RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4385
(473 letters)
>gnl|CDD|215821 pfam00254, FKBP_C, FKBP-type peptidyl-prolyl cis-trans isomerase.
Length = 94
Score = 136 bits (346), Expect = 3e-39
Identities = 53/94 (56%), Positives = 61/94 (64%), Gaps = 1/94 (1%)
Query: 42 GDTTPSAGCKVKVHYTGTLLDGTVFDSSKTRGEPFEFDLGKGQVIKAWDRGIATMKKDEV 101
G G V VHYTG L DGTVFDSSK RG+PFEF LG GQVI WD G+ MK E
Sbjct: 1 GPEKAKKGDTVTVHYTGKLEDGTVFDSSKDRGKPFEFTLGSGQVIPGWDEGLLGMKVGEK 60
Query: 102 AVFTCKPEYAYGKQGS-PPTIPPDSTLVFEVEMI 134
T PE AYG++G IPP++TLVFEVE++
Sbjct: 61 RKLTIPPELAYGEEGLAGGVIPPNATLVFEVELL 94
Score = 39.9 bits (94), Expect = 2e-04
Identities = 22/94 (23%), Positives = 36/94 (38%), Gaps = 9/94 (9%)
Query: 161 STPKDGANVEITLKGECE-GKVFQEG-----TFSFVLGEGSEYDIPENLEKALEKFKYKE 214
K G V + G+ E G VF F F LG G + ++ L K E
Sbjct: 3 EKAKKGDTVTVHYTGKLEDGTVFDSSKDRGKPFEFTLGSG---QVIPGWDEGLLGMKVGE 59
Query: 215 KSRLFVQPQHLWSGKGNDKLGVPSNKPATYTITM 248
K +L + P+ + +G +P N + + +
Sbjct: 60 KRKLTIPPELAYGEEGLAGGVIPPNATLVFEVEL 93
>gnl|CDD|223619 COG0545, FkpA, FKBP-type peptidyl-prolyl cis-trans isomerases 1
[Posttranslational modification, protein turnover,
chaperones].
Length = 205
Score = 132 bits (333), Expect = 4e-36
Identities = 54/106 (50%), Positives = 65/106 (61%), Gaps = 3/106 (2%)
Query: 30 GGVLKEIKTPGVGDTTPSAGCKVKVHYTGTLLDGTVFDSSKTRGEPFEFDLGKGQVIKAW 89
G+ ++ G G P G V VHYTGTL+DGTVFDSS RG+P EF LG VI W
Sbjct: 101 SGLQYKVLKAGDGAA-PKKGDTVTVHYTGTLIDGTVFDSSYDRGQPAEFPLG--GVIPGW 157
Query: 90 DRGIATMKKDEVAVFTCKPEYAYGKQGSPPTIPPDSTLVFEVEMIS 135
D G+ MK T PE AYG++G P IPP+STLVFEVE++
Sbjct: 158 DEGLQGMKVGGKRKLTIPPELAYGERGVPGVIPPNSTLVFEVELLD 203
>gnl|CDD|183207 PRK11570, PRK11570, peptidyl-prolyl cis-trans isomerase;
Provisional.
Length = 206
Score = 83.7 bits (207), Expect = 1e-18
Identities = 43/89 (48%), Positives = 55/89 (61%), Gaps = 2/89 (2%)
Query: 46 PSAGCKVKVHYTGTLLDGTVFDSSKTRGEPFEFDLGKGQVIKAWDRGIATMKKDEVAVFT 105
P+ +V+VHYTG L+DGTVFDSS RGEP EF + VI W + M T
Sbjct: 117 PARTDRVRVHYTGKLIDGTVFDSSVARGEPAEFPVNG--VIPGWIEALTLMPVGSKWELT 174
Query: 106 CKPEYAYGKQGSPPTIPPDSTLVFEVEMI 134
E AYG++G+ +IPP STLVFEVE++
Sbjct: 175 IPHELAYGERGAGASIPPFSTLVFEVELL 203
>gnl|CDD|236791 PRK10902, PRK10902, FKBP-type peptidyl-prolyl cis-trans isomerase;
Provisional.
Length = 269
Score = 81.3 bits (201), Expect = 2e-17
Identities = 48/113 (42%), Positives = 63/113 (55%), Gaps = 9/113 (7%)
Query: 31 GVLKEIKTPGVGDTTPSAGCKVKVHYTGTLLDGTVFDSSKTRGEPFEFDLGKGQVIKAWD 90
G+L +++ G G+ P V V+Y GTL+DG FD+S TRGEP F L VI W
Sbjct: 147 GLLYKVEKEGTGEA-PKDSDTVVVNYKGTLIDGKEFDNSYTRGEPLSFRLDG--VIPGWT 203
Query: 91 RGIATMKKDEVAVFTCKPEYAYGKQGSPPTIPPDSTLVFEVEMISWEAEDISP 143
G+ +KK PE AYGK G P IP +STLVF+VE++ D+ P
Sbjct: 204 EGLKNIKKGGKIKLVIPPELAYGKAGV-PGIPANSTLVFDVELL-----DVKP 250
>gnl|CDD|238112 cd00189, TPR, Tetratricopeptide repeat domain; typically contains
34 amino acids
[WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-
X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found
in a variety of organisms including bacteria,
cyanobacteria, yeast, fungi, plants, and humans in
various subcellular locations; involved in a variety of
functions including protein-protein interactions, but
common features in the interaction partners have not
been defined; involved in chaperone, cell-cycle,
transciption, and protein transport complexes; the
number of TPR motifs varies among proteins (1,3-11,13
15,16,19); 5-6 tandem repeats generate a right-handed
helical structure with an amphipathic channel that is
thought to accomodate an alpha-helix of a target
protein; it has been proposed that TPR proteins
preferably interact with WD-40 repeat proteins, but in
many instances several TPR-proteins seem to aggregate to
multi-protein complexes; examples of TPR-proteins
include, Cdc16p, Cdc23p and Cdc27p components of the
cyclosome/APC, the Pex5p/Pas10p receptor for peroxisomal
targeting signals, the Tom70p co-receptor for
mitochondrial targeting signals, Ser/Thr phosphatase 5C
and the p110 subunit of O-GlcNAc transferase; three
copies of the repeat are present here.
