Query psy5717
Match_columns 351
No_of_seqs 3 out of 5
Neff 1.1
Searched_HMMs 46136
Date Sat Aug 17 00:49:07 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5717.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5717hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03460 NIR_SIR_ferr: Nitrite 31.9 68 0.0015 22.3 3.3 57 277-336 10-67 (69)
2 PF13445 zf-RING_UBOX: RING-ty 26.4 33 0.00072 23.9 0.9 29 271-305 7-35 (43)
3 PF09082 DUF1922: Domain of un 22.9 49 0.0011 26.0 1.4 29 225-254 7-36 (68)
4 PF15227 zf-C3HC4_4: zinc fing 19.1 52 0.0011 22.2 0.7 10 281-290 12-21 (42)
5 PF04833 COBRA: COBRA-like pro 18.7 1.2E+02 0.0027 27.1 3.1 54 196-267 31-88 (169)
6 PF01726 LexA_DNA_bind: LexA D 16.9 35 0.00076 25.2 -0.6 25 322-346 34-58 (65)
7 TIGR02174 CXXU_selWTH selT/sel 15.6 1.6E+02 0.0035 21.6 2.7 43 279-321 3-45 (72)
8 KOG3203|consensus 15.2 82 0.0018 28.5 1.2 25 182-206 24-53 (165)
9 COG0102 RplM Ribosomal protein 13.3 98 0.0021 27.2 1.1 24 184-207 18-46 (148)
10 KOG4442|consensus 13.0 96 0.0021 33.2 1.1 59 212-291 74-136 (729)
No 1
>PF03460 NIR_SIR_ferr: Nitrite/Sulfite reductase ferredoxin-like half domain; InterPro: IPR005117 Sulphite reductases (SiRs) and related nitrite reductases (NiRs) catalyse the six-electron reduction reactions of sulphite to sulphide, and nitrite to ammonia, respectively. The Escherichia coli SiR enzyme is a complex composed of two proteins, a flavoprotein alpha-component (SiR-FP) and a hemoprotein beta-component (SiR-HP), and has an alpha(8)beta(4) quaternary structure []. SiR-FP contains both FAD and FMN, while SiR-HP contains a Fe(4)S(4) cluster coupled to a sirohaem through a cysteine bridge. Electrons are transferred from NADPH to FAD, and on to FMN in SiR-FP, from which they are transferred to the metal centre of SiR-HP, where they reduce the siroheme-bound sulphite. SiR-HP has a two-fold symmetry, which generates a distinctive three-domain alpha/beta fold that controls assembly and reactivity []. This entry describes the ferrodoxin-like (alpha/beta sandwich) domain, which consists of a duplication containing two subdomains of this fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3B0H_A 4GEP_A 2GEP_A 2AOP_A 5AOP_A 6GEP_A 4AOP_A 1AOP_A 3AOP_A 8GEP_A ....
Probab=31.87 E-value=68 Score=22.29 Aligned_cols=57 Identities=25% Similarity=0.311 Sum_probs=34.1
Q ss_pred eeEEEEeecCccchhhhhhhhhhhhh-ccCCcceeeehhcccceeeeeeeeccccchHHHH
Q psy5717 277 MAVRLSVECGHTLRTEWRAESIDQQI-KGNDTELKFTERQRGKMECGFAISESNGLKNELK 336 (351)
Q Consensus 277 mavrlsvecghtlrtewraesidqqi-kgndtelkfterqrgkmecgfaisesnglknelk 336 (351)
.+|++.+.+|..--..|+ .|.+-. +-++..++||-+|. -+-.|.....-..+.++|+
T Consensus 10 ~~v~~~~~~G~i~~~~l~--~la~ia~~yg~~~irlT~~Q~-l~l~~v~~~~~~~i~~~L~ 67 (69)
T PF03460_consen 10 YMVRIRIPGGRISAEQLR--ALAEIAEKYGDGEIRLTTRQN-LQLRGVPEENLPAIFEELK 67 (69)
T ss_dssp EEEEEB-GGGEEEHHHHH--HHHHHHHHHSTSEEEEETTSC-EEEEEEEGGGHHHHHHHHH
T ss_pred EEEEEeCCCEEECHHHHH--HHHHHHHHhCCCeEEECCCCe-EEEeCCCHHHHHHHHHHHH
Confidence 589999999998444444 344444 34568999999996 3334444444334444443
No 2
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=26.39 E-value=33 Score=23.91 Aligned_cols=29 Identities=24% Similarity=0.511 Sum_probs=14.6
Q ss_pred cccccceeEEEEeecCccchhhhhhhhhhhhhccC
Q psy5717 271 FSRHQSMAVRLSVECGHTLRTEWRAESIDQQIKGN 305 (351)
Q Consensus 271 fsrhqsmavrlsvecghtlrtewraesidqqikgn 305 (351)
|+..+...+.|. |||++=.++ |++..+.+
T Consensus 7 ~~~~~n~P~~L~--CGH~~c~~c----l~~l~~~~ 35 (43)
T PF13445_consen 7 FSTEENPPMVLP--CGHVFCKDC----LQKLSKKS 35 (43)
T ss_dssp --TTSS-EEE-S--SS-EEEHHH----HHHHHHH-
