.21 Aligned_cols=45 Identities=11% Similarity=0.177 Sum_probs=25.5
Q ss_pred eeEEeeecCCeEEEEEEecCC-CCCccHHHHHHHHHHHHHHHHHHHhc
Q psy4825 67 YGCSYNPREATIVFCVSAFKS-CLTTSAAKFATSLDESLSAIGNLVES 113 (122)
Q Consensus 67 yGi~Y~i~~d~i~f~vss~~s-~~~~~~~~f~~~L~~al~~~~~ll~~ 113 (122)
+|-.|.+.+.. ..+...+. ..+...+||.++|+.+..++..+.+.
T Consensus 12 ~G~~~~~~~~~--~~~~~~~~~~~~~E~~rl~~Al~~~~~eL~~l~~~ 57 (123)
T PF05524_consen 12 IGPAFVLRPPE--PEIPERHIDDIEAEIERLEQALEKAREELEQLAER 57 (123)
T ss_dssp EEEEEE-----------TTB-SHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEEEEEEeccc--CcccccccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344455443 33333322 23567899999999999999999876
No 27
>TIGR01821 5aminolev_synth 5-aminolevulinic acid synthase. This model represents 5-aminolevulinic acid synthase, an enzyme for one of two routes to the heme precursor 5-aminolevulinate. The protein is a pyridoxal phosphate-dependent enzyme related to 2-amino-3-ketobutyrate CoA tranferase and 8-amino-7-oxononanoate synthase. This enzyme appears restricted to the alpha Proteobacteria and mitochondrial derivatives.
Probab=24.60 E-value=1.1e+02 Score=24.25 Aligned_cols=30 Identities=3% Similarity=0.006 Sum_probs=23.8
Q ss_pred CeEEEEEEecCCCCCccHHHHHHHHHHHHHHH
Q psy4825 76 ATIVFCVSAFKSCLTTSAAKFATSLDESLSAI 107 (122)
Q Consensus 76 d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~ 107 (122)
+.|+++++...+ ..+.+++.+.|.+++.++
T Consensus 368 ~~lRis~~~~~t--~edi~~~~~~l~~~~~~~ 397 (402)
T TIGR01821 368 ERLRITPTPAHT--DKMIDDLVEALLLVWDRL 397 (402)
T ss_pred ceEEEEeCCCCC--HHHHHHHHHHHHHHHHHc
Confidence 679999988764 578899999998887654
No 28
>PRK10449 heat-inducible protein; Provisional
Probab=24.22 E-value=1.5e+02 Score=20.50 Aligned_cols=27 Identities=4% Similarity=0.078 Sum_probs=21.6
Q ss_pred CceeEEeeecCCeEEEE--EEecCCCCCc
Q psy4825 65 DGYGCSYNPREATIVFC--VSAFKSCLTT 91 (122)
Q Consensus 65 dGyGi~Y~i~~d~i~f~--vss~~s~~~~ 91 (122)
+.|.=.|.+.++.|.|. .+++.-|++.
T Consensus 68 N~~~G~y~~~~~~l~~~~lasTrmaC~~~ 96 (140)
T PRK10449 68 NRFSGEGKLSDGELTVKGLAMTRMMCADP 96 (140)
T ss_pred cceeeeEEEcCCEEEEcchhhhcccCCCH
Confidence 45777899999999996 7778888753
No 29
>PF00659 POLO_box: POLO box duplicated region; InterPro: IPR000959 A subgroup of serine/threonine protein kinases, Polo or Polo-like kinases play multiple roles during the cell cycle. Polo kinases are required at several key points through mitosis, starting from control of the G2/M transition through phosphorylation of Cdc25C and mitotic cyclins. Polo kinases are characterised by an amino terminal catalytic domain, and a carboxy terminal non-catalytic domain consisting of three blocks of conserved sequences known as polo boxes which form one single functional domain []. The domain is named after its founding member encoded by the polo gene of Drosophila melanogaster []. This domain of around 70 amino acids has been found in species ranging from yeast to mammals. Polo boxes appear to mediate interaction with multiple proteins through protein:protein interactions; some but not all of these proteins are substrates for the kinase domain of the molecule []. The crystal structure of the polo domain of the murine protein, Sak, is dimeric, consisting of two alpha-helices and two six-stranded beta-sheets []. The topology of one polypeptide subunit of the dimer consists of, from its N- to C terminus, an extended strand segment, five beta-strands, one alpha-helix (A) and a C-terminal beta-strand. Beta-strands from one subunit form a contiguous antiparallel beta-sheet with beta-strands from the second subunit. The two beta-sheets pack with a crossing angle of 110 degrees, orienting the hydrophobic surfaces inward and the hydrophilic surfaces outward. Helix A, which is colinear with beta-strand 6 of the same polypeptide, buries a large portion of the non-overlapping hydrophobic beta-sheet surfaces. Interactions involving helices A comprise a majority of the hydrophobic core structure and also the dimer interface. Point mutations in the Polo box of the budding yeast Cdc5 protein abolish the ability of overexpressed Cdc5 to interact with the spindle poles and to organise cytokinetic structures [].; GO: 0005515 protein binding; PDB: 1MBY_B 3P37_A 3MHN_A 1Q4K_A 3HIK_A 3Q1I_A 3P35_A 3MHQ_A 1UMW_B 3MQ8_B ....
