Query 031501
Match_columns 158
No_of_seqs 129 out of 179
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 15:01:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031501.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031501hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04640 PLATZ: PLATZ transcri 100.0 1.5E-42 3.2E-47 246.3 5.8 72 5-76 1-72 (72)
2 PF12855 Ecl1: Life-span regul 92.3 0.027 5.8E-07 36.7 -0.8 30 52-81 5-37 (43)
3 PRK01343 zinc-binding protein; 91.2 0.079 1.7E-06 36.6 0.6 29 53-81 9-38 (57)
4 PRK00418 DNA gyrase inhibitor; 89.4 0.13 2.7E-06 36.1 0.3 29 53-81 6-39 (62)
5 COG3024 Uncharacterized protei 88.7 0.15 3.3E-06 36.1 0.3 29 53-81 7-40 (65)
6 PF03884 DUF329: Domain of unk 88.6 0.08 1.7E-06 36.4 -1.1 28 54-81 3-35 (57)
7 PF10013 DUF2256: Uncharacteri 82.2 0.46 1E-05 31.1 0.2 23 53-75 8-39 (42)
8 PF09889 DUF2116: Uncharacteri 76.6 0.77 1.7E-05 31.7 -0.1 29 54-82 4-32 (59)
9 PF06467 zf-FCS: MYM-type Zinc 70.8 1.1 2.5E-05 27.4 -0.3 25 51-75 4-40 (43)
10 PF13240 zinc_ribbon_2: zinc-r 70.3 2.1 4.5E-05 24.2 0.7 17 55-71 1-17 (23)
11 COG4338 Uncharacterized protei 69.4 0.45 9.7E-06 32.4 -2.6 24 52-75 11-43 (54)
12 PF13248 zf-ribbon_3: zinc-rib 62.3 4.2 9E-05 23.2 0.9 18 54-71 3-20 (26)
13 COG4068 Uncharacterized protei 61.9 2.7 5.8E-05 29.7 0.1 23 53-75 8-30 (64)
14 PF04570 DUF581: Protein of un 48.5 5.5 0.00012 27.5 -0.1 29 52-80 15-52 (58)
15 PF08002 DUF1697: Protein of u 44.2 13 0.00028 28.8 1.3 30 10-40 16-48 (137)
16 PF04438 zf-HIT: HIT zinc fing 43.8 8.2 0.00018 23.1 0.1 20 55-75 4-29 (30)
17 smart00746 TRASH metallochaper 35.5 21 0.00045 18.8 1.0 12 66-77 23-34 (39)
18 PF01286 XPA_N: XPA protein N- 30.7 21 0.00047 22.2 0.5 23 54-76 4-26 (34)
19 KOG3362 Predicted BBOX Zn-fing 30.5 30 0.00066 28.3 1.5 27 51-77 116-147 (156)
20 PF12773 DZR: Double zinc ribb 29.2 25 0.00054 22.0 0.7 11 54-64 13-23 (50)
21 TIGR00412 redox_disulf_2 small 27.7 91 0.002 21.0 3.3 33 11-44 32-66 (76)
22 PF06906 DUF1272: Protein of u 26.7 41 0.00088 23.4 1.4 24 54-77 6-32 (57)
23 KOG2857 Predicted MYND Zn-fing 24.7 26 0.00055 28.7 0.1 23 53-75 5-33 (157)
24 PRK00807 50S ribosomal protein 23.6 31 0.00066 23.0 0.3 23 54-76 2-36 (52)
25 PF04945 YHS: YHS domain; Int 22.5 23 0.0005 22.3 -0.5 12 66-77 24-35 (47)
26 COG0199 RpsN Ribosomal protein 21.3 57 0.0012 22.7 1.3 23 41-63 9-31 (61)
No 1
>PF04640 PLATZ: PLATZ transcription factor; InterPro: IPR006734 This family includes a conserved region in several uncharacterised plant proteins.