Length = 100
Score = 75.1 bits (185), Expect = 9e-17
Identities = 33/115 (28%), Positives = 55/115 (47%), Gaps = 15/115 (13%)
Query: 270 KLLKERGTTYFKQDKFELACRNYKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAMCLL 329
+ L G Y+K ++ A Y+KA+ E + N A
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKAL---------------ELDPDNADAYYNLAAAYY 45
Query: 330 KLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPN 384
KL + + A + +KA+EL+P+N KA++ G AY L + E A + ++K L++DPN
Sbjct: 46 KLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
Score = 60.9 bits (148), Expect = 1e-11
Identities = 27/82 (32%), Positives = 43/82 (52%)
Query: 322 LNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQI 381
LN KL A + +KA+EL+P+N A++ AY L + E A +D++K L++
Sbjct: 4 LNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALEL 63
Query: 382 DPNNKAAVQKLTQTKQKLREQK 403
DP+N A L KL + +
Sbjct: 64 DPDNAKAYYNLGLAYYKLGKYE 85
Score = 36.6 bits (85), Expect = 0.004
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 353 KAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKL 392
+A GN Y L + + A + ++K L++DP+N A L
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNL 40
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 61.2 bits (149), Expect = 4e-12
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 320 CHLNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNE-PELAEKDFQKV 378
N L KL A + +KA+EL+P+N +A++ AYL L + E A +D +K
Sbjct: 5 ALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALEDLEKA 64
Query: 379 LQIDP 383
L++DP
Sbjct: 65 LELDP 69
Score = 40.8 bits (96), Expect = 6e-05
Identities = 16/53 (30%), Positives = 27/53 (50%)
Query: 350 NNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQTKQKLREQ 402
+N +A GNA L + + A + ++K L++DP+N A L KL +
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKD 53
>gnl|CDD|223976 COG1047, SlpA, FKBP-type peptidyl-prolyl cis-trans isomerases 2
[Posttranslational modification, protein turnover,
chaperones].
Length = 174
Score = 57.6 bits (140), Expect = 8e-10
Identities = 20/65 (30%), Positives = 30/65 (46%)
Query: 49 GCKVKVHYTGTLLDGTVFDSSKTRGEPFEFDLGKGQVIKAWDRGIATMKKDEVAVFTCKP 108
G V +HYT + DG V D++ P F +G GQ+I + + + E P
Sbjct: 6 GDVVSLHYTLKVEDGEVVDTTDENYGPLTFIVGAGQLIPGLEEALLGKEVGEEFTVEIPP 65
Query: 109 EYAYG 113
E A+G
Sbjct: 66 EDAFG 70
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 48.2 bits (116), Expect = 5e-08
Identities = 14/33 (42%), Positives = 23/33 (69%)
Query: 353 KAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
KA + GNAYL L + + A + ++K L+++PNN
Sbjct: 2 KALYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 30.8 bits (71), Expect = 0.071
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 321 HLNAAMCLLKLKQAKPAKDQCDKAIELEPNN 351
N LKL + A + +KA+EL PNN
Sbjct: 4 LYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 28.9 bits (66), Expect = 0.41
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 270 KLLKERGTTYFKQDKFELACRNYKKAI 296
K L G Y K K++ A Y+KA+
Sbjct: 2 KALYNLGNAYLKLGKYDEALEYYEKAL 28
>gnl|CDD|197478 smart00028, TPR, Tetratricopeptide repeats. Repeats present in 4
or more copies in proteins. Contain a minimum of 34
amino acids each and self-associate via a "knobs and
holes" mechanism.
Length = 34
Score = 45.5 bits (109), Expect = 6e-07
Identities = 14/33 (42%), Positives = 23/33 (69%)
Query: 353 KAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
+A + GNAYL L + + A + ++K L++DPNN
Sbjct: 2 EALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 30.9 bits (71), Expect = 0.081
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 320 CHLNAAMCLLKLKQAKPAKDQCDKAIELEPNN 351
N LKL A + +KA+EL+PNN
Sbjct: 3 ALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 30.9 bits (71), Expect = 0.093
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 270 KLLKERGTTYFKQDKFELACRNYKKAI 296
+ L G Y K ++ A Y+KA+
Sbjct: 2 EALYNLGNAYLKLGDYDEALEYYEKAL 28
>gnl|CDD|131573 TIGR02521, type_IV_pilW, type IV pilus biogenesis/stability protein
PilW. Members of this family are designated PilF in ref
(PMID:8973346) and PilW in ref (PMID:15612916). This
outer membrane protein is required both for pilus
stability and for pilus function such as adherence to
human cells. Members of this family contain copies of
the TPR (tetratricopeptide repeat) domain.
Length = 234
Score = 49.6 bits (119), Expect = 9e-07
Identities = 21/65 (32%), Positives = 35/65 (53%)
Query: 321 HLNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQ 380
+ A+ L+ + AK+ DKA+E +P++ A+ Y L E E AE F++ L
Sbjct: 34 RVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALT 93
Query: 381 IDPNN 385
++PNN
Sbjct: 94 LNPNN 98
Score = 39.2 bits (92), Expect = 0.002
Identities = 33/147 (22%), Positives = 57/147 (38%), Gaps = 21/147 (14%)
Query: 276 GTTYFKQDKFELACRNYKKAI--------PYLDFDGGFEGEQETER-----KKTLTACHL 322
Y +Q E+A N KA+ YL ++ E E+ ++ LT
Sbjct: 38 ALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN 97
Query: 323 NAAMC------LLKLKQAKPAKDQCDKAIE--LEPNNEKAFFRRGNAYLDLNEPELAEKD 374
N + L + + + A Q ++AIE L P ++ G L + + AEK
Sbjct: 98 NGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKY 157
Query: 375 FQKVLQIDPNNKAAVQKLTQTKQKLRE 401
+ LQIDP ++ +L + +
Sbjct: 158 LTRALQIDPQRPESLLELAELYYLRGQ 184
Score = 33.1 bits (76), Expect = 0.24
Identities = 27/153 (17%), Positives = 55/153 (35%), Gaps = 19/153 (12%)
Query: 267 EQGKLLKERGTTYFKQDKFELACRNYKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAM 326
G +L GT +Q K+E A + +++AI E + ++L NA +
Sbjct: 97 NNGDVLNNYGTFLCQQGKYEQAMQQFEQAI---------EDPLYPQPARSLE----NAGL 143
Query: 327 CLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKD--FQKVLQIDPN 384
C LK A+ +A++++P ++ A L + + ++ Q
Sbjct: 144 CALKAGDFDKAEKYLTRALQIDPQRPESL--LELAELYYLRGQYKDARAYLERYQQTYNQ 201
Query: 385 NKAAVQKLTQTKQKLREQKIKEKQVYANMFDKF 417
++ + + L + Q Y K
Sbjct: 202 TAESLWLGIRIARALGDV--AAAQRYGAQLQKL 232
>gnl|CDD|227124 COG4785, NlpI, Lipoprotein NlpI, contains TPR repeats [General
function prediction only].
