Query 033170
Match_columns 125
No_of_seqs 103 out of 121
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 10:40:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033170.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033170hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03207 stomagen; Provisional 97.7 6.3E-05 1.4E-09 56.3 4.8 48 69-116 63-112 (113)
2 PF07172 GRP: Glycine rich pro 66.6 4.2 9.1E-05 29.2 1.8 23 10-32 3-25 (95)
3 PF10589 NADH_4Fe-4S: NADH-ubi 47.9 3.7 7.9E-05 25.7 -1.0 10 85-94 15-24 (46)
4 PF09749 HVSL: Uncharacterised 40.2 12 0.00025 29.8 0.5 19 105-123 220-238 (239)
5 TIGR02804 ExbD_2 TonB system t 36.7 29 0.00062 24.8 2.1 16 11-26 12-27 (121)
6 PRK11024 colicin uptake protei 35.9 21 0.00046 26.2 1.3 17 10-26 22-38 (141)
7 TIGR02801 tolR TolR protein. T 35.8 26 0.00056 24.9 1.7 16 11-26 13-28 (129)
8 PRK11267 biopolymer transport 33.4 29 0.00064 25.5 1.7 17 10-26 25-41 (141)
9 PF12837 Fer4_6: 4Fe-4S bindin 32.9 8.2 0.00018 21.3 -1.0 12 84-95 7-18 (24)
10 PRK10905 cell division protein 31.1 52 0.0011 28.9 3.1 34 14-47 6-39 (328)
11 TIGR02803 ExbD_1 TonB system t 30.0 40 0.00086 23.9 1.9 17 10-26 11-27 (122)
12 PF06404 PSK: Phytosulfokine p 29.7 31 0.00066 24.2 1.2 22 15-36 2-23 (81)
13 COG3266 DamX Uncharacterized p 27.6 1.5E+02 0.0032 25.8 5.2 69 13-81 16-87 (292)
14 PF15284 PAGK: Phage-encoded v 25.7 64 0.0014 22.1 2.2 18 11-28 5-22 (61)
15 PF03579 SHP: Small hydrophobi 25.6 52 0.0011 22.8 1.7 23 6-28 18-40 (64)
16 TIGR03831 YgiT_finger YgiT-typ 25.6 33 0.00071 19.8 0.7 13 110-122 32-45 (46)
17 PF05207 zf-CSL: CSL zinc fing 25.4 34 0.00073 22.1 0.7 11 109-119 17-27 (55)
18 PRK11901 hypothetical protein; 25.2 1E+02 0.0022 27.1 3.9 29 7-35 34-65 (327)
19 PF02472 ExbD: Biopolymer tran 23.8 26 0.00057 24.2 0.0 16 11-26 16-31 (130)
20 PF12797 Fer4_2: 4Fe-4S bindin 22.2 32 0.0007 19.1 0.2 11 84-94 8-18 (22)
21 PF11241 DUF3043: Protein of u 21.7 90 0.0019 24.9 2.6 22 4-25 73-94 (170)
22 PF12800 Fer4_4: 4Fe-4S bindin 21.1 58 0.0013 16.5 1.0 11 84-94 2-12 (17)
23 PF15240 Pro-rich: Proline-ric 21.0 57 0.0012 26.3 1.4 8 17-24 4-11 (179)
No 1
>PLN03207 stomagen; Provisional
Probab=97.70 E-value=6.3e-05 Score=56.26 Aligned_cols=48 Identities=23% Similarity=0.608 Sum_probs=35.8
Q ss_pred CCcccCCCCCCCccc-CCCCCCc-cCcceEecccCCCCccccceeeeecC
Q 033170 69 GTGVYPTGSSIPDCS-HACGPCF-PCKRVMVSFKCSVAESCPIVYRCMCR 116 (125)
Q Consensus 69 ~~~~~~iGS~PP~C~-~KC~~C~-PC~aV~Vp~~~s~~eY~P~~WkCkCg 116 (125)
...+..|||+.|.|. |-|.+|. -|.+-|||+.-+.----..-|||-|+
T Consensus 63 ~srr~~igs~aptctynecrgcr~kc~~eqvpv~~~dp~nsayhy~cvch 112 (113)
T PLN03207 63 SSRRLMIGSTAPTCTYNECRGCRYKCRAEQVPVEGNDPINSAYHYKCVCH 112 (113)
T ss_pred hhhhhhhcCcCCccccccccCccccccceeccccCCCCCccccccccCCC
Confidence 345678999999997 5899997 59999999987522222235788875
No 2
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=66.56 E-value=4.2 Score=29.19 Aligned_cols=23 Identities=13% Similarity=-0.001 Sum_probs=10.6
Q ss_pred hHHHHHHHHHHHHHhhccccCCC
Q 033170 10 RARICFLILFMFFSTGYSLRMSS 32 (125)
Q Consensus 10 ~~~~~l~~~f~~~~~~~s~R~~p 32 (125)
.|.|+|+.+||++.|.-|+.+..