Probab=100.00 E-value=1.5e-42 Score=246.34 Aligned_cols=72 Identities=72% Similarity=1.223 Sum_probs=71.1
Q ss_pred EeecccceeecchhhhhhccCCceEEEECCceEEEecCCCCCCCCCCCCCccccccccccCCCeeeccccee
Q 031501 5 RRSSYHDVIRVSEIQKVLDISGVQTYVINSARVVFLNERPQPRPGKGVTNTCEVCDRSLLDSFRFCSLGCKI 76 (158)
Q Consensus 5 RRssY~dVVrv~diqkllDiS~IQtYvINsakVVFLn~RPq~r~~~g~~~~C~~C~R~L~d~~~FCSL~CKv 76 (158)
|||||||||||+|||||||||+||||+||+++|||||+|||+++.++.++.|++|+|+|+|+|+||||+|||
T Consensus 1 Rr~sY~dVVrv~di~kl~D~s~IQtY~iNs~kVVfLn~Rpq~~~~~~~~~~C~~C~R~L~d~~~fCSl~CKv 72 (72)
T PF04640_consen 1 RRYSYHDVVRVSDIQKLLDCSGIQTYVINSAKVVFLNPRPQSRPSKGSGNICETCHRSLQDPYRFCSLSCKV 72 (72)
T ss_pred CcccccceEEHHHhHhhccccccEEEEeCCceEEEEccCCcCCCCCCCCCccCCCCCCCCCCCeEEeeeEEC
Confidence 899999999999999999999999999999999999999999999999999999999999999999999996
No 2
>PF12855 Ecl1: Life-span regulatory factor; InterPro: IPR024368 The fungal proteins in this entry are involved in the regulation of chronological life-span [, ]. Overexpression of these proteins has been shown to extend the chronological life-span of wild-type strains. The mechanism by which this happens is not known, but microarray data suggests that they may function as pleiptropic stress regulators.
Probab=92.34 E-value=0.027 Score=36.72 Aligned_cols=30 Identities=30% Similarity=0.723 Sum_probs=25.1
Q ss_pred CCCccccccccc---cCCCeeecccceeeccch
Q 031501 52 VTNTCEVCDRSL---LDSFRFCSLGCKIVGTSK 81 (158)
Q Consensus 52 ~~~~C~~C~R~L---~d~~~FCSL~CKv~~~~~ 81 (158)
..+.|.+|++-+ .+...|||-+|++.+..+
T Consensus 5 F~~yC~~Cdk~~~~~~~~~lYCSe~Cr~~D~~~ 37 (43)
T PF12855_consen 5 FNDYCIVCDKQIDPPDDGSLYCSEECRLKDQEK 37 (43)
T ss_pred hhhHHHHhhccccCCCCCccccCHHHHhHhhhc
Confidence 347899999999 668999999999976554
No 3
>PRK01343 zinc-binding protein; Provisional
Probab=91.24 E-value=0.079 Score=36.59 Aligned_cols=29 Identities=24% Similarity=0.607 Sum_probs=23.7
Q ss_pred CCccccccccccCCC-eeecccceeeccch
Q 031501 53 TNTCEVCDRSLLDSF-RFCSLGCKIVGTSK 81 (158)
Q Consensus 53 ~~~C~~C~R~L~d~~-~FCSL~CKv~~~~~ 81 (158)
...|-+|++.....| -|||-.|+..+..+
T Consensus 9 ~~~CP~C~k~~~~~~rPFCS~RC~~iDLg~ 38 (57)
T PRK01343 9 TRPCPECGKPSTREAYPFCSERCRDIDLNR 38 (57)
T ss_pred CCcCCCCCCcCcCCCCcccCHHHhhhhHHH
Confidence 578999999877655 59999999876654
No 4
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=89.38 E-value=0.13 Score=36.11 Aligned_cols=29 Identities=31% Similarity=0.812 Sum_probs=23.0
Q ss_pred CCcccccccccc---C-CCe-eecccceeeccch
Q 031501 53 TNTCEVCDRSLL---D-SFR-FCSLGCKIVGTSK 81 (158)
Q Consensus 53 ~~~C~~C~R~L~---d-~~~-FCSL~CKv~~~~~ 81 (158)
+..|-+|++... + +|+ |||-.||+.+..+
T Consensus 6 ~v~CP~C~k~~~w~~~~~~rPFCS~RCk~IDLg~ 39 (62)
T PRK00418 6 TVNCPTCGKPVEWGEISPFRPFCSKRCQLIDLGE 39 (62)
T ss_pred cccCCCCCCcccccCCCCcCCcccHHHHhhhHHH
Confidence 468999999874 3 675 9999999976655
No 5
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=88.68 E-value=0.15 Score=36.14 Aligned_cols=29 Identities=34% Similarity=0.864 Sum_probs=23.5
Q ss_pred CCccccccccccC----CCe-eecccceeeccch
Q 031501 53 TNTCEVCDRSLLD----SFR-FCSLGCKIVGTSK 81 (158)
Q Consensus 53 ~~~C~~C~R~L~d----~~~-FCSL~CKv~~~~~ 81 (158)
+-.|-+|++...- +|+ |||-.||+-+...