Length = 297
Score = 49.8 bits (119), Expect = 1e-06
Identities = 27/87 (31%), Positives = 36/87 (41%), Gaps = 5/87 (5%)
Query: 337 AKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQTK 396
A + D +EL+P A RG A +LA+ D Q DPN+ L
Sbjct: 118 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLY--- 174
Query: 397 QKLREQKIKEKQVYANMFDKFAKHDTE 423
L EQK+ KQ N+ + K D E
Sbjct: 175 --LNEQKLDPKQAKTNLKQRAEKSDKE 199
>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only].
Length = 291
Score = 49.8 bits (117), Expect = 1e-06
Identities = 33/160 (20%), Positives = 63/160 (39%), Gaps = 11/160 (6%)
Query: 248 MNNFEKIKDTWQLNSDEKLEQGKLLKERGTTYFKQDKFELACRNYKKAIPYLDFDGGFEG 307
+ ++E+ + ++ + LE L E A Y++A+ L+
Sbjct: 143 LGDYEEALELYE----KALELDPELNELAEALLALGALLEALGRYEEALELLE------- 191
Query: 308 EQETERKKTLTACHLNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNE 367
+ LN + LKL + + A + +KA+EL+P+N +A + L+L
Sbjct: 192 KALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGR 251
Query: 368 PELAEKDFQKVLQIDPNNKAAVQKLTQTKQKLREQKIKEK 407
E A + +K L++DP+ L + E K
Sbjct: 252 YEEALEALEKALELDPDLYNLGLALLLLLAEALELLEKAD 291
Score = 45.6 bits (106), Expect = 3e-05
Identities = 33/192 (17%), Positives = 64/192 (33%), Gaps = 11/192 (5%)
Query: 233 KLGVPSNKPATYTITMNNFEKIKDTWQ-LNSDEKLEQGKLLKERGTTYFKQDKFELACRN 291
+L S+ + K+ + L EK + +LL A
Sbjct: 51 ELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGK 110
Query: 292 YKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAMCLLKLKQAKPAKDQCDKAIELEPNN 351
Y++A+ L+ + A L A L +L + A + +KA+EL+P
Sbjct: 111 YEEALELLE-------KALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPEL 163
Query: 352 EK---AFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQTKQKLREQKIKEKQ 408
+ A G L E A + +K L+++P++ A + + +
Sbjct: 164 NELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALE 223
Query: 409 VYANMFDKFAKH 420
Y + +
Sbjct: 224 YYEKALELDPDN 235
>gnl|CDD|234059 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat
lipoprotein. This protein family occurs in strictly
within a subset of Gram-negative bacterial species with
the proposed PEP-CTERM/exosortase system, analogous to
the LPXTG/sortase system common in Gram-positive
bacteria. This protein occurs in a species if and only
if a transmembrane histidine kinase (TIGR02916) and a
DNA-binding response regulator (TIGR02915) also occur.
The present of tetratricopeptide repeats (TPR) suggests
protein-protein interaction, possibly for the regulation
of PEP-CTERM protein expression, since many PEP-CTERM
proteins in these genomes are preceded by a proposed DNA
binding site for the response regulator.
Length = 899
Score = 50.9 bits (122), Expect = 1e-06
Identities = 29/105 (27%), Positives = 47/105 (44%), Gaps = 5/105 (4%)
Query: 321 HLNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQ 380
+L A+ L K AK A++ +KA+ +EP+ A + P+ A + F+KVL
Sbjct: 469 NLLGAIYLGKGDLAK-AREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLT 527
Query: 381 IDPNNKAAVQKLTQTKQKLREQKIKEKQVYANMFDKFAKHDTEKE 425
IDP N A+ L L + E++ A + + E E
Sbjct: 528 IDPKNLRAILALA----GLYLRTGNEEEAVAWLEKAAELNPQEIE 568
Score = 48.9 bits (117), Expect = 4e-06
Identities = 40/171 (23%), Positives = 63/171 (36%), Gaps = 30/171 (17%)
Query: 236 VPSNKPATYTITM-----NNFEKIKDTWQ--LNSDEKLEQGKLLKERGTTYFKQDKFELA 288
P++ A Y + N+E ++T Q L S + LL G + ++ E A
Sbjct: 257 APNSPLAHYLKALVDFQKKNYEDARETLQDALKSAPEYLPALLLA--GASEYQLGNLEQA 314
Query: 289 ---CRNYKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAMCLLKLKQAKPAKDQCDKAI 345
K P R+ A L+L + A A+
Sbjct: 315 YQYLNQILKYAP----------NSHQARRLL--------ASIQLRLGRVDEAIATLSPAL 356
Query: 346 ELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQTK 396
L+P++ A G AYL L + E A + K ++DP N AA +L +K
Sbjct: 357 GLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAARTQLGISK 407
Score = 47.4 bits (113), Expect = 1e-05
Identities = 42/192 (21%), Positives = 74/192 (38%), Gaps = 22/192 (11%)
Query: 233 KLGVPSNKPATY----TITMNNFEK-IKDTWQLNSDEKLEQGKLLKERGTTYFKQDKFEL 287
LG P N+ + F++ + + + +LL RG Y + EL
Sbjct: 84 SLGYPKNQVLPLLARAYLLQGKFQQVLDELPGKTLLDDEGAAELLALRGLAYLGLGQLEL 143
Query: 288 ACRNYKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAMCLLKLKQAKPAKDQCDKAIEL 347
A ++Y++A L D + K L A L + A+ D+ +
Sbjct: 144 AQKSYEQA---LAID-----PRSLYAK-------LGLAQLALAENRFDEARALIDEVLTA 188
Query: 348 EPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQTKQKLREQKIKEK 407
+P N A +G+ L L ELA ++K + + PNN A + L + + +E
Sbjct: 189 DPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNIAVL--LALATILIEAGEFEEA 246
Query: 408 QVYANMFDKFAK 419
+ +A+ K A
Sbjct: 247 EKHADALLKKAP 258
Score = 42.0 bits (99), Expect = 7e-04
Identities = 19/65 (29%), Positives = 27/65 (41%)
Query: 324 AAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDP 383
L L + A + KA EL+P N A + G + L +P A D + Q+DP
Sbjct: 369 LGEAYLALGDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDP 428
Query: 384 NNKAA 388
A
Sbjct: 429 ELGRA 433
Score = 40.1 bits (94), Expect = 0.002
Identities = 34/166 (20%), Positives = 57/166 (34%), Gaps = 32/166 (19%)
