Query 044315
Match_columns 437
No_of_seqs 53 out of 55
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 13:27:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044315.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044315hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05605 zf-Di19: Drought indu 82.9 0.44 9.6E-06 36.0 0.3 26 338-364 1-26 (54)
2 PF13894 zf-C2H2_4: C2H2-type 71.8 0.82 1.8E-05 27.6 -0.8 24 340-363 1-24 (24)
3 KOG1842 FYVE finger-containing 71.7 1.4 3E-05 47.4 0.3 30 334-363 10-39 (505)
4 PF12756 zf-C2H2_2: C2H2 type 59.2 2.6 5.7E-05 33.0 -0.4 33 335-367 46-79 (100)
5 PF09237 GAGA: GAGA factor; I 55.1 3.2 7E-05 33.1 -0.5 30 335-364 20-49 (54)
6 PF12874 zf-met: Zinc-finger o 48.7 4.3 9.3E-05 25.6 -0.6 22 340-361 1-22 (25)
7 cd03024 DsbA_FrnE DsbA family, 46.5 10 0.00022 33.7 1.2 20 335-354 2-21 (201)
8 PF00096 zf-C2H2: Zinc finger, 45.3 3.9 8.4E-05 25.3 -1.2 22 340-361 1-22 (23)
9 cd03021 DsbA_GSTK DsbA family, 40.0 11 0.00024 34.6 0.5 13 335-347 4-16 (209)
10 PF13909 zf-H2C2_5: C2H2-type 36.7 6 0.00013 25.0 -1.3 23 340-363 1-23 (24)
11 PF01323 DSBA: DSBA-like thior 36.6 14 0.00029 32.4 0.4 12 336-347 4-15 (193)
12 cd03022 DsbA_HCCA_Iso DsbA fam 36.5 14 0.0003 32.4 0.5 24 335-358 2-25 (192)
13 COG2761 FrnE Predicted dithiol 35.7 15 0.00033 36.2 0.6 21 333-353 7-27 (225)
14 PF12171 zf-C2H2_jaz: Zinc-fin 27.5 24 0.00053 23.0 0.4 22 340-361 2-23 (27)
15 PF09231 RDV-p3: Rice dwarf vi 26.8 30 0.00064 39.4 1.1 36 44-83 173-213 (965)
16 cd02972 DsbA_family DsbA famil 25.3 29 0.00064 25.9 0.5 18 337-354 4-21 (98)
17 cd03019 DsbA_DsbA DsbA family, 25.3 35 0.00076 29.4 1.0 32 338-372 23-54 (178)
18 smart00355 ZnF_C2H2 zinc finge 24.4 29 0.00062 20.6 0.3 24 340-364 1-24 (26)
19 PF12756 zf-C2H2_2: C2H2 type 22.5 29 0.00062 27.2 0.0 24 342-365 2-25 (100)
20 PF13871 Helicase_C_4: Helicas 22.2 56 0.0012 33.1 1.9 32 94-125 86-125 (278)
21 cd03023 DsbA_Com1_like DsbA fa 21.5 37 0.00081 28.1 0.5 11 338-348 13-23 (154)
No 1
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=82.90 E-value=0.44 Score=35.99 Aligned_cols=26 Identities=31% Similarity=0.609 Sum_probs=22.8
Q ss_pred ccCCCchhhhhcccccchhhhhccccc
Q 044315 338 EDFSCPFCLAKCASFKGLRYHLSSSHD 364 (437)
Q Consensus 338 edFsCPfCl~~C~sfkGL~~HL~ssHD 364 (437)
+.|.||||.. =-+..+|..|....|-
T Consensus 1 ~~f~CP~C~~-~~~~~~L~~H~~~~H~ 26 (54)
T PF05605_consen 1 DSFTCPYCGK-GFSESSLVEHCEDEHR 26 (54)
T ss_pred CCcCCCCCCC-ccCHHHHHHHHHhHCc
Confidence 5799999998 5778899999999885
No 2
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=71.82 E-value=0.82 Score=27.58 Aligned_cols=24 Identities=38% Similarity=0.747 Sum_probs=19.5
Q ss_pred CCCchhhhhcccccchhhhhcccc
Q 044315 340 FSCPFCLAKCASFKGLRYHLSSSH 363 (437)
Q Consensus 340 FsCPfCl~~C~sfkGL~~HL~ssH 363 (437)