T Consensus 7 ~v~CP~Cgkpv~w~~~s~frPFCSkRCklIDLg~ 40 (65)
T COG3024 7 TVPCPTCGKPVVWGEESPFRPFCSKRCKLIDLGE 40 (65)
T ss_pred cccCCCCCCcccccccCCcCcchhHhhhhcchhh
Confidence 4679999988874 666 9999999976655
No 6
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=88.58 E-value=0.08 Score=36.42 Aligned_cols=28 Identities=32% Similarity=0.857 Sum_probs=17.4
Q ss_pred CccccccccccC----CCe-eecccceeeccch
Q 031501 54 NTCEVCDRSLLD----SFR-FCSLGCKIVGTSK 81 (158)
Q Consensus 54 ~~C~~C~R~L~d----~~~-FCSL~CKv~~~~~ 81 (158)
..|-+|++...- +|+ |||-.||+.+...
T Consensus 3 v~CP~C~k~~~~~~~n~~rPFCS~RCk~iDLg~ 35 (57)
T PF03884_consen 3 VKCPICGKPVEWSPENPFRPFCSERCKLIDLGR 35 (57)
T ss_dssp EE-TTT--EEE-SSSSS--SSSSHHHHHHHHS-
T ss_pred ccCCCCCCeecccCCCCcCCcccHhhcccCHHH
Confidence 469999988875 677 9999999876554
No 7
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=82.19 E-value=0.46 Score=31.10 Aligned_cols=23 Identities=35% Similarity=1.002 Sum_probs=20.1
Q ss_pred CCcccccccccc---------CCCeeecccce
Q 031501 53 TNTCEVCDRSLL---------DSFRFCSLGCK 75 (158)
Q Consensus 53 ~~~C~~C~R~L~---------d~~~FCSL~CK 75 (158)
..+|.+|+|... |...|||-.|.
T Consensus 8 ~K~C~~C~rpf~WRKKW~~~Wd~VkYCS~rCR 39 (42)
T PF10013_consen 8 SKICPVCGRPFTWRKKWARCWDEVKYCSDRCR 39 (42)
T ss_pred CCcCcccCCcchHHHHHHHhchhhccHHHHhc
Confidence 578999999987 57899999996
No 8
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=76.59 E-value=0.77 Score=31.73 Aligned_cols=29 Identities=24% Similarity=0.598 Sum_probs=24.6
Q ss_pred CccccccccccCCCeeecccceeeccchh
Q 031501 54 NTCEVCDRSLLDSFRFCSLGCKIVGTSKN 82 (158)
Q Consensus 54 ~~C~~C~R~L~d~~~FCSL~CKv~~~~~~ 82 (158)
.+|..||.++...-.|||=.|+-....+.