Probab=24.10 E-value=92 Score=18.45 Aligned_cols=16 Identities=25% Similarity=0.468 Sum_probs=10.6
Q ss_pred ceeEEeeecCCeEEEE
Q psy4825 66 GYGCSYNPREATIVFC 81 (122)
Q Consensus 66 GyGi~Y~i~~d~i~f~ 81 (122)
-|||+|.+.+..+.|.
T Consensus 4 k~gi~~~LSng~vqv~ 19 (68)
T PF00659_consen 4 KYGIGYQLSNGTVQVN 19 (68)
T ss_dssp CSEEEEEETTSEEEEE
T ss_pred ceEEEEEEeCCCEEEE
Confidence 4677777777666554
No 30
>COG0121 Predicted glutamine amidotransferase [General function prediction only]
Probab=23.25 E-value=81 Score=24.31 Aligned_cols=20 Identities=20% Similarity=0.260 Sum_probs=15.8
Q ss_pred ccccCCccCCceeEEeeecC
Q psy4825 56 FMGYGPVVPDGYGCSYNPRE 75 (122)
Q Consensus 56 ~~gfgp~~~dGyGi~Y~i~~ 75 (122)
..+.+..++||+||++.-..
T Consensus 25 ~~~~~~~h~DGwGia~y~~~ 44 (252)
T COG0121 25 RAGGTGQHGDGWGIAFYEGR 44 (252)
T ss_pred hccCCCCCCCcceEEEEcCC
Confidence 34455889999999988777
No 31
>PF06117 DUF957: Enterobacterial protein of unknown function (DUF957); InterPro: IPR009301 This family consists of several hypothetical proteins from Escherichia coli, Salmonella typhi, Shigella flexneri and Proteus vulgaris. The function of this family is unknown.
Probab=22.08 E-value=1.9e+02 Score=17.78 Aligned_cols=25 Identities=12% Similarity=0.243 Sum_probs=21.3
Q ss_pred CccHHHHHHHHHHHHHHHHHHHhcC
Q psy4825 90 TTSAAKFATSLDESLSAIGNLVESR 114 (122)
Q Consensus 90 ~~~~~~f~~~L~~al~~~~~ll~~~ 114 (122)
.++++....++++|+.+++.+-...
T Consensus 35 ~tdSa~llp~ie~a~~~~r~l~~l~ 59 (65)
T PF06117_consen 35 KTDSAALLPAIEQARADVRPLRHLQ 59 (65)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999999876543
No 32
>PHA02668 GM-CSF/IL-2 inhibition factor; Provisional
Probab=21.24 E-value=95 Score=23.97 Aligned_cols=48 Identities=15% Similarity=0.392 Sum_probs=32.5
Q ss_pred ccchhhhhcCCceEeecCCCCCCcCccccCCccCCceeEEeeecCCeEEEEEEecC
Q psy4825 31 FQDEAYKLSNYFKLSTSQVACKSDSFMGYGPVVPDGYGCSYNPREATIVFCVSAFK 86 (122)
Q Consensus 31 F~d~~~~~~~~~~LSTS~~~~~~~~~~gfgp~~~dGyGi~Y~i~~d~i~f~vss~~ 86 (122)
|.+-+|........|-+.++. ||-|+.- .|++|+..+..+-+.+++|.