T ss_pred ccCCCCCCEEEe--CccHHHHHH----HHHHHhcC
Confidence 555555577776 999997654 44444443
No 3
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=22.91 E-value=49 Score=26.01 Aligned_cols=29 Identities=31% Similarity=0.704 Sum_probs=19.1
Q ss_pred ccCcccc-ccceeEEEEeecCcccccCCCCC
Q psy5717 225 DCGRFSR-HQSMAVRLSVECGHTLRTDQRPS 254 (351)
Q Consensus 225 dcgrfsr-hqsmavrlsvecghtlrtdqrps 254 (351)
||||++- +++-+.+.- -||-||...+|+=
T Consensus 7 ~Cgr~lya~e~~kTkkC-~CG~~l~vk~~rI 36 (68)
T PF09082_consen 7 DCGRYLYAKEGAKTKKC-VCGKTLKVKERRI 36 (68)
T ss_dssp TTS--EEEETT-SEEEE-TTTEEEE--SSS-
T ss_pred cCCCEEEecCCcceeEe-cCCCeeeeeeEEE
Confidence 7999974 677788888 8999999988864
No 4
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=19.07 E-value=52 Score=22.24 Aligned_cols=10 Identities=40% Similarity=1.022 Sum_probs=7.0
Q ss_pred EEeecCccch
Q psy5717 281 LSVECGHTLR 290 (351)
Q Consensus 281 lsvecghtlr 290 (351)
++++|||++=
T Consensus 12 v~l~CGH~FC 21 (42)
T PF15227_consen 12 VSLPCGHSFC 21 (42)
T ss_dssp EE-SSSSEEE
T ss_pred cccCCcCHHH
Confidence 5679999863
No 5
>PF04833 COBRA: COBRA-like protein; InterPro: IPR006918 In Arabidopsis thaliana (Mouse-ear cress) members of the family are all extracellular glycosyl-phosphatidyl inositol-anchored proteins (GPI-linked) []. The type example of the family is COBRA (Q94KT8 from SWISSPROT) and the family is generally annotated as COBRA-like (COBL). COBRA is involved in determining the orientation of cell expansion, probably by playing an important role in cellulose deposition. It may act by recruiting cellulose synthesizing complexes to discrete positions on the cell surface. Some members of this family are annotated as phytochelatin synthase, but these annotations are incorrect [].
Probab=18.69 E-value=1.2e+02 Score=27.11 Aligned_cols=54 Identities=24% Similarity=0.446 Sum_probs=29.1
Q ss_pred hhhhccceeeeccCCCCCcccccccccCcccCccccccceeEEEEeecCccc-c---cCCCCCccccccccccCcc
Q psy5717 196 DIITKTKAVYTHSQRPSTDEVNLCCRDSVDCGRFSRHQSMAVRLSVECGHTL-R---TDQRPSMDEVNLCCRDSVD 267 (351)
Q Consensus 196 diitktkavythsqrpstdevnlccrdsvdcgrfsrhqsmavrlsvecghtl-r---tdqrpsmdevnlccrdsvd 267 (351)
.||-..+..|+. |..|||+|..--.+ +--|-..- - --.+|--..|-.||++.|-
T Consensus 31 E~IwsM~GA~~t--------------dqgdCs~~~~~~~~----ph~C~k~P~IvDLpp~~~~n~qi~nCCrgG~l 88 (169)
T PF04833_consen 31 EFIWSMKGAQTT--------------DQGDCSKFYKDGDF----PHCCKKRPTIVDLPPGTPYNQQIGNCCRGGVL 88 (169)
T ss_pred EEEEEeeCceec--------------cCCcccccccCCCC----CcccCCCCEEEeCCCCCCCccccccccCCCEE
Confidence 477777777775 56788888721111 11222110 0 1134444556679998775
No 6
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=16.91 E-value=35 Score=25.16 Aligned_cols=25 Identities=28% Similarity=0.566 Sum_probs=20.4
Q ss_pred eeeeeccccchHHHHHHHHHhhhcC
Q psy5717 322 GFAISESNGLKNELKRLERKKMLRK 346 (351)
Q Consensus 322 gfaisesnglknelkrlerkkmlrk 346 (351)
+|.++..+...+-|+.||+|.+|++
T Consensus 34 ~~g~~S~~tv~~~L~~Le~kG~I~r 58 (65)
T PF01726_consen 34 ALGLKSTSTVQRHLKALERKGYIRR 58 (65)
T ss_dssp HHTSSSHHHHHHHHHHHHHTTSEEE
T ss_pred HhCCCChHHHHHHHHHHHHCcCccC
Confidence 3555677888999999999999875
No 7
>TIGR02174 CXXU_selWTH selT/selW/selH selenoprotein domain. This model represents a domain found in both bacteria and animals, including animal proteins SelT, SelW, and SelH, all of which are selenoproteins. In a CXXC motif near the N-terminus of the domain, selenocysteine may replace the second Cys. Proteins with this domain may include an insert of about 70 amino acids. This model is broader than the current SelW model pfam05169 in Pfam.