T Consensus 4 kHC~~CG~~Ip~~~~fCS~~C~~~~~k~q 32 (59)
T PF09889_consen 4 KHCPVCGKPIPPDESFCSPKCREEYRKRQ 32 (59)
T ss_pred CcCCcCCCcCCcchhhhCHHHHHHHHHHH
Confidence 68999999999999999999997655543
No 9
>PF06467 zf-FCS: MYM-type Zinc finger with FCS sequence motif; InterPro: IPR010507 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. MYM-type zinc fingers were identified in MYM family proteins []. Human protein Q14202 from SWISSPROT is involved in a chromosomal translocation and may be responsible for X-linked retardation in XQ13.1 []. Q9UBW7 from SWISSPROT is also involved in disease. In myeloproliferative disorders it is fused to FGF receptor 1 []; in atypical myeloproliferative disorders it is rearranged []. Members of the family generally are involved in development. This Zn-finger domain functions as a transcriptional trans-activator of late vaccinia viral genes, and orthologues are also found in all nucleocytoplasmic large DNA viruses, NCLDV. This domain is also found fused to the C termini of recombinases from certain prokaryotic transposons []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2L8E_A 2DAS_A.
Probab=70.82 E-value=1.1 Score=27.38 Aligned_cols=25 Identities=28% Similarity=0.669 Sum_probs=15.5
Q ss_pred CCCCccccccccccC-C-----------Ceeecccce
Q 031501 51 GVTNTCEVCDRSLLD-S-----------FRFCSLGCK 75 (158)
Q Consensus 51 g~~~~C~~C~R~L~d-~-----------~~FCSL~CK 75 (158)
.....|..|++.+.. + ..|||..|.
T Consensus 4 ~~~~~C~~C~~~~~~~~~~~~~~~~g~~~~FCS~~C~ 40 (43)
T PF06467_consen 4 LKMKTCSYCKKYIPNKPTMIEVQYDGKMKQFCSQSCL 40 (43)
T ss_dssp -SCEE-TTT--EEECCC----EE-TTTTSCCSSHHHH
T ss_pred CcCCcCcccCCcccCCCccccccccCcccChhCHHHH
Confidence 346789999877754 3 379999985
No 10
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=70.26 E-value=2.1 Score=24.20 Aligned_cols=17 Identities=29% Similarity=0.835 Sum_probs=14.5
Q ss_pred ccccccccccCCCeeec
Q 031501 55 TCEVCDRSLLDSFRFCS 71 (158)
Q Consensus 55 ~C~~C~R~L~d~~~FCS 71 (158)
.|..|+..|.+...||+
T Consensus 1 ~Cp~CG~~~~~~~~fC~ 17 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCP 17 (23)
T ss_pred CCcccCCCCCCcCcchh
Confidence 37889999999889986
No 11
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=69.40 E-value=0.45 Score=32.45 Aligned_cols=24 Identities=33% Similarity=0.931 Sum_probs=20.8
Q ss_pred CCCcccccccccc---------CCCeeecccce
Q 031501 52 VTNTCEVCDRSLL---------DSFRFCSLGCK 75 (158)
Q Consensus 52 ~~~~C~~C~R~L~---------d~~~FCSL~CK 75 (158)
.+.+|.+|+|... |...|||-.|+
T Consensus 11 p~KICpvCqRPFsWRkKW~~cWDeVKyCSeRCr 43 (54)
T COG4338 11 PDKICPVCQRPFSWRKKWARCWDEVKYCSERCR 43 (54)
T ss_pred chhhhhhhcCchHHHHHHHHHHHHHHHHHHHHH
Confidence 4689999999887 56889999998
No 12
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=62.34 E-value=4.2 Score=23.22 Aligned_cols=18 Identities=22% Similarity=0.621 Sum_probs=15.2
Q ss_pred CccccccccccCCCeeec
Q 031501 54 NTCEVCDRSLLDSFRFCS 71 (158)
Q Consensus 54 ~~C~~C~R~L~d~~~FCS 71 (158)
..|..|+..+.+.++||+
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~ 20 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCP 20 (26)
T ss_pred CCCcccCCcCCcccccCh
Confidence 578899998888899986
No 13
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=61.90 E-value=2.7 Score=29.68 Aligned_cols=23 Identities=26% Similarity=0.676 Sum_probs=21.2
Q ss_pred CCccccccccccCCCeeecccce
Q 031501 53 TNTCEVCDRSLLDSFRFCSLGCK 75 (158)
Q Consensus 53 ~~~C~~C~R~L~d~~~FCSL~CK 75 (158)
..+|.+|+..+...-.|||-.|.