|.||.|.....+...|+.|+..-|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 569999999999999999998765
No 3
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=71.70 E-value=1.4 Score=47.41 Aligned_cols=30 Identities=37% Similarity=0.748 Sum_probs=28.3
Q ss_pred eeccccCCCchhhhhcccccchhhhhcccc
Q 044315 334 TEVTEDFSCPFCLAKCASFKGLRYHLSSSH 363 (437)
Q Consensus 334 TEvtedFsCPfCl~~C~sfkGL~~HL~ssH 363 (437)
.||+|+|.||+|+..=.+|..|-.|+---|
T Consensus 10 ~~i~egflCPiC~~dl~~~~~L~~H~d~eH 39 (505)
T KOG1842|consen 10 GEILEGFLCPICLLDLPNLSALNDHLDVEH 39 (505)
T ss_pred chhhhcccCchHhhhhhhHHHHHHHHhhhc
Confidence 589999999999999999999999998887
No 4
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=59.20 E-value=2.6 Score=33.03 Aligned_cols=33 Identities=36% Similarity=0.667 Sum_probs=24.2
Q ss_pred eccccCCCchhhhhcccccchhhhhccc-ccccc
Q 044315 335 EVTEDFSCPFCLAKCASFKGLRYHLSSS-HDLFN 367 (437)
Q Consensus 335 EvtedFsCPfCl~~C~sfkGL~~HL~ss-HDlF~ 367 (437)
.+.+.+.|++|.....+..+|+.||.+. |-...
T Consensus 46 ~~~~~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~ 79 (100)
T PF12756_consen 46 KVKESFRCPYCNKTFRSREALQEHMRSKHHKKRN 79 (100)
T ss_dssp ---SSEEBSSSS-EESSHHHHHHHHHHTTTTC-S
T ss_pred ccCCCCCCCccCCCCcCHHHHHHHHcCccCCCcc
Confidence 3566899999999999999999999875 54443
No 5
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=55.05 E-value=3.2 Score=33.11 Aligned_cols=30 Identities=30% Similarity=0.491 Sum_probs=21.7
Q ss_pred eccccCCCchhhhhcccccchhhhhccccc
Q 044315 335 EVTEDFSCPFCLAKCASFKGLRYHLSSSHD 364 (437)
Q Consensus 335 EvtedFsCPfCl~~C~sfkGL~~HL~ssHD 364 (437)
+....-+||-|...|.+=..|+.||...|-
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhc
Confidence 345567899999999999999999998883
No 6
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=48.69 E-value=4.3 Score=25.63 Aligned_cols=22 Identities=41% Similarity=0.665 Sum_probs=20.1
Q ss_pred CCCchhhhhcccccchhhhhcc
Q 044315 340 FSCPFCLAKCASFKGLRYHLSS 361 (437)
Q Consensus 340 FsCPfCl~~C~sfkGL~~HL~s 361 (437)
|.|.-|.+.+.+-..|+.|+.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 5799999999999999999976
No 7
>cd03024 DsbA_FrnE DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins.
Probab=46.48 E-value=10 Score=33.72 Aligned_cols=20 Identities=20% Similarity=0.619 Sum_probs=13.9
Q ss_pred eccccCCCchhhhhcccccc
Q 044315 335 EVTEDFSCPFCLAKCASFKG 354 (437)
Q Consensus 335 EvtedFsCPfCl~~C~sfkG 354 (437)
|+--||.||||+.-=..+..
T Consensus 2 ~~~~D~~cP~cyl~~~~l~~ 21 (201)
T cd03024 2 DIWSDVVCPWCYIGKRRLEK 21 (201)
T ss_pred eEEecCcCccHHHHHHHHHH
Confidence 56779999999973333333
No 8
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=45.33 E-value=3.9 Score=25.35 Aligned_cols=22 Identities=27% Similarity=0.683 Sum_probs=19.4
Q ss_pred CCCchhhhhcccccchhhhhcc
Q 044315 340 FSCPFCLAKCASFKGLRYHLSS 361 (437)
Q Consensus 340 FsCPfCl~~C~sfkGL~~HL~s 361 (437)
|.||.|.....+-..|+.|+..
