Query 014282
Match_columns 427
No_of_seqs 127 out of 215
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 03:37:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014282.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014282hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1308 Hsp70-interacting prot 100.0 2.3E-37 5E-42 306.9 -0.5 322 61-424 50-377 (377)
2 KOG0548 Molecular co-chaperone 98.8 1.3E-08 2.9E-13 106.8 8.4 75 344-419 453-533 (539)
3 smart00727 STI1 Heat shock cha 98.5 1.1E-07 2.3E-12 67.6 4.1 40 374-413 1-41 (41)
4 smart00727 STI1 Heat shock cha 97.0 0.00056 1.2E-08 48.6 2.8 38 281-322 3-41 (41)
5 KOG0010 Ubiquitin-like protein 94.1 0.089 1.9E-06 56.2 5.9 72 274-398 329-401 (493)
6 KOG0010 Ubiquitin-like protein 93.3 0.14 3.1E-06 54.7 5.8 89 278-416 155-248 (493)
7 KOG3037 Cell membrane glycopro 92.9 0.28 6.2E-06 50.2 6.9 56 274-329 226-281 (330)
8 KOG0548 Molecular co-chaperone 91.3 0.51 1.1E-05 51.1 6.9 74 345-418 98-180 (539)
9 PRK00523 hypothetical protein; 89.8 0.9 2E-05 37.8 5.6 40 102-141 5-55 (72)
10 PRK01844 hypothetical protein; 89.7 0.94 2E-05 37.7 5.6 41 101-141 3-54 (72)
11 PF03672 UPF0154: Uncharacteri 80.4 5 0.00011 32.7 5.5 38 104-141 2-47 (64)
12 COG3763 Uncharacterized protei 67.8 15 0.00033 30.7 5.5 22 119-140 26-53 (71)
13 KOG0011 Nucleotide excision re 60.3 47 0.001 34.8 8.5 40 280-323 214-258 (340)
14 PF09280 XPC-binding: XPC-bind 53.2 21 0.00045 28.3 3.7 9 395-403 44-52 (59)
15 PF09280 XPC-binding: XPC-bind 51.5 14 0.00031 29.3 2.6 32 283-331 2-33 (59)
16 KOG1924 RhoA GTPase effector D 51.0 31 0.00067 40.0 5.9 13 212-224 627-639 (1102)
17 PF13829 DUF4191: Domain of un 50.2 27 0.00058 34.5 4.8 21 98-118 49-69 (224)
18 PF08370 PDR_assoc: Plant PDR 49.7 7.1 0.00015 31.7 0.7 15 99-113 25-39 (65)
19 KOG1308 Hsp70-interacting prot 49.3 4.9 0.00011 42.1 -0.4 44 370-414 281-335 (377)
20 PRK10878 hypothetical protein; 49.1 36 0.00078 28.1 4.6 31 365-395 24-62 (72)
21 PF06757 Ins_allergen_rp: Inse 48.6 1.5E+02 0.0033 27.2 9.2 127 285-418 28-167 (179)
22 PF07319 DnaI_N: Primosomal pr 43.0 16 0.00034 30.7 1.7 16 366-381 23-38 (94)
23 PF11212 DUF2999: Protein of u 40.1 76 0.0016 27.1 5.3 54 339-403 4-63 (82)
24 smart00845 GatB_Yqey GatB doma 39.6 2.1E+02 0.0046 25.5 8.4 77 341-422 49-132 (147)
25 PLN03094 Substrate binding sub 37.6 1.2E+02 0.0025 32.0 7.3 103 311-421 261-367 (370)
26 TIGR00601 rad23 UV excision re 37.1 2.1E+02 0.0045 30.2 9.0 20 276-297 150-169 (378)
27 PF04078 Rcd1: Cell differenti 36.0 15 0.00032 37.0 0.6 48 283-330 214-261 (262)
28 PF08173 YbgT_YccB: Membrane b 35.0 52 0.0011 23.2 3.0 17 103-120 5-21 (28)
29 TIGR00601 rad23 UV excision re 34.5 56 0.0012 34.2 4.5 48 281-332 247-303 (378)
30 PF07849 DUF1641: Protein of u 32.0 37 0.00081 25.1 2.0 13 378-390 17-29 (42)
31 PRK05686 fliG flagellar motor 31.4 3.5E+02 0.0076 27.4 9.4 27 277-303 120-148 (339)
32 PRK11677 hypothetical protein; 31.4 49 0.0011 30.2 3.1 21 102-122 3-23 (134)
33 KOG2366 Alpha-D-galactosidase 31.3 81 0.0017 33.9 5.0 51 307-357 228-278 (414)
34 PF06305 DUF1049: Protein of u 30.1 1.7E+02 0.0037 22.3 5.5 35 100-134 18-53 (68)
35 PF04286 DUF445: Protein of un 29.9 2.8E+02 0.0062 26.8 8.2 16 277-292 55-70 (367)
36 PF13807 GNVR: G-rich domain o 28.6 1E+02 0.0023 24.8 4.3 24 101-124 58-81 (82)
37 cd01067 globin_like superfamil 28.4 1.4E+02 0.0031 24.9 5.2 54 366-419 5-70 (117)
38 COG2427 Uncharacterized conser 27.8 52 0.0011 29.9 2.6 39 307-345 58-97 (148)
39 cd07922 CarBa CarBa is the A s 26.6 72 0.0016 27.0 3.1 24 385-408 5-28 (81)
40 cd06199 SiR Cytochrome p450- l 26.4 54 0.0012 33.1 2.7 25 99-123 213-237 (360)
41 PF05957 DUF883: Bacterial pro 25.9 58 0.0013 26.9 2.4 21 100-120 72-92 (94)
42 PF05819 NolX: NolX protein; 24.1 2.4E+02 0.0052 31.6 7.1 81 309-399 410-502 (624)
43 KOG3341 RNA polymerase II tran 23.4 65 0.0014 32.4 2.6 23 311-333 55-77 (249)
44 PF04286 DUF445: Protein of un 22.8 2.7E+02 0.0058 26.9 6.6 43 280-329 129-171 (367)
45 TIGR02105 III_needle type III 21.2 2.3E+02 0.005 23.5 5.0 50 367-419 20-71 (72)
46 TIGR00207 fliG flagellar motor 21.2 9E+02 0.02 24.8 11.3 135 277-413 118-279 (338)
47 PF11563 Protoglobin: Protoglo 21.1 1.1E+02 0.0024 26.3 3.3 30 366-395 39-68 (158)
48 PHA00736 hypothetical protein 20.8 76 0.0016 26.8 2.1 17 101-118 56-72 (79)
49 PRK10132 hypothetical protein; 20.6 92 0.002 27.4 2.7 22 100-121 85-106 (108)
50 PF07301 DUF1453: Protein of u 20.4 1E+02 0.0023 28.7 3.1 23 98-120 53-75 (148)
51 PF04558 tRNA_synt_1c_R1: Glut 20.2 2.9E+02 0.0063 25.8 6.0 61 350-422 3-63 (164)
No 1
>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=100.00 E-value=2.3e-37 Score=306.89 Aligned_cols=322 Identities=27% Similarity=0.293 Sum_probs=231.2
Q ss_pred CCCcccccceeeecCCCccccccccCCCCCCCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 014282 61 NGQVGAGGFASLTSSGGQQTSSVGVNPNLPMPPPSSNVGSPLFWVGVGVGLSALFSFVASRLKQYAMQQALKGMMNQMNT 140 (427)
Q Consensus 61 ~~~~~~~~fas~~s~~~~~~~s~~~~~~~~~pp~~s~iGsPl~wiGvGVgLsalfs~va~~vK~yaMqqa~KsMm~qm~~ 140 (427)
..+-+++.|++|+++..- ++-..-+++++|-.+.++.++||++++|++..+++.|-...++|.+++=+|.=--++.