T Consensus 70 ~D~~a~~~AaGINVSVali~~------gvip~sy--igv~fnp~~~ymyVnvsSw~ 117 (265)
T PHA02668 70 FDADVYVAAAGINVSVSAINC------GFFDMRQ--VEVTYDTARRQMYVYLDTWD 117 (265)
T ss_pred chhhheeeccceEEEEEEeec------ceeeeee--EeeeecCCcceEEEEecccC
Confidence 445556556666666554433 4544433 78999998888999999985
No 33
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=20.87 E-value=1e+02 Score=20.95 Aligned_cols=29 Identities=17% Similarity=0.229 Sum_probs=24.3
Q ss_pred cCCchhHHHHHHHHHHHhCCCCc-ccccch
Q psy4825 6 QGEGIDLHLLGLRQTALEHNIPC-ELFQDE 34 (122)
Q Consensus 6 ~G~G~DRHL~aL~~~a~~~~~~~-~lF~d~ 34 (122)
.|.+++++.-.|+..|.+.|.++ .+|.|.
T Consensus 16 ~~~sle~Q~~~l~~~a~~~g~~i~~~~~D~ 45 (140)
T cd03770 16 ESNSIENQKAILEEYAKENGLENIRHYIDD 45 (140)
T ss_pred ccCCHHHHHHHHHHHHHHCCCEEEEEEEcC
Confidence 35689999999999888889887 788875
No 34
>PLN02414 glycine dehydrogenase (decarboxylating)
Probab=20.59 E-value=2.5e+02 Score=26.13 Aligned_cols=40 Identities=15% Similarity=0.249 Sum_probs=32.4
Q ss_pred ecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHHHhcC
Q psy4825 73 PREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNLVESR 114 (122)
Q Consensus 73 i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll~~~ 114 (122)
+.++.+.++.|=.++ ..+..+|+++|.....+++++-+..
T Consensus 876 pv~~~lmiepTE~~s--keelDrf~~al~~i~~e~~~~~~g~ 915 (993)
T PLN02414 876 PVPGTLMIEPTESES--KAELDRFCDALISIREEIADIENGK 915 (993)
T ss_pred ccCCEEEEEeeeeCC--HHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 347789998887765 5789999999999999999865443
No 35
>PF10438 Cyc-maltodext_C: Cyclo-malto-dextrinase C-terminal domain; InterPro: IPR019492 This domain is at the very C terminus of cyclo-malto-dextrinase proteins and consists of 8 beta strands, is largely globular and appears to help stabilise the active sites created by upstream domains, IPR015171 from INTERPRO, and IPR006047 from INTERPRO. Cyclo-malto-dextrinases hydrolyse cyclodextrans to maltose and glucose and catalyse trans-glycosylation of oligosaccharides to the C3-, C4- or C6-hydroxyl groups of various acceptor sugar molecules. ; PDB: 3EDK_B 3EDD_A 3EDJ_B 3EDE_A 1H3G_B 3EDF_B.
Probab=20.51 E-value=1.6e+02 Score=18.49 Aligned_cols=41 Identities=15% Similarity=0.241 Sum_probs=26.4
Q ss_pred cCCccCCceeEEeeecCCeEEEEEEecCCCCC-ccHHHHHHHHH
Q psy4825 59 YGPVVPDGYGCSYNPREATIVFCVSAFKSCLT-TSAAKFATSLD 101 (122)
Q Consensus 59 fgp~~~dGyGi~Y~i~~d~i~f~vss~~s~~~-~~~~~f~~~L~ 101 (122)
|.| .||.=+-....++.-...|-...+.+. -+..||.+.|.