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 5799999999999999999876
No 9
>cd03021 DsbA_GSTK DsbA family, Glutathione (GSH) S-transferase Kappa (GSTK) subfamily; GSTK is a member of the GST family of enzymes which catalyzes the transfer of the thiol of GSH to electrophilic substrates. It is specifically located in the mitochondria and peroxisomes, unlike other members of the canonical GST family, which are mainly cytosolic. The biological substrates of GSTK are not yet known. It is presumed to have a protective role during respiration when large amounts of reactive oxygen species are generated. GSTK has the same general fold as DsbA, consisting of a thioredoxin domain interrupted by an alpha-helical domain and its biological unit is a homodimer. GSTK is closely related to the bacterial enzyme, 2-hydroxychromene-2-carboxylate (HCCA) isomerase. It shows little sequence similarity to the other members of the GST family.
Probab=39.99 E-value=11 Score=34.60 Aligned_cols=13 Identities=23% Similarity=0.419 Sum_probs=11.2
Q ss_pred eccccCCCchhhh
Q 044315 335 EVTEDFSCPFCLA 347 (437)
Q Consensus 335 EvtedFsCPfCl~ 347 (437)
|+--||.||||++
T Consensus 4 d~~~D~vcPwcyl 16 (209)
T cd03021 4 ELYYDVVSPYSYL 16 (209)
T ss_pred EEEEeCCChHHHH
Confidence 4667999999997
No 10
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=36.68 E-value=6 Score=25.03 Aligned_cols=23 Identities=30% Similarity=0.723 Sum_probs=17.1
Q ss_pred CCCchhhhhcccccchhhhhcccc
Q 044315 340 FSCPFCLAKCASFKGLRYHLSSSH 363 (437)
Q Consensus 340 FsCPfCl~~C~sfkGL~~HL~ssH 363 (437)
|.|++|...+. -.+|..|+..-|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 56999998887 889999987544
No 11
>PF01323 DSBA: DSBA-like thioredoxin domain; InterPro: IPR001853 DSBA is a sub-family of the Thioredoxin family []. The efficient and correct folding of bacterial disulphide bonded proteins in vivo is dependent upon a class of periplasmic oxidoreductase proteins called DsbA, after the Escherichia coli enzyme. The bacterial protein-folding factor DsbA is the most oxidizing of the thioredoxin family. DsbA catalyses disulphide-bond formation during the folding of secreted proteins. The extremely oxidizing nature of DsbA has been proposed to result from either domain motion or stabilising active-site interactions in the reduced form. DsbA's highly oxidizing nature is a result of hydrogen bond, electrostatic and helix-dipole interactions that favour the thiolate over the disulphide at the active site []. In the pathogenic bacterium Vibrio cholerae, the DsbA homologue (TcpG) is responsible for the folding, maturation and secretion of virulence factors. While the overall architecture of TcpG and DsbA is similar and the surface features are retained in TcpG, there are significant differences. For example, the kinked active site helix results from a three-residue loop in DsbA, but is caused by a proline in TcpG (making TcpG more similar to thioredoxin in this respect). Furthermore, the proposed peptide binding groove of TcpG is substantially shortened compared with that of DsbA due to a six-residue deletion. Also, the hydrophobic pocket of TcpG is more shallow and the acidic patch is much less extensive than that of E. coli DsbA [].; GO: 0015035 protein disulfide oxidoreductase activity; PDB: 3GL5_A 3DKS_D 3RPP_C 3RPN_B 1YZX_A 3L9V_C 2IMD_A 2IME_A 2IMF_A 2B3S_B ....
Probab=36.65 E-value=14 Score=32.38 Aligned_cols=12 Identities=42% Similarity=1.024 Sum_probs=10.0
Q ss_pred ccccCCCchhhh
Q 044315 336 VTEDFSCPFCLA 347 (437)
Q Consensus 336 vtedFsCPfCl~ 347 (437)
+--|+.||||+.
T Consensus 4 ~~~D~~Cp~cy~ 15 (193)
T PF01323_consen 4 FFFDFICPWCYL 15 (193)
T ss_dssp EEEBTTBHHHHH
T ss_pred EEEeCCCHHHHH
Confidence 446899999996
No 12
>cd03022 DsbA_HCCA_Iso DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1,2-dihydroxynapthalene by a dioxygenase, into cis-o-hydroxybenzylidenepyruvate (cHBPA). This is the fourth reaction in a six-step pathway that converts napthalene into salicylate. HCCA isomerase is unique to bacteria that degrade polycyclic aromatic compounds. It is closely related to the eukaryotic protein, GSH transferase kappa (GSTK).