T Consensus 50 ~~~e~~k~e~~~~~~~ee---~~~~~e~s~~~~~~~~d~egviepd~d~pq~MGds~~e~Tee~~eqa~e~k~~A~eAl- 125 (377)
T KOG1308|consen 50 KSEENTKAEASISKSVEE---SLKAPEVSSPESDLEIDGEGVIEPDTDAPQEMGDSNAEITEEMMDQANDKKVQASEAL- 125 (377)
T ss_pred cccccccccCCccccccc---ccccCCCCCCCcchhccCCCccccCCCcchhhchhhhhhhHHHHHHHHHHHHHHHHHh-
Confidence 366789999999887443 7777777775555568999999999999999999999999999999984444333333
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccCCccccccccccccccccccCcccccc---CCcccccc
Q 014282 141 QNKPFGNAAFPQGSPFPFPNPPASGPTTPYPAASQPRFTMDIPATKVEAATATDVEGKKEVKGETEVKE---EPKKYAFV 217 (427)
Q Consensus 141 ~~~~fg~~~f~~gspFpfp~pp~~~p~~~~~~~s~~~~tvd~~at~v~a~~~~~~~~~~e~~~~~e~~~---~~kk~afv 217 (427)
+..| | ...-..+ +.+++...++.--.+--.+. -.+.++ +-+.++|-
T Consensus 126 ------n~G~-------~-----~~ai~~~----t~ai~lnp~~a~l~~kr~sv---------~lkl~kp~~airD~d~A 174 (377)
T KOG1308|consen 126 ------NDGE-------F-----DTAIELF----TSAIELNPPLAILYAKRASV---------FLKLKKPNAAIRDCDFA 174 (377)
T ss_pred ------cCcc-------h-----hhhhccc----ccccccCCchhhhcccccce---------eeeccCCchhhhhhhhh
Confidence 3322 0 0000000 01111111111111100110 112333 34678888
Q ss_pred cCCchhhhhcccccccccccccCCCCCCCCC-CCCCCCCCCCCCCCCCC--CCCCccccCccccHHHHHHhhcCHHHHHh
Q 014282 218 DVSPEETLQKSSFDNFEDVKETSSSKDAQPP-KDSQNGAAFNYNAGSPF--GGQSAKKEGRFLTVDTLEKLMEDPQVQKM 294 (427)
Q Consensus 218 DV~~~e~~~~~~~~~~~~~~~~ss~k~~~~~-~~~~~g~~~~~g~g~~~--~~~~~~~~~~~~~~~~l~~Mm~nPq~QqM 294 (427)
+....++-+..+|......-.+...+.+.-- .+.+++..-..++-... -..-....++.......++++.++.++++
T Consensus 175 ~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl~~a~kld~dE~~~a~lKeV~p~a~ki~e~~~k~er~~~e~~~~~r~er~ 254 (377)
T KOG1308|consen 175 IEINPDSAKGYKFRGYAERLLGNWEEAAHDLALACKLDYDEANSATLKEVFPNAGKIEEHRRKYERAREEREIKERVERV 254 (377)
T ss_pred hccCcccccccchhhHHHHHhhchHHHHHHHHHHHhccccHHHHHHHHHhccchhhhhhchhHHHHHHHHhccccccccc
Confidence 8888888887787766655555544322211 12211111100000000 00112334556779999999999999999
Q ss_pred hcCCCccccCCHHHHHHHhhChHHHHHHHHHHHhccCCCCCchhHhhhhhcCCCChHHHHHHHHhcCCChHHHHHHhcCC
Q 014282 295 VYPSLPEEMRNPASFKLMLQNPEYRKQLQEMLDGMCESGEFDGRVLDSLKNFDLNSAEVKQQFEQIGLTPEEVITKMMAN 374 (427)
Q Consensus 295 ~ypyLPe~MRNp~tfk~MlqNPq~rqqL~~Ml~~mgg~g~~~~~m~d~l~e~D~Nn~Ev~q~f~~~G~tpEE~~skaM~D 374 (427)
+|+|+|++|+|+++++|+++|++||+++.+|.+.|+|+..|+-+|.+.|++.+.|.. +.+++.+.| +.+||.|
T Consensus 255 r~~r~~~e~~~~e~~k~~~~~~~~~~~~g~~p~~M~g~~~~~~~m~~~m~~~~~n~~-~~~~p~~~g------i~ki~~d 327 (377)
T KOG1308|consen 255 RYAREPEEMANPEEFKRMLKNPQYRQFLGGFPGGMPGSFPGDKRMTDGMKGFDGNSP-VKQQPNQIG------ISKILSD 327 (377)
T ss_pred ccccchhhhcChhhhhhhhccCCCCcccCCCcccCCCCCCCccccccccccCCCCCc-cccCCCccc------HhhhcCc
Confidence 999999999999999999999999999999999999999899999999999999999 777777777 8999999
Q ss_pred HHHHhhcCCHHHHHHHHHHhhChHHHHHhhcCHHHHHHHHHHHHHCCCCC
Q 014282 375 PEIALGFQSPRVQAAIMECSQNPMNIIKYQNDKEVMSVITKIAELFPGVT 424 (427)
Q Consensus 375 PEI~aamQDPeV~aALqDI~sNPaai~KYmsNPkVm~~IqKL~a~FgG~~ 424 (427)
|||+++||||+|+++|+||++||+|++||++|||||++|.||+.+|+|+.
T Consensus 328 pev~aAfqdp~v~aal~d~~~np~n~~kyq~n~kv~~~i~kl~~kf~g~~ 377 (377)
T KOG1308|consen 328 PEVAAAFQDPEVQAALMDVSQNPANMMKYQNNPKVMDVISKLSQKFPGMT 377 (377)
T ss_pred hHHHHhhcChHHHhhhhhcccChHHHHHhccChHHHHHHHHHHhhcCCCC
Confidence 99999999999999999999999999999999999999999999999974
No 2
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=1.3e-08 Score=106.80 Aligned_cols=75 Identities=25% Similarity=0.377 Sum_probs=68.7
Q ss_pred hcCCCChHHHHHHH-----H-hcCCChHHHHHHhcCCHHHHhhcCCHHHHHHHHHHhhChHHHHHhhcCHHHHHHHHHHH
Q 014282 344 KNFDLNSAEVKQQF-----E-QIGLTPEEVITKMMANPEIALGFQSPRVQAAIMECSQNPMNIIKYQNDKEVMSVITKIA 417 (427)
Q Consensus 344 ~e~D~Nn~Ev~q~f-----~-~~G~tpEE~~skaM~DPEI~aamQDPeV~aALqDI~sNPaai~KYmsNPkVm~~IqKL~ 417 (427)
.++|+++.|+.+++ . +...+++++.+++|.||||++||+||.++.+|.++++|| +.++|+.||.|+++|+||+
T Consensus 453 le~dp~~~e~~~~~~rc~~a~~~~~~~ee~~~r~~~dpev~~il~d~~m~~~l~q~q~~p-a~~~~~~n~~v~~ki~~l~ 531 (539)
T KOG0548|consen 453 LELDPSNAEAIDGYRRCVEAQRGDETPEETKRRAMADPEVQAILQDPAMRQILEQMQENP-ALQEHLKNPMVMQKIEKLI 531 (539)
T ss_pred HhcCchhHHHHHHHHHHHHHhhcCCCHHHHHHhhccCHHHHHHHcCHHHHHHHHHHHhCH-HHHHHHhccHHHHHHHHHH
Confidence 45779999999888 2 457999999999999999999999999999999999999 8899999999999999998
Q ss_pred HH
Q 014282 418 EL 419 (427)
Q Consensus 418 a~ 419 (427)
+.
T Consensus 532 ~~ 533 (539)
T KOG0548|consen 532 SA 533 (539)
T ss_pred Hh
Confidence 73
No 3
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=98.52 E-value=1.1e-07 Score=67.55 Aligned_cols=40 Identities=30% Similarity=0.592 Sum_probs=38.3
Q ss_pred CHHHHhhcCCHHHHHHHHHHhhChHHHHHhhc-CHHHHHHH
Q 014282 374 NPEIALGFQSPRVQAAIMECSQNPMNIIKYQN-DKEVMSVI 413 (427)
Q Consensus 374 DPEI~aamQDPeV~aALqDI~sNPaai~KYms-NPkVm~~I 413 (427)
|||++.+++||.|+.+++++++||..+.+|+. ||+++++|
T Consensus 1 dP~~~~~l~~P~~~~~l~~~~~nP~~~~~~~~~nP~~~~~i 41 (41)
T smart00727 1 DPEMALRLQNPQVQSLLQDMQQNPDMLAQMLQENPQLLQLI 41 (41)
T ss_pred CHHHHHHHcCHHHHHHHHHHHHCHHHHHHHHHhCHHhHhhC
Confidence 89999999999999999999999999999999 99998764
No 4
>smart00727 STI1 Heat shock chaperonin-binding motif.
Probab=97.01 E-value=0.00056 Score=48.55 Aligned_cols=38 Identities=29% Similarity=0.497 Sum_probs=31.6
Q ss_pred HHHHhhcCHHHHHhhcCCCccccCCHHHHHHHhh-ChHHHHHH
Q 014282 281 TLEKLMEDPQVQKMVYPSLPEEMRNPASFKLMLQ-NPEYRKQL 322 (427)
Q Consensus 281 ~l~~Mm~nPq~QqM~ypyLPe~MRNp~tfk~Mlq-NPq~rqqL 322 (427)
.+..+|+||.+++++-- .++||+.++.|++ ||++++++
T Consensus 3 ~~~~~l~~P~~~~~l~~----~~~nP~~~~~~~~~nP~~~~~i 41 (41)
T smart00727 3 EMALRLQNPQVQSLLQD----MQQNPDMLAQMLQENPQLLQLI 41 (41)
T ss_pred HHHHHHcCHHHHHHHHH----HHHCHHHHHHHHHhCHHhHhhC
Confidence 45678889999987764 8889999999999 99997653
No 5
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=94.12 E-value=0.089 Score=56.16 Aligned_cols=72 Identities=26% Similarity=0.406 Sum_probs=51.3
Q ss_pred CccccHHHHHHhhcCHH-HHHhhcCCCccccCCHHHHHHHhhChHHHHHHHHHHHhccCCCCCchhHhhhhhcCCCChHH
Q 014282 274 GRFLTVDTLEKLMEDPQ-VQKMVYPSLPEEMRNPASFKLMLQNPEYRKQLQEMLDGMCESGEFDGRVLDSLKNFDLNSAE 352 (427)
Q Consensus 274 ~~~~~~~~l~~Mm~nPq-~QqM~ypyLPe~MRNp~tfk~MlqNPq~rqqL~~Ml~~mgg~g~~~~~m~d~l~e~D~Nn~E 352 (427)
++-..-..++.+..||+ +|+|+.||.+ +.|.-|.+||.+..+
T Consensus 329 ~~~~~~a~lq~i~~n~~~~~~l~s~~~~------~m~~~~s~~P~~a~~------------------------------- 371 (493)
T KOG0010|consen 329 GSPGMQAGLQMITENPSLLQQLLSPYIR------SMFQSASQNPLQAAQ------------------------------- 371 (493)
T ss_pred CCcchhhhhhccccChhhhhhccchhhH------HHHhhhccCchhhhc-------------------------------
Confidence 33344567888888884 4556665544 556667888877444
Q ss_pred HHHHHHhcCCChHHHHHHhcCCHHHHhhcCCHHHHHHHHHHhhChH
Q 014282 353 VKQQFEQIGLTPEEVITKMMANPEIALGFQSPRVQAAIMECSQNPM 398 (427)
Q Consensus 353 v~q~f~~~G~tpEE~~skaM~DPEI~aamQDPeV~aALqDI~sNPa 398 (427)
+.. |.||+++.+|.+|+++++|+.|++.-.