Query: 276 GTTYFKQDKFELACRNYKKAIPYLDFDGGFEGEQETERKKT-LTACHLNAAMCLLKLKQA 334
G Y +Q + A + Y+KA+ +R + A L+ A LL
Sbjct: 710 GDLYLRQKDYPAAIQAYRKAL---------------KRAPSSQNAIKLHRA--LLASGNT 752
Query: 335 KPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQ 394
A + ++ PN+ YL + + A K +Q V++ P+N + L
Sbjct: 753 AEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYQTVVKKAPDNAVVLNNLAW 812
Query: 395 TKQKLREQKIKEKQVYANMFDKFAKHDTEKEEEEKKKEPDVMKTLG 440
E K YA E+ + P ++ TLG
Sbjct: 813 L---YLELKDPRALEYA-----------ERALKLAPNIPAILDTLG 844
Score = 38.1 bits (89), Expect = 0.010
Identities = 30/143 (20%), Positives = 46/143 (32%), Gaps = 9/143 (6%)
Query: 259 QLNSDEKLEQGKLLKERGTTYF---KQDKFELACRNYKKAIPYL---DFDGGFEG-EQET 311
L + L G E+ Y + E A + I L D E
Sbjct: 367 SLLGEAYLALGDF--EKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAA 424
Query: 312 ERKKTLTACHLNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELA 371
+ L L + L+ Q A K + +P+N G YL + A
Sbjct: 425 QLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKA 484
Query: 372 EKDFQKVLQIDPNNKAAVQKLTQ 394
+ F+K L I+P+ A L +
Sbjct: 485 REAFEKALSIEPDFFPAAANLAR 507
Score = 34.3 bits (79), Expect = 0.16
Identities = 28/108 (25%), Positives = 45/108 (41%), Gaps = 11/108 (10%)
Query: 316 TLTAC-------HLNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEP 368
L+AC + AA L+ + K A Q A++ +PN+ +A F G YL L +
Sbjct: 13 ALSACGDQSPEELIEAAKSYLQKNKYKAAIIQLKNALQKDPNDAEARFLLGKIYLALGDY 72
Query: 369 ELAEKDFQKVLQIDPNNKAAVQKLTQTKQKLREQKIKEKQVYANMFDK 416
AEK+ +K L + + L + K +QV + K
Sbjct: 73 AAAEKELRKALSLGYPKNQVLPLLARAYLLQG----KFQQVLDELPGK 116
Score = 32.4 bits (74), Expect = 0.68
Identities = 15/67 (22%), Positives = 26/67 (38%)
Query: 328 LLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKA 387
L A K + L+P++ A +AY + A ++ L++ P+N
Sbjct: 611 QLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTE 670
Query: 388 AVQKLTQ 394
A L Q
Sbjct: 671 AQIGLAQ 677
Score = 31.2 bits (71), Expect = 1.5
Identities = 19/82 (23%), Positives = 35/82 (42%)
Query: 322 LNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQI 381
L A L Q K A ++A + P++ +A+ G A L + A F+K+L +
Sbjct: 571 LALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLAL 630
Query: 382 DPNNKAAVQKLTQTKQKLREQK 403
P++ A+ L ++
Sbjct: 631 QPDSALALLLLADAYAVMKNYA 652
Score = 31.2 bits (71), Expect = 1.5
Identities = 19/98 (19%), Positives = 37/98 (37%), Gaps = 2/98 (2%)
Query: 325 AMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPN 384
A+ + K + A++ A++ P A G + L E A + ++L+ PN
Sbjct: 268 ALVDFQKKNYEDARETLQDALKSAPEYLPALLLAGASEYQLGNLEQAYQYLNQILKYAPN 327
Query: 385 NKAAVQKLTQTKQKLREQKIKEKQVYANMFDKFAKHDT 422
+ A + L +LR ++ E + D
Sbjct: 328 SHQARRLLASI--QLRLGRVDEAIATLSPALGLDPDDP 363
Score = 29.3 bits (66), Expect = 5.9
Identities = 21/117 (17%), Positives = 36/117 (30%), Gaps = 16/117 (13%)
Query: 276 GTTYFKQDKFELACRNYKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAMCLLKLKQAK 335
G A ++KK + + L A +K
Sbjct: 608 GRAQLAAGDLNKAVSSFKKLL---------------ALQPDSALALLLLADAYAVMKNYA 652
Query: 336 PAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKL 392
A +A+EL+P+N +A L E A+K + + + P A +L
Sbjct: 653 KAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKA-ALGFEL 708
>gnl|CDD|233223 TIGR00990, 3a0801s09, mitochondrial precursor proteins import
receptor (72 kDa mitochondrial outermembrane protein)
(mitochondrial import receptor for the ADP/ATP carrier)
(translocase of outermembrane tom70). [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 615
Score = 48.4 bits (115), Expect = 5e-06
Identities = 46/196 (23%), Positives = 70/196 (35%), Gaps = 17/196 (8%)
Query: 213 KEKSRLFVQPQHLWSGKGNDKLGVPSNKPATYTITMNNFEKIKDTWQLNSDEKLEQGKLL 272
K++ R Q + GK +K L+ +E+ + L
Sbjct: 71 KKERRKRKQAEKETEGKTEEKKSTAPKNAPVEPADELPEIDESSVANLSEEERKKYAAKL 130
Query: 273 KERGTTYFKQDKFELACRNYKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAMCLLKLK 332
KE+G ++ F A + Y KAI K + N A C L
Sbjct: 131 KEKGNKAYRNKDFNKAIKLYSKAIEC----------------KPDPVYYSNRAACHNALG 174
Query: 333 QAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDP-NNKAAVQK 391
+ + A+EL+P+ KA RR NAY L + A D ID N+ + Q
Sbjct: 175 DWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQA 234
Query: 392 LTQTKQKLREQKIKEK 407
+ + +K E K KE
Sbjct: 235 VERLLKKFAESKAKEI 250
Score = 44.6 bits (105), Expect = 9e-05
Identities = 40/161 (24%), Positives = 64/161 (39%), Gaps = 22/161 (13%)
Query: 228 GKGNDKLGV--PSNKPAT-YTITMNNFEKIKDTWQLNSDEKLEQGKLLKERGTTYFKQDK 284
G G +LG+ P +K Y FEK D +L E + L RGT + K
Sbjct: 291 GNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIA----LNLRGTFKCLKGK 346
Query: 285 FELACRNYKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAMCLLKLKQAKPAKDQCDKA 344
A + K+I E +T ++ A L+L A++ DKA
Sbjct: 347 HLEALADLSKSI---------------ELDPRVTQSYIKRASMNLELGDPDKAEEDFDKA 391
Query: 345 IELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
++L + ++ R + E A KD+QK + +DP+
Sbjct: 392 LKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDF 432
>gnl|CDD|222123 pfam13432, TPR_16, Tetratricopeptide repeat.