Probab=15.59 E-value=1.6e+02 Score=21.61 Aligned_cols=43 Identities=19% Similarity=0.346 Sum_probs=32.3
Q ss_pred EEEEeecCccchhhhhhhhhhhhhccCCcceeeehhcccceee
Q psy5717 279 VRLSVECGHTLRTEWRAESIDQQIKGNDTELKFTERQRGKMEC 321 (351)
Q Consensus 279 vrlsvecghtlrtewraesidqqikgndtelkfterqrgkmec 321 (351)
+-...-||-.+|..|-++.|-++..+...++.-+.-.+|-.|.
T Consensus 3 IeyC~~C~y~~Ra~~l~q~L~~~Fp~~~v~~~~~~~~~G~Fev 45 (72)
T TIGR02174 3 IEYCGSCGYKPRAAWLKQELLEEFPDLEIEGENTPPTTGAFEV 45 (72)
T ss_pred EEECCCCCChHHHHHHHHHHHHHCCCCeeEEeeecCCCcEEEE
Confidence 3445679999999999999999887655555555566787776
No 8
>KOG3203|consensus
Probab=15.24 E-value=82 Score=28.47 Aligned_cols=25 Identities=32% Similarity=0.550 Sum_probs=19.7
Q ss_pred Cccchhhhhhhhhhhhh-----hccceeee
Q psy5717 182 NKLDVRTLILGRMEDII-----TKTKAVYT 206 (351)
Q Consensus 182 nkldvrtlilgrmedii-----tktkavyt 206 (351)
--+|.+.-+|||+.+-| .|-|++|+
T Consensus 24 ~vvDa~~q~lGrLAs~ia~~L~GkhKPiYh 53 (165)
T KOG3203|consen 24 HVVDAKQQPLGRLASQIATTLQGKHKPIYH 53 (165)
T ss_pred eeeccccCchHHHHHHHHHHHhhccCCccC
Confidence 34688889999998765 47789996
No 9
>COG0102 RplM Ribosomal protein L13 [Translation, ribosomal structure and biogenesis]
Probab=13.28 E-value=98 Score=27.24 Aligned_cols=24 Identities=33% Similarity=0.576 Sum_probs=18.8
Q ss_pred cchhhhhhhhhhhhh-----hccceeeec
Q psy5717 184 LDVRTLILGRMEDII-----TKTKAVYTH 207 (351)
Q Consensus 184 ldvrtlilgrmedii-----tktkavyth 207 (351)
+|....||||+.-.| .|.|+.||-
T Consensus 18 IDA~g~vLGRLAs~VA~~Lrgkhkp~ytP 46 (148)
T COG0102 18 IDAEGKVLGRLASEVAKRLRGKHKPTYTP 46 (148)
T ss_pred EeCCCCChHHHHHHHHHHHhcCCCCCcCc
Confidence 577889999997644 567899984
No 10
>KOG4442|consensus
Probab=13.05 E-value=96 Score=33.17 Aligned_cols=59 Identities=32% Similarity=0.537 Sum_probs=38.6
Q ss_pred CCcccccccccCcccCccccccceeEEEEeecCcccccCCCCCccccccccccCccc--CccccccceeEEEEe--ecCc
Q psy5717 212 STDEVNLCCRDSVDCGRFSRHQSMAVRLSVECGHTLRTDQRPSMDEVNLCCRDSVDC--GRFSRHQSMAVRLSV--ECGH 287 (351)
Q Consensus 212 stdevnlccrdsvdcgrfsrhqsmavrlsvecghtlrtdqrpsmdevnlccrdsvdc--grfsrhqsmavrlsv--ecgh 287 (351)
.-|.+|--|--.-|| .-..++.||+|- +|-+..++| -||.+||-.+|.+-. -=||
T Consensus 74 ~~d~~n~~~~cg~~C--------iNr~t~iECs~~-------------~C~~cg~~C~NQRFQkkqyA~vevF~Te~KG~ 132 (729)
T KOG4442|consen 74 TGDGANGACACGEDC--------INRMTSIECSDR-------------ECPRCGVYCKNQRFQKKQYAKVEVFLTEKKGC 132 (729)
T ss_pred cccccccccccCccc--------cchhhhcccCCc-------------cCCCccccccchhhhhhccCceeEEEecCccc
Confidence 456677767666666 345678888872 343345566 599999998887643 3455
Q ss_pred cchh
Q psy5717 288 TLRT 291 (351)
Q Consensus 288 tlrt 291 (351)
-||.
T Consensus 133 GLRA 136 (729)
T KOG4442|consen 133 GLRA 136 (729)
T ss_pred ceee
Confidence 5654
Done!