T Consensus 372 ---------------~~~-mq~p~~~~~~~np~a~~ai~qiqq~~~ 401 (493)
T KOG0010|consen 372 ---------------LRQ-MQNPDVLRAMSNPRAMQAIRQIQQGLQ 401 (493)
T ss_pred ---------------ccc-ccCchHhhhhcChHHHHHHHHHHHHHH
Confidence 003 779999999999999999999987544
No 6
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=93.35 E-value=0.14 Score=54.66 Aligned_cols=89 Identities=21% Similarity=0.445 Sum_probs=49.8
Q ss_pred cHHHHHHhhcCHHHHHhhcCCCccccCCHHHHH-HHhhChHHHHHHHHHHHhccCCCCCchhHhhhhhcCCCChHHHHHH
Q 014282 278 TVDTLEKLMEDPQVQKMVYPSLPEEMRNPASFK-LMLQNPEYRKQLQEMLDGMCESGEFDGRVLDSLKNFDLNSAEVKQQ 356 (427)
Q Consensus 278 ~~~~l~~Mm~nPq~QqM~ypyLPe~MRNp~tfk-~MlqNPq~rqqL~~Ml~~mgg~g~~~~~m~d~l~e~D~Nn~Ev~q~ 356 (427)
+-|.+..||+||-+|.| |+|||.+. .++.||+|++.|+ + ++|
T Consensus 155 npe~~~~~m~nP~vq~l--------l~Npd~mrq~I~anPqmq~lm~----~---------------------npe---- 197 (493)
T KOG0010|consen 155 NPEALRQMMENPIVQSL--------LNNPDLMRQLIMANPQMQDLMQ----R---------------------NPE---- 197 (493)
T ss_pred CHHHHHHhhhChHHHHH--------hcChHHHHHHHhcCHHHHHHHh----h---------------------CCc----
Confidence 35677778888877743 45666666 4566676633332 1 222
Q ss_pred HHhcCCChHHHHHHhcCCHHHH----hhcCCHHHHHHHHHHhhChHHHHHhhcCHHHHHHHHHH
Q 014282 357 FEQIGLTPEEVITKMMANPEIA----LGFQSPRVQAAIMECSQNPMNIIKYQNDKEVMSVITKI 416 (427)
Q Consensus 357 f~~~G~tpEE~~skaM~DPEI~----aamQDPeV~aALqDI~sNPaai~KYmsNPkVm~~IqKL 416 (427)
+.++++||+|+ +...||++++-+....+ .++..+.+.|.-.+++..+
T Consensus 198 -----------i~h~ln~p~i~rQtle~arNP~m~qemmrn~d--~a~SnlesiPgG~n~l~~m 248 (493)
T KOG0010|consen 198 -----------IGHLLNNPLILRQTLESARNPEMMQEMMRNQD--RAMSNLESIPGGYNALRRM 248 (493)
T ss_pred -----------chhhhcChHHHHHHHHhccCHHHHHHHHhhcc--ccccChhcCccHHHHHHHH
Confidence 23555555554 33466766655544444 4455556666666666555
No 7
>KOG3037 consensus Cell membrane glycoprotein [General function prediction only]
Probab=92.90 E-value=0.28 Score=50.17 Aligned_cols=56 Identities=20% Similarity=0.490 Sum_probs=49.5
Q ss_pred CccccHHHHHHhhcCHHHHHhhcCCCccccCCHHHHHHHhhChHHHHHHHHHHHhc
Q 014282 274 GRFLTVDTLEKLMEDPQVQKMVYPSLPEEMRNPASFKLMLQNPEYRKQLQEMLDGM 329 (427)
Q Consensus 274 ~~~~~~~~l~~Mm~nPq~QqM~ypyLPe~MRNp~tfk~MlqNPq~rqqL~~Ml~~m 329 (427)
+..+.-+.+..++.||-+|+=++||||+---+.+-+.-++++|||+|+|.-+....
T Consensus 226 a~vL~~e~v~~vl~~~~v~erL~phlP~d~~~~~~i~e~l~spqF~qal~sfs~aL 281 (330)
T KOG3037|consen 226 ATVLKPEAVAPVLANPGVQERLMPHLPSDHDRAEGILELLTSPQFRQALDSFSQAL 281 (330)
T ss_pred hhhcChHHHHHHhhCcchhhhhcccCCCCCcchHHHHHhhcCHHHHHHHHHHHHHH
Confidence 34467899999999999999999999998888888899999999999998776654
No 8
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=91.30 E-value=0.51 Score=51.11 Aligned_cols=74 Identities=18% Similarity=0.208 Sum_probs=61.6
Q ss_pred cCCCChHHHHHHHHhcC---------CChHHHHHHhcCCHHHHhhcCCHHHHHHHHHHhhChHHHHHhhcCHHHHHHHHH
Q 014282 345 NFDLNSAEVKQQFEQIG---------LTPEEVITKMMANPEIALGFQSPRVQAAIMECSQNPMNIIKYQNDKEVMSVITK 415 (427)
Q Consensus 345 e~D~Nn~Ev~q~f~~~G---------~tpEE~~skaM~DPEI~aamQDPeV~aALqDI~sNPaai~KYmsNPkVm~~IqK 415 (427)
++|++|..+..++.+.- .+.-.+++++-+||.....++||.+..+|+.++.||.++.-|++||-+|..+--
T Consensus 98 ~~d~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~r~m~a~~~ 177 (539)
T KOG0548|consen 98 EKDPSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDPRLMKADGQ 177 (539)
T ss_pred hcCCchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccHHHHHHHHH
Confidence 46788888888773211 122356888999999999999999999999999999999999999999999887
Q ss_pred HHH
Q 014282 416 IAE 418 (427)
Q Consensus 416 L~a 418 (427)
|..
T Consensus 178 l~~ 180 (539)
T KOG0548|consen 178 LKG 180 (539)
T ss_pred Hhc
Confidence 755
No 9
>PRK00523 hypothetical protein; Provisional
Probab=89.77 E-value=0.9 Score=37.79 Aligned_cols=40 Identities=18% Similarity=0.336 Sum_probs=26.0
Q ss_pred hhHHHHHHHH---HHH--HHHHHHHHHHHHH------HHHHHHHHhhcCCC
Q 014282 102 LFWVGVGVGL---SAL--FSFVASRLKQYAM------QQALKGMMNQMNTQ 141 (427)
Q Consensus 102 l~wiGvGVgL---sal--fs~va~~vK~yaM------qqa~KsMm~qm~~~ 141 (427)
++||+++|+. +++ |-..-.+++||-- |++++.||.|||--
T Consensus 5 ~l~I~l~i~~li~G~~~Gffiark~~~k~l~~NPpine~mir~M~~QMGqK 55 (72)
T PRK00523 5 GLALGLGIPLLIVGGIIGYFVSKKMFKKQIRENPPITENMIRAMYMQMGRK 55 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHhCCC
Confidence 6777755432 223 3333445677766 89999999999943
No 10
>PRK01844 hypothetical protein; Provisional
Probab=89.68 E-value=0.94 Score=37.71 Aligned_cols=41 Identities=27% Similarity=0.272 Sum_probs=25.4
Q ss_pred chhHHHHHH---HHHHHHH--HHHHHHHHHHH------HHHHHHHHhhcCCC
Q 014282 101 PLFWVGVGV---GLSALFS--FVASRLKQYAM------QQALKGMMNQMNTQ 141 (427)
Q Consensus 101 Pl~wiGvGV---gLsalfs--~va~~vK~yaM------qqa~KsMm~qm~~~ 141 (427)
-|+||+++| +++++.+ ..-.+++||-- |++++.||.|||--
T Consensus 3 ~~~~I~l~I~~li~G~~~Gff~ark~~~k~lk~NPpine~mir~Mm~QMGqk 54 (72)
T PRK01844 3 IWLGILVGVVALVAGVALGFFIARKYMMNYLQKNPPINEQMLKMMMMQMGQK 54 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCC
Confidence 367776544 2233333 33345666665 78999999999943
No 11
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=80.45 E-value=5 Score=32.75 Aligned_cols=38 Identities=16% Similarity=0.280 Sum_probs=25.0
Q ss_pred HHHHHHHHHHH--HHHHHHHHHHHHH------HHHHHHHHhhcCCC
Q 014282 104 WVGVGVGLSAL--FSFVASRLKQYAM------QQALKGMMNQMNTQ 141 (427)
Q Consensus 104 wiGvGVgLsal--fs~va~~vK~yaM------qqa~KsMm~qm~~~ 141 (427)
||-|+.+++++ |-..--+++||-. |.+++.||.|||--
T Consensus 2 ~iilali~G~~~Gff~ar~~~~k~l~~NPpine~mir~M~~QMG~k 47 (64)
T PF03672_consen 2 LIILALIVGAVIGFFIARKYMEKQLKENPPINEKMIRAMMMQMGRK 47 (64)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCC
Confidence 44444444444 4444556777776 68999999999943
No 12
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=67.83 E-value=15 Score=30.67 Aligned_cols=22 Identities=23% Similarity=0.374 Sum_probs=16.5
Q ss_pred HHHHHHHHH------HHHHHHHHhhcCC
Q 014282 119 ASRLKQYAM------QQALKGMMNQMNT 140 (427)
Q Consensus 119 a~~vK~yaM------qqa~KsMm~qm~~ 140 (427)
..++|+|-. ++|++.||.|||-
T Consensus 26 rk~~~k~lk~NPpine~~iR~M~~qmGq 53 (71)
T COG3763 26 RKQMKKQLKDNPPINEEMIRMMMAQMGQ 53 (71)
T ss_pred HHHHHHHHhhCCCCCHHHHHHHHHHhCC
Confidence 344556655 8999999999994
No 13
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=60.27 E-value=47 Score=34.77 Aligned_cols=40 Identities=35% Similarity=0.482 Sum_probs=30.8
Q ss_pred HHHHHhhcCHHHHHhhcCCCccccCCHHHHHHHhh-----ChHHHHHHH
Q 014282 280 DTLEKLMEDPQVQKMVYPSLPEEMRNPASFKLMLQ-----NPEYRKQLQ 323 (427)
Q Consensus 280 ~~l~~Mm~nPq~QqM~ypyLPe~MRNp~tfk~Mlq-----NPq~rqqL~ 323 (427)
+.|+-++++||||+|-.= -=+||+.++.||| ||+..|+|+
T Consensus 214 ~~l~fLr~~~qf~~lR~~----iqqNP~ll~~~Lqqlg~~nP~L~q~Iq 258 (340)
T KOG0011|consen 214 DPLEFLRNQPQFQQLRQM----IQQNPELLHPLLQQLGKQNPQLLQLIQ 258 (340)
T ss_pred CchhhhhccHHHHHHHHH----HhhCHHHHHHHHHHHhhhCHHHHHHHH
Confidence 568889999999865411 0159999999986 899999985
No 14
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=53.23 E-value=21 Score=28.33 Aligned_cols=9 Identities=33% Similarity=0.722 Sum_probs=3.5
Q ss_pred hChHHHHHh
Q 014282 395 QNPMNIIKY 403 (427)
Q Consensus 395 sNPaai~KY 403 (427)
+||..+...