Length = 65
Score = 43.1 bits (102), Expect = 7e-06
Identities = 14/64 (21%), Positives = 21/64 (32%)
Query: 322 LNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQI 381
L A L+ A + A+ P +A G A L A + L
Sbjct: 1 LALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAA 60
Query: 382 DPNN 385
DP++
Sbjct: 61 DPDD 64
>gnl|CDD|191825 pfam07719, TPR_2, Tetratricopeptide repeat. This Pfam entry
includes outlying Tetratricopeptide-like repeats (TPR)
that are not matched by pfam00515.
Length = 34
Score = 42.1 bits (100), Expect = 9e-06
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 353 KAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
+A + G AY L + E A + ++K L++DPNN
Sbjct: 2 EALYNLGLAYYKLGDYEEALEAYEKALELDPNN 34
Score = 29.0 bits (66), Expect = 0.34
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 321 HLNAAMCLLKLKQAKPAKDQCDKAIELEPNN 351
N + KL + A + +KA+EL+PNN
Sbjct: 4 LYNLGLAYYKLGDYEEALEAYEKALELDPNN 34
Score = 27.5 bits (62), Expect = 1.3
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 270 KLLKERGTTYFKQDKFELACRNYKKAI 296
+ L G Y+K +E A Y+KA+
Sbjct: 2 EALYNLGLAYYKLGDYEEALEAYEKAL 28
>gnl|CDD|233924 TIGR02552, LcrH_SycD, type III secretion low calcium response
chaperone LcrH/SycD. Genes in this family are found in
type III secretion operons. LcrH, from Yersinia is
believed to have a regulatory function in the
low-calcium response of the secretion system. The same
protein is also known as SycD (SYC = Specific Yop
Chaperone) for its chaperone role. In Pseudomonas, where
the homolog is known as PcrH, the chaperone role has
been demonstrated and the regulatory role appears to be
absent. ScyD/LcrH contains three central
tetratricopeptide-like repeats that are predicted to
fold into an all-alpha-helical array.
Length = 135
Score = 44.6 bits (106), Expect = 1e-05
Identities = 20/65 (30%), Positives = 29/65 (44%)
Query: 321 HLNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQ 380
L A C LK+ + A D A L+P++ + +F L L EPE A K ++
Sbjct: 54 WLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPESALKALDLAIE 113
Query: 381 IDPNN 385
I N
Sbjct: 114 ICGEN 118
>gnl|CDD|237908 PRK15095, PRK15095, FKBP-type peptidyl-prolyl cis-trans isomerase;
Provisional.
Length = 156
Score = 44.7 bits (106), Expect = 2e-05
Identities = 20/63 (31%), Positives = 36/63 (57%)
Query: 52 VKVHYTGTLLDGTVFDSSKTRGEPFEFDLGKGQVIKAWDRGIATMKKDEVAVFTCKPEYA 111
V VH+T L DG+ +S++ G+P F LG G + + ++ + +K + F+ +PE A
Sbjct: 11 VLVHFTLKLDDGSTAESTRNNGKPALFRLGDGSLSEGLEQQLLGLKVGDKKTFSLEPEAA 70
Query: 112 YGK 114
+G
Sbjct: 71 FGV 73
>gnl|CDD|236875 PRK11189, PRK11189, lipoprotein NlpI; Provisional.
Length = 296
Score = 45.3 bits (108), Expect = 3e-05
Identities = 28/110 (25%), Positives = 41/110 (37%), Gaps = 29/110 (26%)
Query: 342 DKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN---------------- 385
D +EL+P A+ RG A ELA+ D Q DPN+
Sbjct: 122 DSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPYRALWLYLAESKLDP 181
Query: 386 KAAVQKLTQTKQKLREQ------------KIKEKQVYANMFDKFAKHDTE 423
K A + L Q +KL ++ KI E+ + + A +TE
Sbjct: 182 KQAKENLKQRYEKLDKEQWGWNIVEFYLGKISEETLMERL-KAGATDNTE 230
>gnl|CDD|205362 pfam13181, TPR_8, Tetratricopeptide repeat.
Length = 34
Score = 39.0 bits (92), Expect = 1e-04
Identities = 13/33 (39%), Positives = 23/33 (69%)
Query: 353 KAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
+A++ G YL L + E A++ ++K L++DPNN
Sbjct: 2 RAYYLLGQIYLQLGDYEEAKEYYEKALELDPNN 34
Score = 28.6 bits (65), Expect = 0.56
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 321 HLNAAMCLLKLKQAKPAKDQCDKAIELEPNN 351
+ L+L + AK+ +KA+EL+PNN
Sbjct: 4 YYLLGQIYLQLGDYEEAKEYYEKALELDPNN 34
>gnl|CDD|205609 pfam13431, TPR_17, Tetratricopeptide repeat.
Length = 34
Score = 38.7 bits (91), Expect = 1e-04
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 341 CDKAIELEPNNEKAFFRRGNAYLDLNEPELAEK 373
+KA+EL+PNN +A++ L+L + + A +
Sbjct: 2 YEKALELDPNNAEAYYNLALLLLNLGQYDEALQ 34
>gnl|CDD|225605 COG3063, PilF, Tfp pilus assembly protein PilF [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 250
Score = 43.2 bits (102), Expect = 1e-04
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 337 AKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
AK +KA+E +P+ A R + Y L E +LA++ ++K L + PNN
Sbjct: 54 AKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNN 102
Score = 33.2 bits (76), Expect = 0.20
Identities = 34/164 (20%), Positives = 55/164 (33%), Gaps = 51/164 (31%)
Query: 274 ERGTTYFKQDKFELACRNYKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAMCLLKLKQ 333
+ Y +Q + A +N +KA+ E + L HL A KL +
Sbjct: 40 QLALGYLQQGDYAQAKKNLEKAL-------------EHDPSYYLA--HLVRAHYYQKLGE 84
Query: 334 AKPAKDQCDKAIELEP------NNEKAF-------------FRR---------------- 358
A + KA+ L P NN AF F R
Sbjct: 85 NDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLEN 144
Query: 359 -GNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQTKQKLRE 401
G L + + AE+ ++ L++DP A+ +L + K +
Sbjct: 145 LGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGD 188
Score = 32.0 bits (73), Expect = 0.51
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 353 KAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
KA + YL + A+K+ +K L+ DP+
Sbjct: 36 KARLQLALGYLQQGDYAQAKKNLEKALEHDPSY 68
>gnl|CDD|234164 TIGR03302, OM_YfiO, outer membrane assembly lipoprotein YfiO.