T Consensus 8 H~HC~VCg~aIp~de~~CSe~C~ 30 (64)
T COG4068 8 HRHCVVCGKAIPPDEQVCSEECG 30 (64)
T ss_pred CccccccCCcCCCccchHHHHHH
Confidence 46899999999999999999997
No 14
>PF04570 DUF581: Protein of unknown function (DUF581); InterPro: IPR007650 This is a family of uncharacterised proteins.
Probab=48.45 E-value=5.5 Score=27.46 Aligned_cols=29 Identities=31% Similarity=0.689 Sum_probs=21.6
Q ss_pred CCCcccccccccc---CC--Ce----eecccceeeccc
Q 031501 52 VTNTCEVCDRSLL---DS--FR----FCSLGCKIVGTS 80 (158)
Q Consensus 52 ~~~~C~~C~R~L~---d~--~~----FCSL~CKv~~~~ 80 (158)
.-..|..|++.|. |- |+ |||..|--.-|.
T Consensus 15 FL~~C~~C~k~L~~~~DiymYrGd~aFCS~ECR~~qi~ 52 (58)
T PF04570_consen 15 FLSFCYLCKKKLDPGKDIYMYRGDKAFCSEECRSQQIL 52 (58)
T ss_pred HHHHHHccCCCCCCCCCeeeeccccccccHHHHHHHHH
Confidence 4568999999999 32 44 999999765443
No 15
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=44.21 E-value=13 Score=28.78 Aligned_cols=30 Identities=37% Similarity=0.674 Sum_probs=20.7
Q ss_pred cceeecchhhhh---hccCCceEEEECCceEEEe
Q 031501 10 HDVIRVSEIQKV---LDISGVQTYVINSARVVFL 40 (158)
Q Consensus 10 ~dVVrv~diqkl---lDiS~IQtYvINsakVVFL 40 (158)
++-|+..|+... +-..+|+|| |||.-|||-
T Consensus 16 ~nki~MaeLr~~l~~~Gf~~V~Ty-i~SGNvvf~ 48 (137)
T PF08002_consen 16 KNKIKMAELREALEDLGFTNVRTY-IQSGNVVFE 48 (137)
T ss_dssp BS---HHHHHHHHHHCT-EEEEEE-TTTTEEEEE
T ss_pred CCcccHHHHHHHHHHcCCCCceEE-EeeCCEEEe
Confidence 455777777664 568899999 788899997
No 16
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=43.83 E-value=8.2 Score=23.07 Aligned_cols=20 Identities=40% Similarity=0.969 Sum_probs=12.0
Q ss_pred ccccccccccC------CCeeecccce
Q 031501 55 TCEVCDRSLLD------SFRFCSLGCK 75 (158)
Q Consensus 55 ~C~~C~R~L~d------~~~FCSL~CK 75 (158)
.|.+|+. ... ...||||.|.
T Consensus 4 ~C~vC~~-~~kY~Cp~C~~~~CSl~C~ 29 (30)
T PF04438_consen 4 LCSVCGN-PAKYRCPRCGARYCSLACY 29 (30)
T ss_dssp EETSSSS-EESEE-TTT--EESSHHHH
T ss_pred CCccCcC-CCEEECCCcCCceeCcEeE
Confidence 4666666 221 4679999984
No 17
>smart00746 TRASH metallochaperone-like domain.
Probab=35.55 E-value=21 Score=18.84 Aligned_cols=12 Identities=42% Similarity=0.766 Sum_probs=8.9
Q ss_pred CCeeecccceee
Q 031501 66 SFRFCSLGCKIV 77 (158)
Q Consensus 66 ~~~FCSL~CKv~ 77 (158)
.+.|||..|...