T Consensus 44 ~n~e~Fl~l 52 (59)
T PF09280_consen 44 QNPEEFLRL 52 (59)
T ss_dssp HTHHHHHHH
T ss_pred HCHHHHHHH
Confidence 344433333
No 15
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=51.54 E-value=14 Score=29.25 Aligned_cols=32 Identities=34% Similarity=0.492 Sum_probs=17.2
Q ss_pred HHhhcCHHHHHhhcCCCccccCCHHHHHHHhhChHHHHHHHHHHHhccC
Q 014282 283 EKLMEDPQVQKMVYPSLPEEMRNPASFKLMLQNPEYRKQLQEMLDGMCE 331 (427)
Q Consensus 283 ~~Mm~nPq~QqM~ypyLPe~MRNp~tfk~MlqNPq~rqqL~~Ml~~mgg 331 (427)
+-++++|+|+ +.=+.+-+||+. |..+|.+++.
T Consensus 2 ~~Lr~~Pqf~--------------~lR~~vq~NP~l---L~~lLqql~~ 33 (59)
T PF09280_consen 2 EFLRNNPQFQ--------------QLRQLVQQNPQL---LPPLLQQLGQ 33 (59)
T ss_dssp GGGTTSHHHH--------------HHHHHHHC-GGG---HHHHHHHHHC
T ss_pred hHHHcChHHH--------------HHHHHHHHCHHH---HHHHHHHHhc
Confidence 4566777777 333445556655 5555555444
No 16
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=51.02 E-value=31 Score=40.04 Aligned_cols=13 Identities=8% Similarity=0.636 Sum_probs=5.5
Q ss_pred cccccccCCchhh
Q 014282 212 KKYAFVDVSPEET 224 (427)
Q Consensus 212 kk~afvDV~~~e~ 224 (427)
|++-+--+.|.+.
T Consensus 627 rr~nW~kI~p~d~ 639 (1102)
T KOG1924|consen 627 RRFNWSKIVPRDL 639 (1102)
T ss_pred ccCCccccCcccc
Confidence 3333333444443
No 17
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=50.22 E-value=27 Score=34.51 Aligned_cols=21 Identities=29% Similarity=0.618 Sum_probs=17.8
Q ss_pred CCCchhHHHHHHHHHHHHHHH
Q 014282 98 VGSPLFWVGVGVGLSALFSFV 118 (427)
Q Consensus 98 iGsPl~wiGvGVgLsalfs~v 118 (427)
+|++|+|+-+||.|+.|++++
T Consensus 49 ~~~~~~~~i~gi~~g~l~am~ 69 (224)
T PF13829_consen 49 FGSWWYWLIIGILLGLLAAMI 69 (224)
T ss_pred HccHHHHHHHHHHHHHHHHHH
Confidence 568899999999999988763
No 18
>PF08370 PDR_assoc: Plant PDR ABC transporter associated; InterPro: IPR013581 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This domain is found on the C terminus of ABC-2 type transporter domains (IPR013525 from INTERPRO). It seems to be associated with the plant pleiotropic drug resistance (PDR) protein family of ABC transporters. Like in yeast, plant PDR ABC transporters may also play a role in the transport of antifungal agents [] (see also IPR010929 from INTERPRO). The PDR family is characterised by a configuration in which the ABC domain is nearer the N terminus of the protein than the transmembrane domain [].
Probab=49.72 E-value=7.1 Score=31.70 Aligned_cols=15 Identities=40% Similarity=0.764 Sum_probs=11.7
Q ss_pred CCchhHHHHHHHHHH
Q 014282 99 GSPLFWVGVGVGLSA 113 (427)
Q Consensus 99 GsPl~wiGvGVgLsa 113 (427)
..-|.|||||+.++-
T Consensus 25 ~~~WyWIgvgaL~G~ 39 (65)
T PF08370_consen 25 ESYWYWIGVGALLGF 39 (65)
T ss_pred CCcEEeehHHHHHHH
Confidence 345999999987763
No 19
>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=49.25 E-value=4.9 Score=42.15 Aligned_cols=44 Identities=18% Similarity=-0.010 Sum_probs=33.2
Q ss_pred HhcCCHHHHhhcCCHHHHHHHHHHhhChHH-----------HHHhhcCHHHHHHHH
Q 014282 370 KMMANPEIALGFQSPRVQAAIMECSQNPMN-----------IIKYQNDKEVMSVIT 414 (427)
Q Consensus 370 kaM~DPEI~aamQDPeV~aALqDI~sNPaa-----------i~KYmsNPkVm~~Iq 414 (427)
.+.++|+++..+.+++++ +.++|..|+.+ |.|.++||+|+..|+
T Consensus 281 ~~g~~p~~M~g~~~~~~~-m~~~m~~~~~n~~~~~~p~~~gi~ki~~dpev~aAfq 335 (377)
T KOG1308|consen 281 FLGGFPGGMPGSFPGDKR-MTDGMKGFDGNSPVKQQPNQIGISKILSDPEVAAAFQ 335 (377)
T ss_pred ccCCCcccCCCCCCCccc-cccccccCCCCCccccCCCcccHhhhcCchHHHHhhc
Confidence 355688888899999999 88888888655 556777777776665
No 20
>PRK10878 hypothetical protein; Provisional
Probab=49.11 E-value=36 Score=28.08 Aligned_cols=31 Identities=3% Similarity=0.241 Sum_probs=21.7
Q ss_pred HHHHHHhcC--CHHHHhhc------CCHHHHHHHHHHhh
Q 014282 365 EEVITKMMA--NPEIALGF------QSPRVQAAIMECSQ 395 (427)
Q Consensus 365 EE~~skaM~--DPEI~aam------QDPeV~aALqDI~s 395 (427)
...+++++. ||+|..-+ .||+++.++..|.+
T Consensus 24 ~~~Fe~LL~~~D~dL~~W~~g~~~p~d~~l~~iV~~Ir~ 62 (72)
T PRK10878 24 KRIFIRLLECDDPDLFNWLMNHGKPADAELERMVRLIQT 62 (72)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCCCCCHHHHHHHHHHHH
Confidence 356888887 88888776 46666666666654
No 21
>PF06757 Ins_allergen_rp: Insect allergen related repeat, nitrile-specifier detoxification; InterPro: IPR010629 This entry represents several insect specific allergen repeats. These repeats are commonly found in various proteins from cockroaches, fruit flies and mosquitos. It has been suggested that the repeat sequences have evolved by duplication of an ancestral amino acid domain, which may have arisen from the mitochondrial energy transfer proteins []. This family exemplifies a case of novel gene evolution. The case in point is the arms-race between plants and their infective insective herbivores in the area of the glucosinolate-myrosinase system. Brassicas have developed the glucosinolate-myrosinase system as chemical defence mechanism against the insects, and consequently the insects have adapted to produce a detoxifying molecule, nitrile-specifier protein (NSP). NSP is present in the Pieris rapae (Cabbage white butterfly). NSP is structurally different from and has no amino acid homology to any known detoxifying enzymes, and it appears to have arisen by a process of domain and gene duplication of a sequence of unknown function that is widespread in insect species and referred to as insect-allergen-repeat protein. Thus this family is found either as a single domain or as a multiple repeat-domain [].
Probab=48.64 E-value=1.5e+02 Score=27.19 Aligned_cols=127 Identities=15% Similarity=0.169 Sum_probs=67.0
Q ss_pred hhcCHHHHHhhcCCCccccCCHHH---HHHHhhChHHHHHHHHHHHhccCCC-CCchhHhhhhhcCC-CChHHHHHHHHh
Q 014282 285 LMEDPQVQKMVYPSLPEEMRNPAS---FKLMLQNPEYRKQLQEMLDGMCESG-EFDGRVLDSLKNFD-LNSAEVKQQFEQ 359 (427)
Q Consensus 285 Mm~nPq~QqM~ypyLPe~MRNp~t---fk~MlqNPq~rqqL~~Ml~~mgg~g-~~~~~m~d~l~e~D-~Nn~Ev~q~f~~ 359 (427)
+.+|+++|+.+- -|+.++- ...|.+.|+++. |-+.|.+.|... .+=+...+ +.++. .+..........