Probab=36.52 E-value=14 Score=32.38 Aligned_cols=24 Identities=21% Similarity=0.340 Sum_probs=15.8
Q ss_pred eccccCCCchhhhhcccccchhhh
Q 044315 335 EVTEDFSCPFCLAKCASFKGLRYH 358 (437)
Q Consensus 335 EvtedFsCPfCl~~C~sfkGL~~H 358 (437)
|+--|+.||||+.-=..+.-+..+
T Consensus 2 ~~~~D~~cP~cy~~~~~l~~~~~~ 25 (192)
T cd03022 2 DFYFDFSSPYSYLAHERLPALAAR 25 (192)
T ss_pred eEEEeCCChHHHHHHHHHHHHHHH
Confidence 355699999999844445544443
No 13
>COG2761 FrnE Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=35.74 E-value=15 Score=36.22 Aligned_cols=21 Identities=24% Similarity=0.629 Sum_probs=15.0
Q ss_pred eeeccccCCCchhhhhccccc
Q 044315 333 RTEVTEDFSCPFCLAKCASFK 353 (437)
Q Consensus 333 kTEvtedFsCPfCl~~C~sfk 353 (437)
+-+|..|+.||||++-=..|+
T Consensus 7 ~I~v~sD~vCPwC~ig~~rL~ 27 (225)
T COG2761 7 EIDVFSDVVCPWCYIGKRRLE 27 (225)
T ss_pred EEEEEeCCcCchhhcCHHHHH
Confidence 346889999999998333333
No 14
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=27.48 E-value=24 Score=23.04 Aligned_cols=22 Identities=32% Similarity=0.502 Sum_probs=20.2
Q ss_pred CCCchhhhhcccccchhhhhcc
Q 044315 340 FSCPFCLAKCASFKGLRYHLSS 361 (437)
Q Consensus 340 FsCPfCl~~C~sfkGL~~HL~s 361 (437)
|.|+.|-....+-..|+.|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 7899999999999999999986
No 15
>PF09231 RDV-p3: Rice dwarf virus p3; InterPro: IPR015312 Members of this family are core structural proteins found in the double-stranded RNA virus Phytoreovirus. They are large proteins without apparent domain division, with a number of all-alpha regions and one all beta domain near the C-terminal end []. ; GO: 0005198 structural molecule activity; PDB: 1UF2_A.
Probab=26.81 E-value=30 Score=39.42 Aligned_cols=36 Identities=42% Similarity=0.776 Sum_probs=23.6
Q ss_pred cCCCHHH----Hhhhhcccc-cccchhhHHHHHHHhhhcCChhhh
Q 044315 44 VHLSAEE----EIAAEESLS-IYCKPVELYNILQRRAIRNPSFLQ 83 (437)
Q Consensus 44 ~~Ls~eE----~lAAeeSLs-lYCKPVELYNiiqrRa~~nP~FLQ 83 (437)
+.+.+.| ++ |-+=|. -||.|.-.||-||+|| |.||-
T Consensus 173 VPfh~iELaLy~l-A~~lL~~QYCHPtvvy~yL~~RA---PpFL~ 213 (965)
T PF09231_consen 173 VPFHPIELALYNL-ANQLLDIQYCHPTVVYKYLQDRA---PPFLR 213 (965)
T ss_dssp ESS-HHHHCHHHH-HHHHHHHHEE-HHHHHHHHHHC-----TTEE
T ss_pred ccccHHHHHHHHH-HHHHHhhhccchHHHHHHHHhcC---CCeEE
Confidence 6667766 23 334443 4999999999999999 99984
No 16
>cd02972 DsbA_family DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a 27-kDa outer membrane protein, and similar proteins. Members of this family contain a redox active CXXC motif (except GSTK and HCCA isomerase) imbedded in a TRX fold, and an alpha helical insert of about 75 residues (shorter in DsbC and DsbG) relative to TRX. DsbA is involved in the oxidative protein folding pathway in prokaryotes, catalyzing disulfide bond formation of proteins secreted into the bacterial periplasm. DsbC and DsbG function as protein disulfide isomerases and chaperones to correct non-native disulfide bonds formed by DsbA and prevent aggregation of incorrectly folded proteins.
Probab=25.28 E-value=29 Score=25.93 Aligned_cols=18 Identities=22% Similarity=0.436 Sum_probs=12.1
Q ss_pred cccCCCchhhhhcccccc
Q 044315 337 TEDFSCPFCLAKCASFKG 354 (437)
Q Consensus 337 tedFsCPfCl~~C~sfkG 354 (437)
--|+.||||...=-.++.