T Consensus 23 ~~~FCs~~c~~~ 34 (39)
T smart00746 23 VFYFCSSKCLSK 34 (39)
T ss_pred EEEEeCHHHHHH
Confidence 468999888653
No 18
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=30.75 E-value=21 Score=22.18 Aligned_cols=23 Identities=17% Similarity=0.652 Sum_probs=14.3
Q ss_pred CccccccccccCCCeeeccccee
Q 031501 54 NTCEVCDRSLLDSFRFCSLGCKI 76 (158)
Q Consensus 54 ~~C~~C~R~L~d~~~FCSL~CKv 76 (158)
..|..|+..++|+|.+=...+.|
T Consensus 4 ~~C~eC~~~f~dSyL~~~F~~~V 26 (34)
T PF01286_consen 4 PKCDECGKPFMDSYLLNNFDLPV 26 (34)
T ss_dssp EE-TTT--EES-SSCCCCTS-S-
T ss_pred chHhHhCCHHHHHHHHHhCCccc
Confidence 57999999999999887777665
No 19
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=30.47 E-value=30 Score=28.28 Aligned_cols=27 Identities=22% Similarity=0.551 Sum_probs=18.4
Q ss_pred CCCCccccccccccC-----CCeeecccceee
Q 031501 51 GVTNTCEVCDRSLLD-----SFRFCSLGCKIV 77 (158)
Q Consensus 51 g~~~~C~~C~R~L~d-----~~~FCSL~CKv~ 77 (158)
..-..|.+||-.-.- +.+|||++|-..
T Consensus 116 P~r~fCaVCG~~S~ysC~~CG~kyCsv~C~~~ 147 (156)
T KOG3362|consen 116 PLRKFCAVCGYDSKYSCVNCGTKYCSVRCLKT 147 (156)
T ss_pred CcchhhhhcCCCchhHHHhcCCceeechhhhh
Confidence 445788888832221 578999999753
No 20
>PF12773 DZR: Double zinc ribbon
Probab=29.16 E-value=25 Score=22.02 Aligned_cols=11 Identities=27% Similarity=0.640 Sum_probs=5.2
Q ss_pred Ccccccccccc
Q 031501 54 NTCEVCDRSLL 64 (158)
Q Consensus 54 ~~C~~C~R~L~ 64 (158)
..|..|+..|.
T Consensus 13 ~fC~~CG~~l~ 23 (50)
T PF12773_consen 13 KFCPHCGTPLP 23 (50)
T ss_pred cCChhhcCChh
Confidence 44444444444
No 21
>TIGR00412 redox_disulf_2 small redox-active disulfide protein 2. This small protein is found in three archaeal species so far (Methanococcus jannaschii, Archeoglobus fulgidus, and Methanobacterium thermoautotrophicum) as well as in Anabaena PCC7120. It is homologous to thioredoxins, glutaredoxins, and protein disulfide isomerases, and shares with them a redox-active disulfide. The redox active disulfide region CXXC motif resembles neither thioredoxin nor glutaredoxin. A closely related protein found in the same three Archaea, described by redox_disulf_1, has a glutaredoxin-like CP[YH]C sequence; it has been characterized in functional assays as redox-active but unlikely to be a thioredoxin or glutaredoxin.
Probab=27.71 E-value=91 Score=21.01 Aligned_cols=33 Identities=9% Similarity=0.376 Sum_probs=22.5
Q ss_pred ceeecchhhhh--hccCCceEEEECCceEEEecCCC
Q 031501 11 DVIRVSEIQKV--LDISGVQTYVINSARVVFLNERP 44 (158)
Q Consensus 11 dVVrv~diqkl--lDiS~IQtYvINsakVVFLn~RP 44 (158)
.+++++|++.. +++-+|-|..+||..+ |....|
T Consensus 32 ~~~~v~~~~~a~~~~v~~vPti~i~G~~~-~~G~~~ 66 (76)
T TIGR00412 32 EFEKVTDMNEILEAGVTATPGVAVDGELV-IMGKIP 66 (76)
T ss_pred EEEEeCCHHHHHHcCCCcCCEEEECCEEE-EEeccC
Confidence 35666655554 7899999999988655 555433
No 22
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=26.72 E-value=41 Score=23.38 Aligned_cols=24 Identities=33% Similarity=0.829 Sum_probs=20.0