Members of this protein family include YfiO, a
near-essential protein of the outer membrane, part of a
complex involved in protein insertion into the bacterial
outer membrane. Many proteins in this family are
annotated as ComL, based on the involvement of this
protein in natural transformation with exogenous DNA in
Neisseria gonorrhoeae. This protein family shows
sequence similarity to, but is distinct from, the
tol-pal system protein YbgF (TIGR02795) [Protein fate,
Protein and peptide secretion and trafficking].
Length = 235
Score = 38.3 bits (90), Expect = 0.004
Identities = 27/137 (19%), Positives = 55/137 (40%), Gaps = 21/137 (15%)
Query: 278 TYFKQDKFELACRNYKKAIPYLDF-DGGFEGEQETERKKTLTACHLNAAMCLLKLKQAKP 336
+++ K L +Y +AI Y + + + E+ + L+ A K
Sbjct: 35 ELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQ------LDLAYAYYKSGDYAE 88
Query: 337 AKDQCDKAIELEPNNEK---AFFRRGNAYL--------DLNEPELAEKDFQKVLQIDPNN 385
A D+ I L PN+ A++ RG + D A + FQ++++ PN+
Sbjct: 89 AIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNS 148
Query: 386 K---AAVQKLTQTKQKL 399
+ A +++ + +L
Sbjct: 149 EYAPDAKKRMDYLRNRL 165
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 37.6 bits (88), Expect = 0.014
Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 11/97 (11%)
Query: 361 AYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQTKQKLREQKIKEKQVYANMFDKFAKH 420
A+L+L E E+ + L ++K+ + +K RE++ KEK+ FA
Sbjct: 390 AFLELTEEEI------EFLTGSKKATKKIKKIVEKAEKKREEEKKEKK-----KKAFAGK 438
Query: 421 DTEKEEEEKKKEPDVMKTLGEWGAEERGRESTNFEKE 457
E+EEEE+K++ + K E AEE E +K+
Sbjct: 439 KKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKKKK 475
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 33.9 bits (78), Expect = 0.018
Identities = 19/75 (25%), Positives = 30/75 (40%), Gaps = 7/75 (9%)
Query: 317 LTACHLNAAMCLLKLKQAKPAKDQCDKAIELE-------PNNEKAFFRRGNAYLDLNEPE 369
L A N A+ L +L A + +KA+EL P +A YL L + +
Sbjct: 4 LAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGDYD 63
Query: 370 LAEKDFQKVLQIDPN 384
A + +K L +
Sbjct: 64 EALEYLEKALALREA 78
>gnl|CDD|222121 pfam13428, TPR_14, Tetratricopeptide repeat.
Length = 44
Score = 32.5 bits (74), Expect = 0.030
Identities = 10/42 (23%), Positives = 19/42 (45%)
Query: 353 KAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQ 394
A A L L + + A ++ L +DP++ A+ L +
Sbjct: 2 AALLALARALLALGDLDEALALLRRALALDPDDPEALLLLAR 43
>gnl|CDD|227122 COG4783, COG4783, Putative Zn-dependent protease, contains TPR
repeats [General function prediction only].
Length = 484
Score = 35.8 bits (83), Expect = 0.048
Identities = 17/71 (23%), Positives = 28/71 (39%)
Query: 325 AMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPN 384
A+ Q A I +P+N G+ L+ N+ + A + +K L +DPN
Sbjct: 313 ALQTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPN 372
Query: 385 NKAAVQKLTQT 395
+ L Q
Sbjct: 373 SPLLQLNLAQA 383
Score = 30.8 bits (70), Expect = 1.5
Identities = 17/58 (29%), Positives = 29/58 (50%)
Query: 328 LLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
LL+ +AK A ++ KA+ L+PN+ A L +P+ A + + L DP +
Sbjct: 350 LLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPED 407
>gnl|CDD|221956 pfam13174, TPR_6, Tetratricopeptide repeat.
Length = 33
Score = 30.9 bits (71), Expect = 0.066
Identities = 8/33 (24%), Positives = 20/33 (60%)
Query: 353 KAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
A ++ AYL L + + A++ +++L+ P++
Sbjct: 1 DALYKLALAYLKLGDTDEAKEALERLLKRYPDS 33
>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1;
Provisional.
Length = 356
Score = 34.4 bits (79), Expect = 0.11
Identities = 29/113 (25%), Positives = 47/113 (41%), Gaps = 15/113 (13%)
Query: 272 LKERGTTYFKQDKFELACRNYKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAMCLLKL 331
L+++ F D F LA Y +AI + + + A +KL
Sbjct: 5 LEDKAKEAFVDDDFALAVDLYTQAI---------------DLDPNNAELYADRAQANIKL 49
Query: 332 KQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPN 384
A +KAIEL+P+ KA+ R+G A + L E + A+ +K + P
Sbjct: 50 GNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPG 102
>gnl|CDD|227343 COG5010, TadD, Flp pilus assembly protein TadD, contains TPR
repeats [Intracellular trafficking and secretion].
Length = 257
Score = 33.6 bits (77), Expect = 0.16
Identities = 13/50 (26%), Positives = 24/50 (48%)
Query: 343 KAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKL 392
KA L P + +A+ G A L + A + +++ L++ PN + L
Sbjct: 125 KAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNL 174
>gnl|CDD|232831 TIGR00115, tig, trigger factor. Trigger factor is a
ribosome-associated molecular chaperone and is the first
chaperone to interact with nascent polypeptide. Trigger
factor can bind at the same time as the signal
recognition particle (SRP), but is excluded by the SRP
receptor (FtsY). The central domain of trigger factor
has peptidyl-prolyl cis/trans isomerase activity. This
protein is found in a single copy in virtually every
bacterial genome [Protein fate, Protein folding and
stabilization].