T Consensus 3 SK~~llL~l~LA~lLlisSevaa 25 (95)
T PF07172_consen 3 SKAFLLLGLLLAALLLISSEVAA 25 (95)
T ss_pred hhHHHHHHHHHHHHHHHHhhhhh
Confidence 45555554444444433444333
No 3
>PF10589 NADH_4Fe-4S: NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; InterPro: IPR019575 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This entry describes the F subunit of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoF. This family does not have any members in chloroplast or cyanobacteria, where the quinone may be plastoquinone and NADH may be replaced by NADPH, nor in Methanosarcina, where NADH is replaced by F420H2. This entry represents the iron-sulphur binding domain of the F subunit.; GO: 0055114 oxidation-reduction process; PDB: 3IAS_S 2FUG_A 3I9V_A 3M9S_1 3IAM_A 2YBB_1.
Probab=47.94 E-value=3.7 Score=25.67 Aligned_cols=10 Identities=50% Similarity=1.667 Sum_probs=4.9
Q ss_pred CCCCCccCcc
Q 033170 85 ACGPCFPCKR 94 (125)
Q Consensus 85 KC~~C~PC~a 94 (125)
-||.|.||+-
T Consensus 15 SCGkC~PCR~ 24 (46)
T PF10589_consen 15 SCGKCTPCRE 24 (46)
T ss_dssp --S--HHHHC
T ss_pred CCCCCCCcHh
Confidence 5999999963
No 4
>PF09749 HVSL: Uncharacterised conserved protein; InterPro: IPR019146 This entry is of proteins of approximately 300 residues conserved from plants to humans. It contains two conserved motifs, HxSL and FHVSL. The function is unknown.
Probab=40.15 E-value=12 Score=29.85 Aligned_cols=19 Identities=16% Similarity=0.301 Sum_probs=15.1
Q ss_pred ccccceeeeecCCcccCCC
Q 033170 105 ESCPIVYRCMCRGKYYHVP 123 (125)
Q Consensus 105 eY~P~~WkCkCg~k~f~~p 123 (125)
+.+--.=|||+||++|.+|
T Consensus 220 ~~~v~~Ik~kiGn~v~~ip 238 (239)
T PF09749_consen 220 SFKVNSIKCKIGNKVFSIP 238 (239)
T ss_pred EEEeeEEEEEECCEEEEec
Confidence 4455567999999999886
No 5
>TIGR02804 ExbD_2 TonB system transport protein ExbD, group 2. Members of this family are Gram-negative bacterial inner membrane proteins, generally designated ExbD, related to the TolR family modeled by TIGRFAMs TIGR02801. Members always are encoded next to a protein designated ExbB (TIGR02797), related to the TolQ family modeled by TIGRFAMs TIGR02796. ExbD and ExbB together form a proton channel through which they can harness the proton-motive force to energize TonB, which in turn energizes TonB-dependent receptors in the outer membrane. TonB-dependent receptors with known specificity tend to import siderophores or vitamin B12. A TonB system and Tol-Pal system often will co-exist in a single bacterial genome.
Probab=36.65 E-value=29 Score=24.76 Aligned_cols=16 Identities=19% Similarity=0.251 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHhhc
Q 033170 11 ARICFLILFMFFSTGY 26 (125)
Q Consensus 11 ~~~~l~~~f~~~~~~~ 26 (125)
-+|+|++|||+.+...
T Consensus 12 VvflLLiFFmvtt~~~ 27 (121)
T TIGR02804 12 IMLVLLAIVLIISTFI 27 (121)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5788889999887653
No 6
>PRK11024 colicin uptake protein TolR; Provisional
Probab=35.89 E-value=21 Score=26.16 Aligned_cols=17 Identities=18% Similarity=0.291 Sum_probs=12.5
Q ss_pred hHHHHHHHHHHHHHhhc
Q 033170 10 RARICFLILFMFFSTGY 26 (125)
Q Consensus 10 ~~~~~l~~~f~~~~~~~ 26 (125)
--+|+|++|||+.+...