T Consensus 28 ~~~D~efq~~~~-----yl~s~~f~~l~~~l~~~pE~~~-l~~yL~~~gldv~~~i~~i~~-~l~~~~~~p~~~~~~~~~ 100 (179)
T PF06757_consen 28 YLEDAEFQAAVR-----YLNSSEFKQLWQQLEALPEVKA-LLDYLESAGLDVYYYINQIND-LLGLPPLNPTPSLSCSRG 100 (179)
T ss_pred HHcCHHHHHHHH-----HHcChHHHHHHHHHHcCHHHHH-HHHHHHHCCCCHHHHHHHHHH-HHcCCcCCCCcccccccC
Confidence 577899987653 3555542 226888999974 555666656543 11111222 22211 111100000011
Q ss_pred cCCCh-HHHHHHhcCCHHHHhhc-----CCHHHHHHHHHHhhC--hHHHHHhhcCHHHHHHHHHHHH
Q 014282 360 IGLTP-EEVITKMMANPEIALGF-----QSPRVQAAIMECSQN--PMNIIKYQNDKEVMSVITKIAE 418 (427)
Q Consensus 360 ~G~tp-EE~~skaM~DPEI~aam-----QDPeV~aALqDI~sN--Paai~KYmsNPkVm~~IqKL~a 418 (427)
.|+.. -+.+..++-=-+|.+++ .++++...+..+.+. =.-+.+...+|++..++++|.+
T Consensus 101 ~g~~g~~~di~~~lP~~~l~aL~~~K~~~s~~F~~f~~~l~S~ef~~~~~~~~~~~~~~~~~~~L~~ 167 (179)
T PF06757_consen 101 GGLNGFVDDILALLPRDKLRALYEEKLATSPEFAEFVEALRSPEFQQLYNALWASPEFQRLLNELRE 167 (179)
T ss_pred CCHHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHcCHHHHHHHHHHHcCHHHHHHHHHHHH
Confidence 22222 11122333333444443 578888888877765 4445777799999999999975
No 22
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=42.96 E-value=16 Score=30.69 Aligned_cols=16 Identities=13% Similarity=0.418 Sum_probs=8.3
Q ss_pred HHHHHhcCCHHHHhhc
Q 014282 366 EVITKMMANPEIALGF 381 (427)
Q Consensus 366 E~~skaM~DPEI~aam 381 (427)
+..+++++||+|++.+
T Consensus 23 ~l~~~vl~dp~V~~Fl 38 (94)
T PF07319_consen 23 QLKQEVLSDPEVQAFL 38 (94)
T ss_dssp HHHHHHTT-HHHHHHH
T ss_pred HHHHHHHcCHHHHHHH
Confidence 3455566666655555
No 23
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=40.06 E-value=76 Score=27.14 Aligned_cols=54 Identities=20% Similarity=0.381 Sum_probs=31.2
Q ss_pred HhhhhhcCCCChHHHHHHHHhcCCChHHHHHHhcCCHHHHhhc------CCHHHHHHHHHHhhChHHHHHh
Q 014282 339 VLDSLKNFDLNSAEVKQQFEQIGLTPEEVITKMMANPEIALGF------QSPRVQAAIMECSQNPMNIIKY 403 (427)
Q Consensus 339 m~d~l~e~D~Nn~Ev~q~f~~~G~tpEE~~skaM~DPEI~aam------QDPeV~aALqDI~sNPaai~KY 403 (427)
....||+++.....+.+.|...-+ ||-.+.+. ---++|+.+..+++||.-|.+.
T Consensus 4 Iia~LKehnvsd~qi~elFq~lT~-----------NPl~AMa~i~qLGip~eKLQ~lm~~VMqnP~LikeA 63 (82)
T PF11212_consen 4 IIAILKEHNVSDEQINELFQALTQ-----------NPLAAMATIQQLGIPQEKLQQLMAQVMQNPALIKEA 63 (82)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHhh-----------CHHHHHHHHHHcCCCHHHHHHHHHHHhcChHHHHHH
Confidence 356678887777777776633222 22211111 1235677777788888776553
No 24
>smart00845 GatB_Yqey GatB domain. This domain is found in GatB and proteins related to bacterial Yqey. It is about 140 amino acid residues long. This domain is found at the C terminus of GatB which transamidates Glu-tRNA to Gln-tRNA. The function of this domain is uncertain. It does however suggest that Yqey and its relatives have a role in tRNA metabolism.
Probab=39.56 E-value=2.1e+02 Score=25.46 Aligned_cols=77 Identities=17% Similarity=0.319 Sum_probs=43.7
Q ss_pred hhhhcCCCChHHHHHHHH---hcCCChHHHHHHhcCCHHHHhhcCCH-HHHHHHHHHh-hChHHHHHhhcC-HH-HHHHH
Q 014282 341 DSLKNFDLNSAEVKQQFE---QIGLTPEEVITKMMANPEIALGFQSP-RVQAAIMECS-QNPMNIIKYQND-KE-VMSVI 413 (427)
Q Consensus 341 d~l~e~D~Nn~Ev~q~f~---~~G~tpEE~~skaM~DPEI~aamQDP-eV~aALqDI~-sNPaai~KYmsN-Pk-Vm~~I 413 (427)
+.+.+-..+...+.+.+. ..+.++++.+++. + ...+.|. ++.++++++. +||..+.+|.+- .+ +..++
T Consensus 49 ~lv~~g~It~~~ak~vl~~~~~~~~~~~~ii~~~--~---l~~isd~~el~~~v~~vi~~~~~~v~~~~~g~~k~~~~l~ 123 (147)
T smart00845 49 KLIEDGTISGKIAKEVLEELLESGKSPEEIVEEK--G---LKQISDEGELEAIVDEVIAENPKAVEDYRAGKKKALGFLV 123 (147)
T ss_pred HHHHcCCCcHHHHHHHHHHHHHcCCCHHHHHHHc--C---CccCCCHHHHHHHHHHHHHHCHHHHHHHHCCHHHHHHHHH
Confidence 333343455555554442 2344555444433 1 1235776 7888888855 789999999744 33 33455
Q ss_pred HHHHHHCCC
Q 014282 414 TKIAELFPG 422 (427)
Q Consensus 414 qKL~a~FgG 422 (427)
-.++....|
T Consensus 124 G~vMk~~~G 132 (147)
T smart00845 124 GQVMKATRG 132 (147)
T ss_pred HHHHHHhcC
Confidence 555666665
No 25
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=37.63 E-value=1.2e+02 Score=32.01 Aligned_cols=103 Identities=12% Similarity=0.200 Sum_probs=61.1
Q ss_pred HHhhChHHHHHHHHHHHhccCC-CCCc-hhHhhhhhcCCCChHHHHHHHHhcCCChHHHHHHhcCCHHHHhhcCCH--HH
Q 014282 311 LMLQNPEYRKQLQEMLDGMCES-GEFD-GRVLDSLKNFDLNSAEVKQQFEQIGLTPEEVITKMMANPEIALGFQSP--RV 386 (427)
Q Consensus 311 ~MlqNPq~rqqL~~Ml~~mgg~-g~~~-~~m~d~l~e~D~Nn~Ev~q~f~~~G~tpEE~~skaM~DPEI~aamQDP--eV 386 (427)
.|=.+++.+++|++++...+-- .+.+ .+..+.|..+=-+..+..++. ..+..-+.|||....+++- .+
T Consensus 261 ~~~~~~~ll~~l~~l~~~l~~ll~~l~~~~lL~Nle~lt~~LA~as~~l--------~~l~~~l~~p~~~~~L~qtl~sl 332 (370)
T PLN03094 261 LMEEARPLLLKIQAMAEDLQPLLSEVRDSGLLKEVEKLTRVAAEASEDL--------RRLNSSILTPENTELLRQSIYTL 332 (370)
T ss_pred HHhhcHHHHHHHHHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHHHHHH--------HHHHHhhcCHHHHHHHHHHHHHH
Confidence 4556788888998888886542 1111 112222111101111111110 2255567888888766543 35
Q ss_pred HHHHHHHhhChHHHHHhhcCHHHHHHHHHHHHHCC
Q 014282 387 QAAIMECSQNPMNIIKYQNDKEVMSVITKIAELFP 421 (427)
Q Consensus 387 ~aALqDI~sNPaai~KYmsNPkVm~~IqKL~a~Fg 421 (427)
.++++++..==..+.++..||..++-+.+|++...
T Consensus 333 ~~t~~ni~~vs~dv~~ft~D~~~r~~Lr~li~~Ls 367 (370)
T PLN03094 333 TKTLKHIESISSDISGFTGDEATRRNLKQLIQSLS 367 (370)
T ss_pred HHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence 55666676667778999999999999999988653
No 26
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=37.12 E-value=2.1e+02 Score=30.16 Aligned_cols=20 Identities=20% Similarity=0.343 Sum_probs=10.7
Q ss_pred cccHHHHHHhhcCHHHHHhhcC
Q 014282 276 FLTVDTLEKLMEDPQVQKMVYP 297 (427)
Q Consensus 276 ~~~~~~l~~Mm~nPq~QqM~yp 297 (427)
+++-+.++.+.+ +++.|=|+
T Consensus 150 l~~g~~~e~~I~--~i~eMGf~ 169 (378)
T TIGR00601 150 LVVGSERETTIE--EIMEMGYE 169 (378)
T ss_pred cccchHHHHHHH--HHHHhCCC
Confidence 455556666554 25555554
No 27
>PF04078 Rcd1: Cell differentiation family, Rcd1-like ; InterPro: IPR007216 Rcd1 (Required cell differentiation 1) -like proteins are found among a wide range of organisms []. Rcd1 was initially identified as an essential factor in nitrogen starvation-invoked differentiation in fission yeast. This results largely from a defect in nitrogen starvation-invoked induction of ste11+, a key transcriptional factor gene required for the onset of sexual development. It is one of the most conserved proteins in eukaryotes, and its mammalian homologue is expressed in a variety of differentiating tissues [, ]. The mammalian Rcd1 is a novel transcriptional cofactor and is critical for retinoic acid-induced differentiation of F9 mouse teratocarcinoma cells, at least in part, via forming complexes with retinoic acid receptor and activation transcription factor-2 (ATF-2) []. Two of the members in this family have been characterised as being involved in regulation of Ste11 regulated sex genes [, ].; PDB: 2FV2_B.