Length = 408
Score = 33.3 bits (77), Expect = 0.30
Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 3/62 (4%)
Query: 52 VKVHYTGTLLDGTVFDSSKTRGEPFEFDLGKGQVIKAWDRGIATMKKDEVAVFTCKPEYA 111
V + + G + DG F+ K E F +LG GQ I ++ + MK E
Sbjct: 153 VTIDFEGFI-DGEAFEGGK--AENFSLELGSGQFIPGFEEQLVGMKAGEEKEIKVTFPED 209
Query: 112 YG 113
Y
Sbjct: 210 YH 211
>gnl|CDD|237944 PRK15327, PRK15327, type III secretion system needle complex
protein PrgH; Provisional.
Length = 393
Score = 32.1 bits (73), Expect = 0.66
Identities = 19/91 (20%), Positives = 28/91 (30%), Gaps = 22/91 (24%)
Query: 77 EFDLGKGQVIKAWDRGIATMKKDEVAVFTCKPEYAYGKQGSPPTIPPDSTLV-FEVEMIS 135
EF L G +F A G P +P DS + + ++
Sbjct: 28 EFPLLTG-----------------KTLFVVGQSDALTASGQLPDLPADSFFIPLDHGGVN 70
Query: 136 WEAE-DISPTHDGGIRREILEEGASFSTPKD 165
+E + D T I E+ EG S
Sbjct: 71 FEIQVDTDAT--EIILHELK-EGNSEERSVQ 98
>gnl|CDD|114629 pfam05917, DUF874, Helicobacter pylori protein of unknown function
(DUF874). This family consists of several hypothetical
proteins specific to Helicobacter pylori. The function
of this family is unknown.
Length = 417
Score = 31.4 bits (70), Expect = 0.96
Identities = 50/186 (26%), Positives = 79/186 (42%), Gaps = 10/186 (5%)
Query: 287 LACRNYKKAIPYLDFDGGFEGEQETERKKTLTACHLNAAMCLLKLKQAKPAKDQCDKAIE 346
+AC K+A L D + E E + +A L AA LL A D DK IE
Sbjct: 74 IACGKAKEADDKLQ-DKSKQAEHENQINWFKSAIGLTAAAALL---LAACFADDQDKKIE 129
Query: 347 LEPNN---EKAFFRRGNAYLDL-NEPELAEKDFQKVLQIDPNNKAAVQKLTQTKQKLREQ 402
L E A R + ++L E + E++ QK + + K Q KQK ++
Sbjct: 130 LAQAKKEAENARDRANKSGIELEQEEQKTEQEKQKTEKEGIELANSQIKAEQEKQKTEQE 189
Query: 403 KIKEKQVYANMFDKFAKHDTEKEEEEKKKEPDVMKTLGEWGAEERGRESTNFEKENPNIF 462
K K +Q + K+ E E+E++K E + + E ++ +E+ +EN N F
Sbjct: 190 KQKTEQEKQKTSNIANKNAIELEQEKQKTENEKQDLIKE--QKDFIKEAEQNCQENHNQF 247
Query: 463 MLDGTG 468
+ G
Sbjct: 248 FIKKLG 253
>gnl|CDD|222122 pfam13429, TPR_15, Tetratricopeptide repeat.
Length = 279
Score = 31.1 bits (71), Expect = 1.2
Identities = 7/31 (22%), Positives = 15/31 (48%)
Query: 355 FFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
R Y +P+ A +D+++ L + P +
Sbjct: 148 LSARAEYYRQTGQPDAALRDYRRALALPPAS 178
>gnl|CDD|214922 smart00935, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a molecular
chaperone that interacts with unfolded proteins as they
emerge in the periplasm from the Sec translocation
machinery.
Length = 140
Score = 29.5 bits (67), Expect = 1.6
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 374 DFQKVLQIDPNNKAAVQKLTQTKQKLREQKIKEKQVYANMFDKFAKH-DTEKEEEEKKKE 432
D QK+LQ P KAA ++L + +K + + K ++ + +K K T E +KKE
Sbjct: 5 DVQKILQESPAGKAAQKQLEKEFKKRQAELEKLEKELQKLKEKLQKDAATLSEAAREKKE 64
Query: 433 PDVMK 437
++ K
Sbjct: 65 KELQK 69
>gnl|CDD|226687 COG4235, COG4235, Cytochrome c biogenesis factor [Posttranslational
modification, protein turnover, chaperones].
Length = 287
Score = 30.4 bits (69), Expect = 2.0
Identities = 12/66 (18%), Positives = 27/66 (40%)
Query: 337 AKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQTK 396
A+ +A+ L+P N +A A + + A +Q +L + P + + ++
Sbjct: 212 ARALLRQALALDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIERSI 271
Query: 397 QKLREQ 402
+ Q
Sbjct: 272 ARALAQ 277
Score = 29.7 bits (67), Expect = 3.1
Identities = 8/37 (21%), Positives = 17/37 (45%)
Query: 349 PNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNN 385
P + + + G AY+ L A ++ L++ +N
Sbjct: 153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDN 189
>gnl|CDD|183140 PRK11447, PRK11447, cellulose synthase subunit BcsC; Provisional.
Length = 1157
Score = 30.4 bits (69), Expect = 2.6
Identities = 24/108 (22%), Positives = 46/108 (42%), Gaps = 20/108 (18%)
Query: 302 DGGFEGEQETERKKTLTACHLNA----AMCLLKLKQAKPAK--DQCDKAIELEPNNEK-- 353
D G G+ E ++ + A ++ A+ +Q A+ Q +KA+ L+P++
Sbjct: 281 DSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRD 340
Query: 354 ------------AFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAV 389
++G+A L N AE+ +Q+ Q+D + AV
Sbjct: 341 KWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDSYAV 388
Score = 29.3 bits (66), Expect = 5.9
Identities = 16/64 (25%), Positives = 31/64 (48%)
Query: 329 LKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAA 388
LK A+ +A +++ + A G+ + + AE+ +Q+ L++DP N A
Sbjct: 362 LKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNA 421
Query: 389 VQKL 392
V+ L
Sbjct: 422 VRGL 425
>gnl|CDD|234406 TIGR03939, PGA_TPR_OMP, poly-beta-1,6 N-acetyl-D-glucosamine export
porin PgaA. Members of this protein family are the
poly-beta-1,6 N-acetyl-D-glucosamine (PGA) export porin
PgaA of Gram-negative bacteria. There is no counterpart
in the poly-beta-1,6 N-acetyl-D-glucosamine biosynthesis
systems of Gram-positive bacteria such as Staphylococcus
epidermidis. The PGA polysaccharide adhesin is a
critical determinant of biofilm formation. The conserved
C-terminal domain of this outer membrane protein is
preceded by a variable number of TPR repeats.