T Consensus 22 DVvfvLLiFFmvts~~~ 38 (141)
T PRK11024 22 DVLLVLLLIFMATAPII 38 (141)
T ss_pred HHHHHHHHHHHhccccc
Confidence 35788889998877643
No 7
>TIGR02801 tolR TolR protein. The model describes the inner membrane protein TolR, part of the TolR/TolQ complex that transduces energy from the proton-motive force, through TolA, to an outer membrane complex made up of TolB and Pal (peptidoglycan-associated lipoprotein). The complex is required to maintain outer membrane integrity, and defects may cause a defect in the import of some organic compounds in addition to the resulting morphologic. While several gene pairs homologous to talR and tolQ may be found in a single genome, but the scope of this model is set to favor finding only bone fide TolR, supported by operon structure as well as by score.
Probab=35.81 E-value=26 Score=24.93 Aligned_cols=16 Identities=25% Similarity=0.418 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHhhc
Q 033170 11 ARICFLILFMFFSTGY 26 (125)
Q Consensus 11 ~~~~l~~~f~~~~~~~ 26 (125)
-.|+|++|||+.+...
T Consensus 13 VvFlLLiFFmvts~~~ 28 (129)
T TIGR02801 13 VMLVLLIIFMVTAPLL 28 (129)
T ss_pred HHHHHHHHHHhhhccc
Confidence 4688889998877653
No 8
>PRK11267 biopolymer transport protein ExbD; Provisional
Probab=33.41 E-value=29 Score=25.49 Aligned_cols=17 Identities=24% Similarity=0.342 Sum_probs=12.7
Q ss_pred hHHHHHHHHHHHHHhhc
Q 033170 10 RARICFLILFMFFSTGY 26 (125)
Q Consensus 10 ~~~~~l~~~f~~~~~~~ 26 (125)
-=+|+|++|||+.+...
T Consensus 25 DVvf~LLiFFmvts~~~ 41 (141)
T PRK11267 25 DVMLVLLIIFMVAAPLA 41 (141)
T ss_pred HHHHHHHHHHHhhhhcc
Confidence 35788999998877643
No 9
>PF12837 Fer4_6: 4Fe-4S binding domain; InterPro: IPR001450 This superfamily includes proteins containing domains which bind to iron-sulphur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Ferredoxins are iron-sulphur proteins that mediate electron transfer in a range of metabolic reactions; they fall into several subgroups according to the nature of their iron-sulphur cluster(s) [, ]. One group, originally found in bacteria, has been termed "bacterial-type", in which the active centre is a 4Fe-4S cluster. 4Fe-4S ferredoxins may in turn be subdivided into further groups, based on their sequence properties. Most contain at least one conserved domain, including four Cys residues that bind to a 4Fe-4S centre. ; GO: 0009055 electron carrier activity, 0051536 iron-sulfur cluster binding
Probab=32.92 E-value=8.2 Score=21.28 Aligned_cols=12 Identities=42% Similarity=0.802 Sum_probs=9.3
Q ss_pred CCCCCCccCcce
Q 033170 84 HACGPCFPCKRV 95 (125)
Q Consensus 84 ~KC~~C~PC~aV 95 (125)
.||.+|+-|..+
T Consensus 7 ~~C~~Cg~C~~~ 18 (24)
T PF12837_consen 7 DKCIGCGDCVRV 18 (24)
T ss_pred hhCcChhHHHHh
Confidence 578899888754
No 10
>PRK10905 cell division protein DamX; Validated
Probab=31.10 E-value=52 Score=28.94 Aligned_cols=34 Identities=12% Similarity=0.251 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhhccccCCCCCccccccCCCCCcc
Q 033170 14 CFLILFMFFSTGYSLRMSSHHYISVSVDENGASR 47 (125)
Q Consensus 14 ~l~~~f~~~~~~~s~R~~p~~~~~~~~~ee~~S~ 47 (125)
.|||++||+.+|++|.-|-.|...-....|++.+
T Consensus 6 ilVLlLLIigIgSALkaP~~~~~~q~~~~eknId 39 (328)
T PRK10905 6 ILVLLLLIIGIGSALKAPSTSSSDQTASGEKSID 39 (328)
T ss_pred HHHHHHHHHHHhHhhcCCCCCcccccccccccee
Confidence 4788889999999999766444333334444443
No 11
>TIGR02803 ExbD_1 TonB system transport protein ExbD, group 1. Members of this family are Gram-negative bacterial inner membrane proteins, generally designated ExbD, related to the TolR family modeled by TIGRFAMs TIGR02801. Members always are encoded next to a protein designated ExbB (TIGR02797), related to the TolQ family modeled by TIGRFAMs TIGR02796. ExbD and ExbB together form a proton channel through which they can harness the proton-motive force to energize TonB, which in turn energizes TonB-dependent receptors in the outer membrane. TonB-dependent receptors with known specificity tend to import siderophores or vitamin B12. A TonB system and Tol-Pal system often will co-exist in a single bacterial genome.