Probab=35.99 E-value=15 Score=37.04 Aligned_cols=48 Identities=19% Similarity=0.492 Sum_probs=40.5
Q ss_pred HHhhcCHHHHHhhcCCCccccCCHHHHHHHhhChHHHHHHHHHHHhcc
Q 014282 283 EKLMEDPQVQKMVYPSLPEEMRNPASFKLMLQNPEYRKQLQEMLDGMC 330 (427)
Q Consensus 283 ~~Mm~nPq~QqM~ypyLPe~MRNp~tfk~MlqNPq~rqqL~~Ml~~mg 330 (427)
..+-+||.-..++-.+||+..||..--.-+-.||..|+-+++++.+.|
T Consensus 214 lRLsdnprar~aL~~~LP~~Lrd~~f~~~l~~D~~~k~~l~qLl~nl~ 261 (262)
T PF04078_consen 214 LRLSDNPRAREALRQCLPDQLRDGTFSNILKDDPSTKRWLQQLLSNLN 261 (262)
T ss_dssp HHHTTSTTHHHHHHHHS-GGGTSSTTTTGGCS-HHHHHHHHHHHHHTT
T ss_pred HHHccCHHHHHHHHHhCcHHHhcHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence 456789999999999999999998877788889999999999998865
No 28
>PF08173 YbgT_YccB: Membrane bound YbgT-like protein; InterPro: IPR012994 This family contains a set of membrane proteins, typically 33 amino acids long. The family has no known function, but the protein is found in the operon CydAB in Escherichia coli. Members have a consensus motif (MWYFXW), which is rich in aromatic residues. The protein forms a single membrane-spanning helix. This family seems to be restricted to proteobacteria [].
Probab=35.00 E-value=52 Score=23.22 Aligned_cols=17 Identities=29% Similarity=0.741 Sum_probs=13.1
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 014282 103 FWVGVGVGLSALFSFVAS 120 (427)
Q Consensus 103 ~wiGvGVgLsalfs~va~ 120 (427)
.|| +||+|+..|+.+..
T Consensus 5 aWi-lG~~lA~~~~i~~a 21 (28)
T PF08173_consen 5 AWI-LGVLLACAFGILNA 21 (28)
T ss_pred HHH-HHHHHHHHHHHHHH
Confidence 465 79999999987643
No 29
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=34.55 E-value=56 Score=34.22 Aligned_cols=48 Identities=31% Similarity=0.459 Sum_probs=33.8
Q ss_pred HHHHhhcCHHHHHhhcCCCccccCCHHHHHHHhh-----ChHHHHHH----HHHHHhccCC
Q 014282 281 TLEKLMEDPQVQKMVYPSLPEEMRNPASFKLMLQ-----NPEYRKQL----QEMLDGMCES 332 (427)
Q Consensus 281 ~l~~Mm~nPq~QqM~ypyLPe~MRNp~tfk~Mlq-----NPq~rqqL----~~Ml~~mgg~ 332 (427)
.|+-+.++|+||+|=.= --+||+.+.-||| ||+..++| +++|.-++++
T Consensus 247 ~l~~Lr~~pqf~~lR~~----vq~NP~~L~~lLqql~~~nP~l~q~I~~n~e~Fl~ll~~~ 303 (378)
T TIGR00601 247 PLEFLRNQPQFQQLRQV----VQQNPQLLPPLLQQIGQENPQLLQQISQHPEQFLQMLNEP 303 (378)
T ss_pred hHHHhhcCHHHHHHHHH----HHHCHHHHHHHHHHHHhhCHHHHHHHHHCHHHHHHHhcCc
Confidence 68888999999865321 1358888887774 88888887 4566666554
No 30
>PF07849 DUF1641: Protein of unknown function (DUF1641); InterPro: IPR012440 Archaeal and bacterial hypothetical proteins are found in this family, with the region in question being approximately 40 residues long.
Probab=31.95 E-value=37 Score=25.09 Aligned_cols=13 Identities=23% Similarity=0.442 Sum_probs=5.7
Q ss_pred HhhcCCHHHHHHH
Q 014282 378 ALGFQSPRVQAAI 390 (427)
Q Consensus 378 ~aamQDPeV~aAL 390 (427)
+.+|+||+|+..|
T Consensus 17 ~~~l~DpdvqrgL 29 (42)
T PF07849_consen 17 LRALRDPDVQRGL 29 (42)
T ss_pred HHHHcCHHHHHHH
Confidence 3344444444444
No 31
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=31.39 E-value=3.5e+02 Score=27.44 Aligned_cols=27 Identities=15% Similarity=0.359 Sum_probs=17.4
Q ss_pred ccHHHHHHhhc--CHHHHHhhcCCCcccc
Q 014282 277 LTVDTLEKLME--DPQVQKMVYPSLPEEM 303 (427)
Q Consensus 277 ~~~~~l~~Mm~--nPq~QqM~ypyLPe~M 303 (427)
++.+.|..+++ +||.+-++..|||...
T Consensus 120 ld~~~l~~lL~~EhpqtiA~iLs~l~~~~ 148 (339)
T PRK05686 120 MDPQQLANFIRNEHPQTIALILSYLKPDQ 148 (339)
T ss_pred CCHHHHHHHHHhcCHHHHHHHHhCCCHHH
Confidence 45566666664 5777777777766543
No 32
>PRK11677 hypothetical protein; Provisional
Probab=31.36 E-value=49 Score=30.24 Aligned_cols=21 Identities=19% Similarity=0.284 Sum_probs=18.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q 014282 102 LFWVGVGVGLSALFSFVASRL 122 (427)
Q Consensus 102 l~wiGvGVgLsalfs~va~~v 122 (427)
|+++.||++++++++++..|+
T Consensus 3 W~~a~i~livG~iiG~~~~R~ 23 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAMRF 23 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 888889999999999998887
No 33
>KOG2366 consensus Alpha-D-galactosidase (melibiase) [Carbohydrate transport and metabolism]
Probab=31.28 E-value=81 Score=33.87 Aligned_cols=51 Identities=18% Similarity=0.191 Sum_probs=34.2
Q ss_pred HHHHHHhhChHHHHHHHHHHHhccCCCCCchhHhhhhhcCCCChHHHHHHH
Q 014282 307 ASFKLMLQNPEYRKQLQEMLDGMCESGEFDGRVLDSLKNFDLNSAEVKQQF 357 (427)
Q Consensus 307 ~tfk~MlqNPq~rqqL~~Ml~~mgg~g~~~~~m~d~l~e~D~Nn~Ev~q~f 357 (427)
+|.+-|+++=.|--..++-+....|+|.|.-.-|--+.+..+...+-.-+|
T Consensus 228 dtW~Sv~~I~d~~~~nqd~~~~~agPg~WNDpDmL~iGN~G~s~e~y~~qf 278 (414)
T KOG2366|consen 228 DTWKSVDSIIDYICWNQDRIAPLAGPGGWNDPDMLEIGNGGMSYEEYKGQF 278 (414)
T ss_pred hHHHHHHHHHHHHhhhhhhhccccCCCCCCChhHhhcCCCCccHHHHHHHH
Confidence 667778888777666677777777888787622222345557777766666
No 34
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=30.13 E-value=1.7e+02 Score=22.31 Aligned_cols=35 Identities=14% Similarity=0.278 Sum_probs=23.0
Q ss_pred Cc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014282 100 SP-LFWVGVGVGLSALFSFVASRLKQYAMQQALKGM 134 (427)
Q Consensus 100 sP-l~wiGvGVgLsalfs~va~~vK~yaMqqa~KsM 134 (427)
-| .+||.+-.++|+++++.....+.+-.....|..
T Consensus 18 ~pl~l~il~~f~~G~llg~l~~~~~~~~~r~~~~~~ 53 (68)
T PF06305_consen 18 LPLGLLILIAFLLGALLGWLLSLPSRLRLRRRIRRL 53 (68)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45 677777777888888877777665544444433
No 35
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=29.86 E-value=2.8e+02 Score=26.77 Aligned_cols=16 Identities=25% Similarity=0.445 Sum_probs=9.3
Q ss_pred ccHHHHHHhhcCHHHH
Q 014282 277 LTVDTLEKLMEDPQVQ 292 (427)
Q Consensus 277 ~~~~~l~~Mm~nPq~Q 292 (427)
++.+.|..-+++..+.
T Consensus 55 l~~~~i~~~l~~~~~~ 70 (367)
T PF04286_consen 55 LTPETIRRKLESEDFS 70 (367)
T ss_pred CCHHHHHHHHhcccHH
Confidence 5555555556665555
No 36
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=28.56 E-value=1e+02 Score=24.76 Aligned_cols=24 Identities=13% Similarity=0.232 Sum_probs=20.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHH
Q 014282 101 PLFWVGVGVGLSALFSFVASRLKQ 124 (427)
Q Consensus 101 Pl~wiGvGVgLsalfs~va~~vK~ 124 (427)
.++++.+|+++|.+++.+.-.+|+
T Consensus 58 ~~lil~l~~~~Gl~lgi~~~~~re 81 (82)
T PF13807_consen 58 RALILALGLFLGLILGIGLAFLRE 81 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 389999999999999998888875
No 37
>cd01067 globin_like superfamily containing globins and truncated hemoglobins
Probab=28.41 E-value=1.4e+02 Score=24.89 Aligned_cols=54 Identities=15% Similarity=0.131 Sum_probs=37.0
Q ss_pred HHHHHhcCC-HHHHhhcCC-----------HHHHHHHHHHhhChHHHHHhhcCHHHHHHHHHHHHH
Q 014282 366 EVITKMMAN-PEIALGFQS-----------PRVQAAIMECSQNPMNIIKYQNDKEVMSVITKIAEL 419 (427)
Q Consensus 366 E~~skaM~D-PEI~aamQD-----------PeV~aALqDI~sNPaai~KYmsNPkVm~~IqKL~a~ 419 (427)
..+.+++.+ ||++.+|.. +.+...-+.+..-=..+.....|+++...+.+|...