T Consensus 4 f~d~~Cp~C~~~~~~l~~ 21 (98)
T cd02972 4 FFDPLCPYCYLFEPELEK 21 (98)
T ss_pred EECCCCHhHHhhhHHHHH
Confidence 358999999974433433
No 17
>cd03019 DsbA_DsbA DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol oxidant known, due to the unusual stability of the thiolate anion form of the first cysteine in the CXXC motif. The highly unstable oxidized form of DsbA directly donates disulfide bonds to reduced proteins secreted into the bacterial periplasm. This rapid and unidirectional process helps to catalyze the folding of newly-synthesized polypeptides. To regain catalytic activity, reduced DsbA is then reoxidized by the membrane protein DsbB, which generates its disulfides from oxidized quinones, which in turn are reoxidized by the electron transport chain.
Probab=25.25 E-value=35 Score=29.44 Aligned_cols=32 Identities=19% Similarity=0.285 Sum_probs=18.2
Q ss_pred ccCCCchhhhhcccccchhhhhcccccccceeeee
Q 044315 338 EDFSCPFCLAKCASFKGLRYHLSSSHDLFNFEFWV 372 (437)
Q Consensus 338 edFsCPfCl~~C~sfkGL~~HL~ssHDlF~FeF~~ 372 (437)
.||.||||...=.....|..-+ =+...|++++
T Consensus 23 ~D~~Cp~C~~~~~~~~~~~~~~---~~~v~~~~~~ 54 (178)
T cd03019 23 FSYGCPHCYNFEPILEAWVKKL---PKDVKFEKVP 54 (178)
T ss_pred ECCCCcchhhhhHHHHHHHHhC---CCCceEEEcC
Confidence 4899999986544444443332 2344555444
No 18
>smart00355 ZnF_C2H2 zinc finger.
Probab=24.44 E-value=29 Score=20.65 Aligned_cols=24 Identities=29% Similarity=0.611 Sum_probs=19.9
Q ss_pred CCCchhhhhcccccchhhhhccccc
Q 044315 340 FSCPFCLAKCASFKGLRYHLSSSHD 364 (437)
Q Consensus 340 FsCPfCl~~C~sfkGL~~HL~ssHD 364 (437)
+.|+.|-....+-..|..|+. .|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~-~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR-THX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH-Hhc
Confidence 469999988888899999987 554
No 19
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=22.54 E-value=29 Score=27.16 Aligned_cols=24 Identities=29% Similarity=0.616 Sum_probs=0.0
Q ss_pred Cchhhhhcccccchhhhhcccccc
Q 044315 342 CPFCLAKCASFKGLRYHLSSSHDL 365 (437)
Q Consensus 342 CPfCl~~C~sfkGL~~HL~ssHDl 365 (437)
|++|-....+...|..||...|..
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~~ 25 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHGF 25 (100)
T ss_dssp ------------------------
T ss_pred cccccccccccccccccccccccc
Confidence 999999999999999999998863
No 20
>PF13871 Helicase_C_4: Helicase_C-like
Probab=22.23 E-value=56 Score=33.10 Aligned_cols=32 Identities=25% Similarity=0.487 Sum_probs=27.6
Q ss_pred ccceeeeeEEeeccccccccc--------cCCcceEEEee
Q 044315 94 HNRRIQMTISLSETVNEGLQA--------RFPFPLYILLG 125 (437)
Q Consensus 94 ~krRIqmTISLsg~~n~~~q~--------qniFPLyvlLA 125 (437)
+++|++|+..++++.+.-+|. |--=|+|++|.
T Consensus 86 qr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~ 125 (278)
T PF13871_consen 86 QRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLV 125 (278)
T ss_pred CCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEee
Confidence 689999999999999988886 55678999876
No 21
>cd03023 DsbA_Com1_like DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC motif, assumed to be imbedded in a DsbA-like structure. Its homology to DsbA suggests that the protein is a protein disulfide oxidoreductase. The role of such a protein in pathogenesis is unknown.
Probab=21.54 E-value=37 Score=28.09 Aligned_cols=11 Identities=27% Similarity=0.869 Sum_probs=9.2
Q ss_pred ccCCCchhhhh
Q 044315 338 EDFSCPFCLAK 348 (437)
Q Consensus 338 edFsCPfCl~~ 348 (437)
.|+.||||...
T Consensus 13 ~D~~Cp~C~~~ 23 (154)
T cd03023 13 FDYNCGYCKKL 23 (154)
T ss_pred ECCCChhHHHh
Confidence 59999999864
Done!