Probab=29.98 E-value=40 Score=23.93 Aligned_cols=17 Identities=24% Similarity=0.342 Sum_probs=12.5
Q ss_pred hHHHHHHHHHHHHHhhc
Q 033170 10 RARICFLILFMFFSTGY 26 (125)
Q Consensus 10 ~~~~~l~~~f~~~~~~~ 26 (125)
-=+|+|++|||+.+...
T Consensus 11 DVvflLLiFFmvts~~~ 27 (122)
T TIGR02803 11 DVMLVLLIIFMVAAPLA 27 (122)
T ss_pred HHHHHHHHHHHHhhhcc
Confidence 35788889998877543
No 12
>PF06404 PSK: Phytosulfokine precursor protein (PSK); InterPro: IPR009438 This family consists of several plant specific phytosulfokine precursor proteins. Phytosulfokines, are active as either a pentapeptide or a C-terminally truncated tetrapeptide. These compounds were first isolated because of their ability to stimulate cell division in somatic embryo cultures of Asparagus officinalis [].; GO: 0008083 growth factor activity, 0008283 cell proliferation, 0005576 extracellular region
Probab=29.70 E-value=31 Score=24.22 Aligned_cols=22 Identities=14% Similarity=-0.004 Sum_probs=15.0
Q ss_pred HHHHHHHHHhhccccCCCCCcc
Q 033170 15 FLILFMFFSTGYSLRMSSHHYI 36 (125)
Q Consensus 15 l~~~f~~~~~~~s~R~~p~~~~ 36 (125)
|+|+++++++..|.|+-|....
T Consensus 2 LLL~~~~~~~~~AARp~p~~~~ 23 (81)
T PF06404_consen 2 LLLLCSSSTSAAAARPLPASQG 23 (81)
T ss_pred chHHHHHhhHhhhcCCCCCccc
Confidence 4555666677899998874433
No 13
>COG3266 DamX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.63 E-value=1.5e+02 Score=25.85 Aligned_cols=69 Identities=12% Similarity=0.199 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhhccccCCCCCccccccCCCCCcccCCCcCCCCCCC---CCCccccccCCcccCCCCCCCc
Q 033170 13 ICFLILFMFFSTGYSLRMSSHHYISVSVDENGASRFDDHAAHVNPEP---NKGRETEEVGTGVYPTGSSIPD 81 (125)
Q Consensus 13 ~~l~~~f~~~~~~~s~R~~p~~~~~~~~~ee~~S~~~~~~~~~~p~~---~~~~~~e~~~~~~~~iGS~PP~ 81 (125)
+.++++++++.++.++-.+-.-....+...|....|+++.....-|+ +--.+.....-.+-.||++|+.
T Consensus 16 ~~~vl~l~~i~i~sa~~~~~~s~~e~~~~~e~~~~~~~~~~a~~~qp~~g~~~~~~~~q~~~~p~i~~s~~~ 87 (292)
T COG3266 16 GILVLLLLIIGIGSALKAPSTSSSEAPASAEKSIDLNGATQANAQQPAPGPTSAENTSQDLSLPPISSTPTQ 87 (292)
T ss_pred HHHHHHHHHHHHHHHhcCccccccCCCcccccccccccCccccccCCCCCccccccCCCCCCCCccccCCCC
Confidence 34556666666677776663222223344444444554222211111 1111112233456678887764
No 14
>PF15284 PAGK: Phage-encoded virulence factor
Probab=25.72 E-value=64 Score=22.14 Aligned_cols=18 Identities=22% Similarity=0.576 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHhhccc
Q 033170 11 ARICFLILFMFFSTGYSL 28 (125)
Q Consensus 11 ~~~~l~~~f~~~~~~~s~ 28 (125)
+++.|+++|.|.++++|.