T Consensus 5 ~fy~~lf~~~P~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~ 70 (117)
T cd01067 5 DFYKHLFENYPPLRKYFKSREEYTADVQNDPFFKKQGQKILLAIHVACAGYDDREFNAKTRELASR 70 (117)
T ss_pred HHHHHHHHhChhHHHHCCCCCCCHHhccCCHHHHHHHHHHHHHHHHHHHccCcHhHHHHHHHHHHH
Confidence 568888875 599999986 766665555555555555556677777777777664
No 38
>COG2427 Uncharacterized conserved protein [Function unknown]
Probab=27.76 E-value=52 Score=29.95 Aligned_cols=39 Identities=21% Similarity=0.130 Sum_probs=25.2
Q ss_pred HHHHHHhhChHHHHHHHHHHHhccCCCCCch-hHhhhhhc
Q 014282 307 ASFKLMLQNPEYRKQLQEMLDGMCESGEFDG-RVLDSLKN 345 (427)
Q Consensus 307 ~tfk~MlqNPq~rqqL~~Ml~~mgg~g~~~~-~m~d~l~e 345 (427)
..+..+++++.+...|.+++.-++..+..+. ++.+.+.+
T Consensus 58 ~~~~~~l~~e~~~~ll~~~~~~~~~l~~~~~e~~~~~~~~ 97 (148)
T COG2427 58 KKLKDELAKELIENLLNNMLIMLGLLSLIDSERLSKLVEN 97 (148)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence 4566888999998888887777665443333 34444433
No 39
>cd07922 CarBa CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. 2-aminophenol 1,6-dioxygenase is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, the enzyme has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=26.60 E-value=72 Score=26.97 Aligned_cols=24 Identities=29% Similarity=0.373 Sum_probs=11.0
Q ss_pred HHHHHHHHHhhChHHHHHhhcCHH
Q 014282 385 RVQAAIMECSQNPMNIIKYQNDKE 408 (427)
Q Consensus 385 eV~aALqDI~sNPaai~KYmsNPk 408 (427)
++...|+++.++|....+|..||+
T Consensus 5 ~~nrli~~L~~dp~~rerF~~DPe 28 (81)
T cd07922 5 PVNRLIQELFKDPGLIERFQDDPS 28 (81)
T ss_pred HHHHHHHHHhcCHHHHHHHHHCHH
Confidence 334444444444444444444443
No 40
>cd06199 SiR Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ gene) are of the cytochrome p450 (CyPor) family having FAD and FMN as prosthetic groups and utilizing NADPH. Cypor (including cyt -450 reductase, nitric oxide synthase, and methionine synthase reductase) are ferredoxin reductase (FNR)-like proteins with an additional N-terminal FMN domain and a connecting sub-domain inserted within the flavin binding portion of the FNR-like domain. The connecting domain orients the N-terminal FMN domain with the C-terminal FNR domain.
Probab=26.38 E-value=54 Score=33.09 Aligned_cols=25 Identities=28% Similarity=0.632 Sum_probs=22.2
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHH
Q 014282 99 GSPLFWVGVGVGLSALFSFVASRLK 123 (427)
Q Consensus 99 GsPl~wiGvGVgLsalfs~va~~vK 123 (427)
+.|+++||.|.|++-+.|++..++.
T Consensus 213 ~~piImIa~GtGIAP~~s~l~~~~~ 237 (360)
T cd06199 213 DAPIIMVGPGTGIAPFRAFLQEREA 237 (360)
T ss_pred CCCEEEEecCcChHHHHHHHHHHHh
Confidence 5799999999999999999887654
No 41
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=25.87 E-value=58 Score=26.86 Aligned_cols=21 Identities=24% Similarity=0.491 Sum_probs=17.7
Q ss_pred CchhHHHHHHHHHHHHHHHHH
Q 014282 100 SPLFWVGVGVGLSALFSFVAS 120 (427)
Q Consensus 100 sPl~wiGvGVgLsalfs~va~ 120 (427)
.||-=|||++|++.|+++...
T Consensus 72 ~P~~svgiAagvG~llG~Ll~ 92 (94)
T PF05957_consen 72 NPWQSVGIAAGVGFLLGLLLR 92 (94)
T ss_pred ChHHHHHHHHHHHHHHHHHHh
Confidence 588889999999999988764
No 42
>PF05819 NolX: NolX protein; InterPro: IPR008718 This family consists of Rhizobium NolX and Xanthomonas HrpF proteins. The interaction between the plant pathogen Xanthomonas campestris pv. vesicatoria (strain 85-10) and its host plants is controlled by hrp genes (hypersensitive reaction and pathogenicity), which encode a type III protein secretion system. Among type III-secreted proteins are avirulence proteins, effectors involved in the induction of plant defence reactions. HrpF is dispensable for protein secretion but required for AvrBs3 recognition in planta, is thought to function as a translocator of effector proteins into the host cell []. NolX, a Glycine max (Soybean) cultivar specificity protein, is secreted by a type III secretion system (TTSS) and shows homology to HrpF. It is not known whether NolX functions at the bacterium-plant interface or acts inside the host cell. NolX is expressed in planta only during the early stages of nodule development [].; GO: 0009877 nodulation
Probab=24.15 E-value=2.4e+02 Score=31.60 Aligned_cols=81 Identities=21% Similarity=0.338 Sum_probs=47.5
Q ss_pred HHHHhhChHHHHHH----------HHHHHhccCCCCCchhHhhhhhcCCCChHHHHHHHHhc--CCChHHHHHHhcCCHH
Q 014282 309 FKLMLQNPEYRKQL----------QEMLDGMCESGEFDGRVLDSLKNFDLNSAEVKQQFEQI--GLTPEEVITKMMANPE 376 (427)
Q Consensus 309 fk~MlqNPq~rqqL----------~~Ml~~mgg~g~~~~~m~d~l~e~D~Nn~Ev~q~f~~~--G~tpEE~~skaM~DPE 376 (427)
.+.-++||.--++| +++|..-.-.-....++.++|+.+.-| ++.|-.. ++|. +.+.+|-+|+-
T Consensus 410 AqyF~~hpd~W~~l~~g~~~~v~k~dflq~ass~m~LT~~ElkTL~Tin~n----qd~FFg~G~~ltr-dKLa~ma~D~~ 484 (624)
T PF05819_consen 410 AQYFVDHPDEWKQLYGGPSDKVSKEDFLQVASSSMHLTAPELKTLDTINSN----QDAFFGDGKELTR-DKLASMADDKS 484 (624)
T ss_pred HHHHHhChHHHHHhcCCCccccchhHHHHHHHhhcccChHHHHHHHHhhhc----hhhhhCCccccCH-HHHHHhhcCcc
Confidence 45778899888888 223332222223344555565554211 2334333 3554 56777877776
Q ss_pred HHhhcCCHHHHHHHHHHhhChHH
Q 014282 377 IALGFQSPRVQAAIMECSQNPMN 399 (427)
Q Consensus 377 I~aamQDPeV~aALqDI~sNPaa 399 (427)
+ ||+|+.|-.++.+||.-
T Consensus 485 ~-----~p~Vr~AA~qLl~dplL 502 (624)
T PF05819_consen 485 L-----DPEVREAAKQLLSDPLL 502 (624)
T ss_pred c-----CHHHHHHHHHHhccchH
Confidence 4 89999988888777653
No 43
>KOG3341 consensus RNA polymerase II transcription factor complex subunit [Transcription]
Probab=23.39 E-value=65 Score=32.38 Aligned_cols=23 Identities=26% Similarity=0.391 Sum_probs=20.4
Q ss_pred HHhhChHHHHHHHHHHHhccCCC
Q 014282 311 LMLQNPEYRKQLQEMLDGMCESG 333 (427)
Q Consensus 311 ~MlqNPq~rqqL~~Ml~~mgg~g 333 (427)
-+-+|||||+|.++|....|..+
T Consensus 55 ei~knsqFR~~Fq~Mca~IGvDP 77 (249)
T KOG3341|consen 55 EIRKNSQFRNQFQEMCASIGVDP 77 (249)
T ss_pred HHhhCHHHHHHHHHHHHHcCCCc
Confidence 56799999999999999999655
No 44
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=22.82 E-value=2.7e+02 Score=26.94 Aligned_cols=43 Identities=26% Similarity=0.454 Sum_probs=27.3
Q ss_pred HHHHHhhcCHHHHHhhcCCCccccCCHHHHHHHhhChHHHHHHHHHHHhc
Q 014282 280 DTLEKLMEDPQVQKMVYPSLPEEMRNPASFKLMLQNPEYRKQLQEMLDGM 329 (427)
Q Consensus 280 ~~l~~Mm~nPq~QqM~ypyLPe~MRNp~tfk~MlqNPq~rqqL~~Ml~~m 329 (427)
..|..++++...++++--.+ +.+...+.+|+.++.|.+++...
T Consensus 129 ~~l~~ll~~~~~~~l~~~il-------~~i~~~l~~~e~~~~I~~~i~~~ 171 (367)
T PF04286_consen 129 KLLRSLLEEEQHQKLLDRIL-------EKIKEYLKSEETRERIRDLIEEF 171 (367)
T ss_pred HHHHHHHhccchHHHHHHHH-------HHHHHHHcCchHHHHHHHHHHHH
Confidence 34455566666665544433 45557778888887787777665
No 45
>TIGR02105 III_needle type III secretion apparatus needle protein. Type III secretion systems translocate proteins, usually virulence factors, out across both inner and outer membranes of certain Gram-negative bacteria and further across the plasma membrane and into the cytoplasm of the host cell. This protein, termed YscF in Yersinia, and EscF, PscF, EprI, etc. in other systems, forms the needle of the injection apparatus.