Q ss_pred CccccccccccC---CCeeecccceee
Q 031501 54 NTCEVCDRSLLD---SFRFCSLGCKIV 77 (158)
Q Consensus 54 ~~C~~C~R~L~d---~~~FCSL~CKv~ 77 (158)
..|+.|++.|.. ...-||..|-+=
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC 32 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFC 32 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCccc
Confidence 579999999985 378999999873
No 23
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=24.73 E-value=26 Score=28.69 Aligned_cols=23 Identities=43% Similarity=0.863 Sum_probs=15.5
Q ss_pred CCccccccccccC------CCeeecccce
Q 031501 53 TNTCEVCDRSLLD------SFRFCSLGCK 75 (158)
Q Consensus 53 ~~~C~~C~R~L~d------~~~FCSL~CK 75 (158)
+-+|.+|.+.-.- .+-||||.|-
T Consensus 5 t~tC~ic~e~~~KYKCpkC~vPYCSl~Cf 33 (157)
T KOG2857|consen 5 TTTCVICLESEIKYKCPKCSVPYCSLPCF 33 (157)
T ss_pred eeeehhhhcchhhccCCCCCCccccchhh
Confidence 4466777665421 5789999995
No 24
>PRK00807 50S ribosomal protein L24e; Validated
Probab=23.57 E-value=31 Score=22.95 Aligned_cols=23 Identities=35% Similarity=0.873 Sum_probs=16.9
Q ss_pred Ccccccccccc----------C--CCeeeccccee
Q 031501 54 NTCEVCDRSLL----------D--SFRFCSLGCKI 76 (158)
Q Consensus 54 ~~C~~C~R~L~----------d--~~~FCSL~CKv 76 (158)
+.|..|+..+. | .|.|||=.|+-
T Consensus 2 ~~C~fcG~~I~pg~G~~~vr~Dgkv~~Fcs~KC~~ 36 (52)
T PRK00807 2 RTCSFCGKEIEPGTGKMYVKKDGTILYFCSSKCEK 36 (52)
T ss_pred cccCCCCCeEcCCCCeEEEEeCCcEEEEeCHHHHH
Confidence 46777876665 3 48899999974
No 25
>PF04945 YHS: YHS domain; InterPro: IPR007029 This short presumed domain is about 50 amino acid residues long. It often contains two cysteines that may be functionally important. This domain is found in copper transporting ATPases, some phenol hydroxylases and in a set of uncharacterised membrane proteins including Q9CNI0 from SWISSPROT. This domain is named after three of the most conserved amino acids it contains. The domain may be metal binding, possibly copper ions. This domain is duplicated in some copper transporting ATPases.; PDB: 3U52_B 2INN_A 2INP_B 1T0Q_A 2RDB_A 1T0R_A 2IND_A 1T0S_A 2INC_A 3DHI_A ....
Probab=22.48 E-value=23 Score=22.28 Aligned_cols=12 Identities=50% Similarity=1.099 Sum_probs=10.1
Q ss_pred CCeeecccceee
Q 031501 66 SFRFCSLGCKIV 77 (158)
Q Consensus 66 ~~~FCSL~CKv~ 77 (158)
.|.|||-+|+-.
T Consensus 24 ~Y~FCS~~C~~~ 35 (47)
T PF04945_consen 24 TYYFCSEGCKEK 35 (47)
T ss_dssp EEEESSHHHHHH
T ss_pred EEEEcCHHHHHH
Confidence 489999999854
No 26
>COG0199 RpsN Ribosomal protein S14 [Translation, ribosomal structure and biogenesis]
Probab=21.34 E-value=57 Score=22.73 Aligned_cols=23 Identities=26% Similarity=0.569 Sum_probs=14.5
Q ss_pred cCCCCCCCCCCCCCccccccccc
Q 031501 41 NERPQPRPGKGVTNTCEVCDRSL 63 (158)
Q Consensus 41 n~RPq~r~~~g~~~~C~~C~R~L 63 (158)
+.-|.++...-..|.|+.|+|.-
T Consensus 9 ~~~p~~~~~~r~~nRC~~cGRpr 31 (61)
T COG0199 9 KALPRPKSPGRGRNRCRRCGRPR 31 (61)
T ss_pred hcCCCCCccccccccccccCCCc
Confidence 33444444334579999999753
Done!