T Consensus 5 ksifL~l~~~LsA~~FSa 22 (61)
T PF15284_consen 5 KSIFLALVFILSAAGFSA 22 (61)
T ss_pred HHHHHHHHHHHHHhhhhH
Confidence 567778888887775543
No 15
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=25.61 E-value=52 Score=22.75 Aligned_cols=23 Identities=13% Similarity=0.131 Sum_probs=16.0
Q ss_pred cchhhHHHHHHHHHHHHHhhccc
Q 033170 6 FSPARARICFLILFMFFSTGYSL 28 (125)
Q Consensus 6 ~~~~~~~~~l~~~f~~~~~~~s~ 28 (125)
|++.|-++-+..+|.+.++..++
T Consensus 18 FtLi~M~lti~~~~Iv~si~~AI 40 (64)
T PF03579_consen 18 FTLIFMMLTIGFFFIVTSIMAAI 40 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 67777666677777777776654
No 16
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=25.59 E-value=33 Score=19.84 Aligned_cols=13 Identities=23% Similarity=0.677 Sum_probs=7.7
Q ss_pred eeeee-cCCcccCC
Q 033170 110 VYRCM-CRGKYYHV 122 (125)
Q Consensus 110 ~WkCk-Cg~k~f~~ 122 (125)
+|+|. ||..+|..
T Consensus 32 ~~~C~~CGE~~~~~ 45 (46)
T TIGR03831 32 ALVCPQCGEEYLDA 45 (46)
T ss_pred ccccccCCCEeeCC
Confidence 45664 67666653
No 17
>PF05207 zf-CSL: CSL zinc finger; InterPro: IPR007872 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. This entry represents a probable zinc binding motif that contains four cysteines and may chelate zinc, known as the DPH-type after the diphthamide (DPH) biosynthesis protein in which it was first characterised, including the proteins DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ IPR001623 from INTERPRO domain. Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death []. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the conserved motif of the final cysteine) zinc finger [, ]. The function of this motif is unknown. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2L6L_A 1WGE_A 2JR7_A 1YOP_A 1YWS_A.
Probab=25.39 E-value=34 Score=22.09 Aligned_cols=11 Identities=36% Similarity=1.162 Sum_probs=9.1
Q ss_pred ceeeeecCCcc
Q 033170 109 IVYRCMCRGKY 119 (125)
Q Consensus 109 ~~WkCkCg~k~ 119 (125)
..+.|+||+.+
T Consensus 17 ~~y~CRCG~~f 27 (55)
T PF05207_consen 17 YSYPCRCGGEF 27 (55)
T ss_dssp EEEEETTSSEE
T ss_pred EEEcCCCCCEE
Confidence 56889999984
No 18
>PRK11901 hypothetical protein; Reviewed
Probab=25.25 E-value=1e+02 Score=27.06 Aligned_cols=29 Identities=21% Similarity=0.414 Sum_probs=21.0
Q ss_pred chhhHHHH---HHHHHHHHHhhccccCCCCCc
Q 033170 7 SPARARIC---FLILFMFFSTGYSLRMSSHHY 35 (125)
Q Consensus 7 ~~~~~~~~---l~~~f~~~~~~~s~R~~p~~~ 35 (125)
|--|-||= |||++||+.+|++|--|-.|-
T Consensus 34 SRQh~MiGiGilVLlLLIi~IgSALksP~~~~ 65 (327)
T PRK11901 34 SRQHMMIGIGILVLLLLIIAIGSALKSPTEHE 65 (327)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhccCCCCCc
Confidence 44677764 788888888899998766443
No 19
>PF02472 ExbD: Biopolymer transport protein ExbD/TolR; InterPro: IPR003400 This group of proteins are membrane bound transport proteins essential for ferric ion uptake in bacteria []. The family consists of ExbD, and TolR which are involved in TonB-dependent transport of various receptor bound substrates including colicins [].; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2JWL_A 2JWK_A 2PFU_A.
Probab=23.83 E-value=26 Score=24.20 Aligned_cols=16 Identities=31% Similarity=0.322 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhhc
Q 033170 11 ARICFLILFMFFSTGY 26 (125)
Q Consensus 11 ~~~~l~~~f~~~~~~~ 26 (125)
-+|+|++|||+.+...