Probab=21.20 E-value=2.3e+02 Score=23.53 Aligned_cols=50 Identities=10% Similarity=0.029 Sum_probs=32.4
Q ss_pred HHHHhcCCHHHHhhcCCHHHHHHHHHHhhChHHHHHhhcC--HHHHHHHHHHHHH
Q 014282 367 VITKMMANPEIALGFQSPRVQAAIMECSQNPMNIIKYQND--KEVMSVITKIAEL 419 (427)
Q Consensus 367 ~~skaM~DPEI~aamQDPeV~aALqDI~sNPaai~KYmsN--PkVm~~IqKL~a~ 419 (427)
.+..+|.+. ..-.||+.++-+|-..++-..+..|+++ .-+.++.+-++.+
T Consensus 20 ~l~~a~~~l---~~~~nP~~La~~Q~~~~qYs~~~n~qSs~iK~iKD~~~~Iiqk 71 (72)
T TIGR02105 20 AVNDSLAAL---DLPNDPELMAELQFALNQYSAYYNIESTIVKMIKDLDSGILQK 71 (72)
T ss_pred HHHHHHHcc---CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 355566555 3347888888888888888888777765 3344444444443
No 46
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=21.18 E-value=9e+02 Score=24.77 Aligned_cols=135 Identities=14% Similarity=0.194 Sum_probs=63.0
Q ss_pred ccHHHHHHhhc--CHHHHHhhcCCCcc------------ccCCHHHHHHHhh----ChHHHHHHHHHHHhc----cCCC-
Q 014282 277 LTVDTLEKLME--DPQVQKMVYPSLPE------------EMRNPASFKLMLQ----NPEYRKQLQEMLDGM----CESG- 333 (427)
Q Consensus 277 ~~~~~l~~Mm~--nPq~QqM~ypyLPe------------~MRNp~tfk~Mlq----NPq~rqqL~~Ml~~m----gg~g- 333 (427)
++.++|..+++ .||.+-+++.|||. ..|+ +++.+|-+ +|+..+.|++.|.+. +..+
T Consensus 118 ~~~~~la~~l~~EhPQ~iAliLs~L~p~~AA~VL~~Lp~~~~~-ei~~ria~l~~vs~~~i~~ie~~L~~~~~~~~~~~~ 196 (338)
T TIGR00207 118 AEPQQIADFIQQEHPQTIALILSHLDPAQAADILSLFPEEVQA-EVARRIATMGRTSPEVVAEVERVLEGKLDSLNSDYT 196 (338)
T ss_pred CCHHHHHHHHHccCHHHHHHHHHcCCHHHHHHHHHhCCHHHHH-HHHHHHHhcCCCCHHHHHHHHHHHHHHHHhhccccc
Confidence 56788888885 58888888877653 3333 23333332 456555554444432 2111
Q ss_pred C--CchhHhhhhhcCCCChH-HHHHHHHhcCCChHHHHHHhcCCHHHHhhcCCHHHHHHHHHHhhC-hHHHHHhhcCHHH
Q 014282 334 E--FDGRVLDSLKNFDLNSA-EVKQQFEQIGLTPEEVITKMMANPEIALGFQSPRVQAAIMECSQN-PMNIIKYQNDKEV 409 (427)
Q Consensus 334 ~--~~~~m~d~l~e~D~Nn~-Ev~q~f~~~G~tpEE~~skaM~DPEI~aamQDPeV~aALqDI~sN-Paai~KYmsNPkV 409 (427)
. .-....|-|..+|.... .+-+.+......--+.+.+.|=.=|-+..+.|--++.+|++|..+ =.-+.|. .++++
T Consensus 197 ~~gG~~~~a~ILN~~~~~~~~~il~~L~~~dp~la~~Ir~~mF~Fedl~~ld~~~l~~llrev~~~~L~~ALkg-a~~e~ 275 (338)
T TIGR00207 197 KMGGVRAVAEIINLMDRKTEKTIITSLEEFDPELAEEIKKEMFVFEDIVDLDDRSIQRVLREVDSEDLLLALKG-AEQPL 275 (338)
T ss_pred cCChHHHHHHHHHhCCchHHHHHHHHHHHhCHHHHHHHHHHccCHHHHhcCCHHHHHHHHHhCCHHHHHHHHCc-CCHHH
Confidence 0 11134444444444333 232222211111112233333333333334444478888887655 3334555 34445
Q ss_pred HHHH
Q 014282 410 MSVI 413 (427)
Q Consensus 410 m~~I 413 (427)
.++|
T Consensus 276 ~~~i 279 (338)
T TIGR00207 276 REKF 279 (338)
T ss_pred HHHH
Confidence 4444
No 47
>PF11563 Protoglobin: Protoglobin; PDB: 2VEE_G 3QZZ_A 3R0G_A 3QZX_A 2VEB_A 1OR6_A 1OR4_B 2W31_B.
Probab=21.06 E-value=1.1e+02 Score=26.29 Aligned_cols=30 Identities=17% Similarity=0.228 Sum_probs=24.6
Q ss_pred HHHHHhcCCHHHHhhcCCHHHHHHHHHHhh
Q 014282 366 EVITKMMANPEIALGFQSPRVQAAIMECSQ 395 (427)
Q Consensus 366 E~~skaM~DPEI~aamQDPeV~aALqDI~s 395 (427)
..+.++.++||+..+|.++...+.|+..+.
T Consensus 39 ~FY~~l~~~pe~~~~~~~~~~~~~lk~~q~ 68 (158)
T PF11563_consen 39 DFYDHLLRFPETARIFDSESTIERLKATQR 68 (158)
T ss_dssp HHHHHHHTSHHHHGGGCCHCCHHHHHHHHH
T ss_pred HHHHHHHCCHHHHHHhCChHHHHHHHHHHH
Confidence 679999999999999999777666666553
No 48
>PHA00736 hypothetical protein
Probab=20.83 E-value=76 Score=26.76 Aligned_cols=17 Identities=41% Similarity=0.937 Sum_probs=9.9
Q ss_pred chhHHHHHHHHHHHHHHH
Q 014282 101 PLFWVGVGVGLSALFSFV 118 (427)
Q Consensus 101 Pl~wiGvGVgLsalfs~v 118 (427)
|||| |++|+++-+-+.|
T Consensus 56 plfw-gi~vifgliag~v 72 (79)
T PHA00736 56 PLFW-GITVIFGLIAGLV 72 (79)
T ss_pred HHHH-HHHHHHHHHHHHh
Confidence 7888 5666555444433
No 49
>PRK10132 hypothetical protein; Provisional
Probab=20.65 E-value=92 Score=27.43 Aligned_cols=22 Identities=18% Similarity=0.256 Sum_probs=18.4
Q ss_pred CchhHHHHHHHHHHHHHHHHHH
Q 014282 100 SPLFWVGVGVGLSALFSFVASR 121 (427)
Q Consensus 100 sPl~wiGvGVgLsalfs~va~~ 121 (427)
.||-=|||+.|++.|+++...+
T Consensus 85 ~Pw~svgiaagvG~llG~Ll~R 106 (108)
T PRK10132 85 RPWCSVGTAAAVGIFIGALLSL 106 (108)
T ss_pred CcHHHHHHHHHHHHHHHHHHhc
Confidence 6899999999999999887654
No 50
>PF07301 DUF1453: Protein of unknown function (DUF1453); InterPro: IPR009916 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown. Members of this family seem to be found exclusively in the Order Bacillales.
Probab=20.41 E-value=1e+02 Score=28.74 Aligned_cols=23 Identities=26% Similarity=0.226 Sum_probs=19.4
Q ss_pred CCCchhHHHHHHHHHHHHHHHHH
Q 014282 98 VGSPLFWVGVGVGLSALFSFVAS 120 (427)
Q Consensus 98 iGsPl~wiGvGVgLsalfs~va~ 120 (427)
..-||.|+.++++++++||+..=
T Consensus 53 ~~~~~~~~l~A~~~G~lFs~~Li 75 (148)
T PF07301_consen 53 FRPPWLEVLEAFLVGALFSYPLI 75 (148)
T ss_pred ccchHHHHHHHHHHHHHHHHHHH
Confidence 34579999999999999999754
No 51
>PF04558 tRNA_synt_1c_R1: Glutaminyl-tRNA synthetase, non-specific RNA binding region part 1 ; InterPro: IPR007639 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This is a domain found N-terminal to the catalytic domain of glutaminyl-tRNA synthetase (6.1.1.18 from EC) in eukaryotes but not in Escherichia coli. This domain is thought to bind RNA in a non-specific manner, enhancing interactions between the tRNA and enzyme, but is not essential for enzyme function [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 3TL4_X.
Probab=20.24 E-value=2.9e+02 Score=25.80 Aligned_cols=61 Identities=15% Similarity=0.231 Sum_probs=39.3
Q ss_pred hHHHHHHHHhcCCChHHHHHHhcCCHHHHhhcCCHHHHHHHHHHhhChHHHHHhhcCHHHHHHHHHHHHHCCC
Q 014282 350 SAEVKQQFEQIGLTPEEVITKMMANPEIALGFQSPRVQAAIMECSQNPMNIIKYQNDKEVMSVITKIAELFPG 422 (427)
Q Consensus 350 n~Ev~q~f~~~G~tpEE~~skaM~DPEI~aamQDPeV~aALqDI~sNPaai~KYmsNPkVm~~IqKL~a~FgG 422 (427)
..|+.+.|...|+++ ..+.+++.|+++.+.|.++...- -...--|.++..++-.|..++.+
T Consensus 3 ~eel~~lF~~iGL~e----------~kAket~KN~kls~~L~~iI~ea--~~~~~~dk~~g~LLy~lAtk~k~ 63 (164)
T PF04558_consen 3 EEELIELFKSIGLSE----------KKAKETLKNKKLSASLKAIINEA--GVDSGCDKKQGNLLYQLATKLKP 63 (164)
T ss_dssp HHHHHHHHHHTT--H----------HHHHHHTTSHHHHHHHHHHHHTS---TT----HHHHHHHHHHHHHHTT
T ss_pred hHHHHHHHHHcCCCh----------hhHHHHHhCHHHHHHHHHHHHHh--cccCCCCHHHHHHHHHHHHhcCC
Confidence 467778888888755 35667788888888888876543 22245678888888888877654
Done!