T Consensus 5 f~P--~~gvYvYfR~~~~~tVmVilN~n~~~~~ldl~ry~E~l~ 46 (78)
T PF10438_consen 5 FAP--QDGVYVYFRYYDGKTVMVILNKNDKEQTLDLKRYAEVLG 46 (78)
T ss_dssp -----BTTEEEEEEEESSEEEEEEEE-SSS-EEEEGGGGHHHHT
T ss_pred ECc--cCCEEEEEEEcCCCEEEEEEcCCCCCeEEcHHHHHHhhC
Confidence 556 678878788887776666666655543 37889988775
No 36
>PRK15265 subtilase cytotoxin subunit B-like protein; Provisional
Probab=20.42 E-value=1.3e+02 Score=21.18 Aligned_cols=54 Identities=7% Similarity=0.031 Sum_probs=31.8
Q ss_pred cCCchhHHHHHHHHHHHhCCCCc------ccccchhhhh--cCCceEeecCCCCCCcCccccCCcc
Q psy4825 6 QGEGIDLHLLGLRQTALEHNIPC------ELFQDEAYKL--SNYFKLSTSQVACKSDSFMGYGPVV 63 (122)
Q Consensus 6 ~G~G~DRHL~aL~~~a~~~~~~~------~lF~d~~~~~--~~~~~LSTS~~~~~~~~~~gfgp~~ 63 (122)
-++|||-||---+.-- -.|.++ .+.+||.|.+ +++-.+.-|.+++. ..+|||..
T Consensus 72 w~~sF~~~~~qA~yyY-tTg~~vRiy~~~nVWTdp~F~~~fS~neLvgissC~s~---~~C~GP~~ 133 (134)
T PRK15265 72 WGASYNTLYDQAMYYY-TTGKRIRVYYAPDVWTNNSFVRALTANALVGFSTCISE---SSCFGPDR 133 (134)
T ss_pred hhhhHHHHHHHhhhee-ecCCcEEEEEcCCcccCcHHHhhhcccceeEeeccccC---ceecCCCC
Confidence 3567777765444322 234442 6788998866 34555665556543 45788853
No 37
>cd01220 PH_CDEP Chondrocyte-derived ezrin-like domain containing protein (CDEP) Pleckstrin homology (PH) domain. Chondrocyte-derived ezrin-like domain containing protein (CDEP) Pleckstrin homology (PH) domain. CDEP consists of a Ferm domain, a rhoGEF (DH) domain followed by two PH domains. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=20.41 E-value=1.7e+02 Score=18.94 Aligned_cols=34 Identities=12% Similarity=0.190 Sum_probs=24.0
Q ss_pred EeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHH
Q psy4825 70 SYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSA 106 (122)
Q Consensus 70 ~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~ 106 (122)
++.|....-.|.+++. ..++-+++.++|++|.+|
T Consensus 66 ~F~I~~~~ks~~l~A~---s~~Ek~~Wi~~i~~aI~~ 99 (99)
T cd01220 66 CFTIFGGQCAITVAAS---TRAEKEKWLADLSKAIAD 99 (99)
T ss_pred eEEEEcCCeEEEEECC---CHHHHHHHHHHHHHHhhC
Confidence 4555555566777765 256888899999998864
No 38
>PRK14012 cysteine desulfurase; Provisional
Probab=20.36 E-value=1.1e+02 Score=24.27 Aligned_cols=42 Identities=14% Similarity=0.235 Sum_probs=31.8
Q ss_pred eeEEeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHH
Q psy4825 67 YGCSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNL 110 (122)
Q Consensus 67 yGi~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~l 110 (122)
+|+.+.+.+..|++++..+.+ +.+.+++.+.|.+.+.+++.+
T Consensus 342 ~~~~~~~~~~~iRls~~~~~t--~~dvd~~~~~l~~~~~~~~~~ 383 (404)
T PRK14012 342 LGLNDELAHSSIRFSLGRFTT--EEEIDYAIELVRKSIGKLREL 383 (404)
T ss_pred cCCChhhcCceEEEEecCCCC--HHHHHHHHHHHHHHHHHHHhh
Confidence 555555667788888887753 678999999999988887653
No 39
>PF07687 M20_dimer: Peptidase dimerisation domain This family only corresponds to M20 family; InterPro: IPR011650 This domain consists of 4 beta strands and two alpha helices which make up the dimerisation surface of members of the MEROPS peptidase family M20 []. This family includes a range of zinc exopeptidases: carboxypeptidases, dipeptidases and specialised aminopeptidases [].; GO: 0016787 hydrolase activity; PDB: 3GB0_A 2F7V_A 1R3N_C 2VL1_D 2V8V_C 1R43_B 2V8G_B 2V8H_D 2V8D_A 3PFE_A ....