T Consensus 16 v~flLLiFfm~t~~~~ 31 (130)
T PF02472_consen 16 VVFLLLIFFMVTSSFS 31 (130)
T ss_dssp ----------------
T ss_pred HHHHHHHHHHHhhhcc
Confidence 4678888888855533
No 20
>PF12797 Fer4_2: 4Fe-4S binding domain; InterPro: IPR001450 This superfamily includes proteins containing domains which bind to iron-sulphur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Ferredoxins are iron-sulphur proteins that mediate electron transfer in a range of metabolic reactions; they fall into several subgroups according to the nature of their iron-sulphur cluster(s) [, ]. One group, originally found in bacteria, has been termed "bacterial-type", in which the active centre is a 4Fe-4S cluster. 4Fe-4S ferredoxins may in turn be subdivided into further groups, based on their sequence properties. Most contain at least one conserved domain, including four Cys residues that bind to a 4Fe-4S centre. ; GO: 0009055 electron carrier activity, 0051536 iron-sulfur cluster binding
Probab=22.20 E-value=32 Score=19.13 Aligned_cols=11 Identities=27% Similarity=0.682 Sum_probs=8.7
Q ss_pred CCCCCCccCcc
Q 033170 84 HACGPCFPCKR 94 (125)
Q Consensus 84 ~KC~~C~PC~a 94 (125)
+||.+|+-|+.
T Consensus 8 ~rCiGC~~C~~ 18 (22)
T PF12797_consen 8 ERCIGCGACEV 18 (22)
T ss_pred ccccCchhHHH
Confidence 68999988864
No 21
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=21.68 E-value=90 Score=24.88 Aligned_cols=22 Identities=9% Similarity=-0.046 Sum_probs=17.2
Q ss_pred cccchhhHHHHHHHHHHHHHhh
Q 033170 4 SIFSPARARICFLILFMFFSTG 25 (125)
Q Consensus 4 ~~~~~~~~~~~l~~~f~~~~~~ 25 (125)
|-|+..-.+++++|++++++++
T Consensus 73 sR~~i~e~fmP~alv~lv~~~v 94 (170)
T PF11241_consen 73 SRRNIGEFFMPVALVLLVLSFV 94 (170)
T ss_pred cccchHHHHHHHHHHHHHHHHH
Confidence 5577777888888888888877
No 22
>PF12800 Fer4_4: 4Fe-4S binding domain; InterPro: IPR001450 This superfamily includes proteins containing domains which bind to iron-sulphur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Ferredoxins are iron-sulphur proteins that mediate electron transfer in a range of metabolic reactions; they fall into several subgroups according to the nature of their iron-sulphur cluster(s) [, ]. One group, originally found in bacteria, has been termed "bacterial-type", in which the active centre is a 4Fe-4S cluster. 4Fe-4S ferredoxins may in turn be subdivided into further groups, based on their sequence properties. Most contain at least one conserved domain, including four Cys residues that bind to a 4Fe-4S centre. ; GO: 0009055 electron carrier activity, 0051536 iron-sulfur cluster binding; PDB: 1BD6_A 1BQX_A 1BWE_A 1BC6_A.
Probab=21.11 E-value=58 Score=16.49 Aligned_cols=11 Identities=27% Similarity=0.649 Sum_probs=7.7
Q ss_pred CCCCCCccCcc
Q 033170 84 HACGPCFPCKR 94 (125)
Q Consensus 84 ~KC~~C~PC~a 94 (125)
++|-+|+-|..
T Consensus 2 ~~C~~C~~C~~ 12 (17)
T PF12800_consen 2 ERCIGCGSCVD 12 (17)
T ss_dssp CCCTTSSSSTT
T ss_pred CcCCCCchHHh
Confidence 56777877764
No 23
>PF15240 Pro-rich: Proline-rich
Probab=20.97 E-value=57 Score=26.32 Aligned_cols=8 Identities=13% Similarity=0.090 Sum_probs=3.0
Q ss_pred HHHHHHHh
Q 033170 17 ILFMFFST 24 (125)
Q Consensus 17 ~~f~~~~~ 24 (125)
|+|.+++|
T Consensus 4 VLLSvALL 11 (179)
T PF15240_consen 4 VLLSVALL 11 (179)
T ss_pred HHHHHHHH
Confidence 33333333
Done!