Probab=20.31 E-value=2e+02 Score=17.88 Aligned_cols=38 Identities=8% Similarity=0.061 Sum_probs=26.7
Q ss_pred EeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHH
Q psy4825 70 SYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIG 108 (122)
Q Consensus 70 ~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~ 108 (122)
.-++-++...+.+..+-. |..+.++..+.+++.+.++.
T Consensus 71 ~~n~ip~~a~~~~~~R~~-p~~~~~~i~~~i~~~~~~~~ 108 (111)
T PF07687_consen 71 APNVIPDEATLTVDIRYP-PGEDLEEIKAEIEAAVEKIA 108 (111)
T ss_dssp STTEESSEEEEEEEEEES-TCHHHHHHHHHHHHHHHHHH
T ss_pred cCCEECCEEEEEEEEECC-CcchHHHHHHHHHHHHHHhh
Confidence 455667888877776633 46678888888887777654
No 40
>PF07660 STN: Secretin and TonB N terminus short domain; InterPro: IPR011662 This is a conserved region found at the N-terminal region of bacterial proteins involved in either protein secretion or the uptake of selective substrates, including: Bundle-forming pilus protein B, an outer-membrane protein absolutely required for pilus biogenesis, and for enteropathogenic Escherichia coli localized adherence and autoaggregation []. PilQ, which is required for type IV pilus biogenesis and competence and is thought to function both as a pore for exit of the pilus and as a channel for entry of haem and antimicrobial agents and uptake of transforming DNA []. PupB, a specific receptor for the siderophores ferric pseudobactin BN8 and ferric pseudobactin BN7, iron chelating molecules that allow the organism to extract iron from the environment, especially under iron-restricted conditions []. TonB, which couples the electrochemical potential of the cytoplasmic membrane to the active transport of iron-siderophores and vitamin B12 across the outer membrane []. ; GO: 0019867 outer membrane; PDB: 2D1U_A 1ZZV_A 2W75_B 2O5P_A 2W77_A 2W16_A 2W6U_B 2W6T_A 2W76_B 2W78_B ....
Probab=20.22 E-value=1.1e+02 Score=16.75 Aligned_cols=18 Identities=33% Similarity=0.499 Sum_probs=14.0
Q ss_pred cCCceeEEeeecCCeEEE
Q psy4825 63 VPDGYGCSYNPREATIVF 80 (122)
Q Consensus 63 ~~dGyGi~Y~i~~d~i~f 80 (122)
.-.|.|+.|.+.++.|.+
T Consensus 32 ll~~t~l~y~~~~~~i~I 49 (52)
T PF07660_consen 32 LLKGTGLTYKISGNTIVI 49 (52)
T ss_dssp HTTTSTEEEEEETTEEEE
T ss_pred HHccCCcEEEEECCEEEE
Confidence 346899999998887754
No 41
>PRK10118 flagellar hook-length control protein; Provisional
Probab=20.17 E-value=3.8e+02 Score=22.30 Aligned_cols=43 Identities=9% Similarity=0.126 Sum_probs=34.2
Q ss_pred eeEEeeecCCeEEEEEEecCCCCCccHHHHHHHHHHHHHHHHHHHhcCcc
Q psy4825 67 YGCSYNPREATIVFCVSAFKSCLTTSAAKFATSLDESLSAIGNLVESRKI 116 (122)
Q Consensus 67 yGi~Y~i~~d~i~f~vss~~s~~~~~~~~f~~~L~~al~~~~~ll~~~~~ 116 (122)
.=|.-.+++|...+++.+.+ ..=+++|++++-.+|+.|.+.-+
T Consensus 304 LqI~L~v~~DQAqV~FvS~h-------~qVRdALE~amPrLRemLAeqGI 346 (408)
T PRK10118 304 VQISLKLDDNQAQLQMVSPH-------SHVRAALEAALPVLRTQLAESGI 346 (408)
T ss_pred eEEEEEEcCCeeEEEEecCC-------HHHHHHHHHHhHHHHHHHHHcCc
Confidence 45788888898888888764 34678999999999999977644
Done!