Length = 800
Score = 30.0 bits (68), Expect = 2.9
Identities = 21/128 (16%), Positives = 48/128 (37%), Gaps = 10/128 (7%)
Query: 279 YFKQDKFELACR---NYKKAIPYL--DFDGGFEGEQETERKKTLTACHLNAAMCLLKLKQ 333
Y + ++++ A K++ P DF + + + A
Sbjct: 356 YLEAEQYDEAQALLDGLKESTPPQRWDFTRSTKAPNDDYLEAQQLLVLSLAW-----RGD 410
Query: 334 AKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLT 393
A+ + D+ + P N + Y P AE+++++ +DP++ +A +
Sbjct: 411 LPEAEARLDELLATAPGNPWLRLALADVYRARGWPRRAEQEYKQAESLDPDSLSAERGQA 470
Query: 394 QTKQKLRE 401
+T L+E
Sbjct: 471 ETALDLQE 478
Score = 28.5 bits (64), Expect = 9.7
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 358 RGNAYLDLNEPELAEKDFQKVLQIDP--NNKAAVQKL 392
+AYL L +PE A ++++ +P NN KL
Sbjct: 316 VADAYLALRQPEKALPIYRELAAAEPADNNLELTIKL 352
>gnl|CDD|227666 COG5374, COG5374, Uncharacterized conserved protein [Function
unknown].
Length = 192
Score = 29.4 bits (66), Expect = 3.2
Identities = 9/44 (20%), Positives = 21/44 (47%)
Query: 389 VQKLTQTKQKLREQKIKEKQVYANMFDKFAKHDTEKEEEEKKKE 432
++ + Q L E K ++ + DK+ + + ++E KK+
Sbjct: 148 LKARLRKAQILLEGLQKNQEELFKLLDKYNELREQVQKESSKKK 191
>gnl|CDD|163511 TIGR03799, NOD_PanD_pyr, putative pyridoxal-dependent aspartate
1-decarboxylase. This enzyme is proposed here to be a
form of aspartate 1-decarboxylase, pyridoxal-dependent,
that represents a non-orthologous displacement to the
more widely distributed pyruvoyl-dependent form
(TIGR00223). Aspartate 1-decarboxylase makes
beta-alanine, used usually in pathothenate biosynthesis,
by decarboxylation from asparatate. A number of species
with the PanB and PanC enzymes, however, lack PanD. This
protein family occurs in a number of Proteobacteria that
lack PanD. This enzyme family appears to be a
pyridoxal-dependent enzyme (see pfam00282). The family
was identified by Partial Phylogenetic Profiling;
members in Geobacter sulfurreducens, G. metallireducens,
and Pseudoalteromonas atlantica are clustered with the
genes for PanB and PanC. We suggest the gene symbol panP
(panthothenate biosynthesis enzyme, Pyridoxal-dependent)
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Pantothenate and coenzyme A].
Length = 522
Score = 30.0 bits (68), Expect = 3.4
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 379 LQIDPNNKAAVQKLTQTKQKLREQKIK 405
++ D NN+ V L +L EQ IK
Sbjct: 239 IKTDANNRIDVDALRDKCAELAEQNIK 265
>gnl|CDD|227310 COG4976, COG4976, Predicted methyltransferase (contains TPR repeat)
[General function prediction only].
Length = 287
Score = 29.0 bits (65), Expect = 4.8
Identities = 25/98 (25%), Positives = 45/98 (45%), Gaps = 6/98 (6%)
Query: 324 AAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDP 383
A L + A+ A + ++A+EL P +FR G E + A +++VL++DP
Sbjct: 1 YAYMLAESGDAEAAAELYNQALELAPEWAAGWFRLGEYTEKAGEFDAAAAAYEEVLELDP 60
Query: 384 NNK--AAVQKLTQTKQKLREQKIKEKQVY-ANMFDKFA 418
+ AA++ + E K Y +FD++A
Sbjct: 61 EDHGGAALKLAVLGRG---ETPEKPPSAYVETLFDQYA 95
>gnl|CDD|178342 PLN02741, PLN02741, riboflavin synthase.
Length = 194
Score = 28.9 bits (65), Expect = 4.9
Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 8/63 (12%)
Query: 18 MVESKAIDLTDDGGVLKEIKTPGVGDTTPSAGCKVKVHYTGTLLDGTVFDSSKTRGEPFE 77
M E K++ +TDDGG +I+ V D G + V+ GT L T FD G+ F
Sbjct: 9 MGEVKSLGVTDDGGFDLKIEASTVLDGV-KLGDSIAVN--GTCLTVTEFD-----GDEFT 60
Query: 78 FDL 80
L
Sbjct: 61 VGL 63
>gnl|CDD|237080 PRK12370, PRK12370, invasion protein regulator; Provisional.
Length = 553
Score = 29.4 bits (66), Expect = 4.9
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 317 LTACHLN-AAMCLLKLKQA-KPAKDQCDKAIELEPNNEKA 354
L C+L+ A M + + A AK+ KA EL+ NN +A
Sbjct: 301 LAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQA 340
>gnl|CDD|132555 TIGR03516, ppisom_GldI, peptidyl-prolyl isomerase, gliding
motility-associated. Members of this protein family are
exclusive to the Bacteroidetes phylum (previously
Cytophaga-Flavobacteria-Bacteroides). GldI is a
FKBP-type peptidyl-prolyl cis-trans isomerase
(pfam00254) linked to a type of rapid surface gliding
motility found in certain Bacteroidetes, such as
Flavobacterium johnsoniae and Cytophaga hutchinsonii.
Knockout of this gene abolishes the gliding phenotype.
Gliding motility appears closely linked to chitin
utilization in the model species Flavobacterium
johnsoniae. This family is only found in Bacteroidetes
containing the suite of genes proposed to confer the
gliding motility phenotype.
Length = 177
Score = 28.6 bits (64), Expect = 5.3
Identities = 25/92 (27%), Positives = 38/92 (41%), Gaps = 1/92 (1%)
Query: 44 TTPSAGCKVKVHYTGTLLDGTVFDSSKTRGEPFEFDLGKGQVIKAWDRGIATMKKDEVAV 103
TTP G V Y LDG V S+ P + + + + G+ MK+ E A
Sbjct: 84 TTPEFGDLVTFEYDIRALDGDVI-YSEEELGPQTYKVDQQDLFSGLRDGLKLMKEGETAT 142
Query: 104 FTCKPEYAYGKQGSPPTIPPDSTLVFEVEMIS 135
F AYG G I P+ ++ V +++
Sbjct: 143 FLFPSHKAYGYYGDQNKIGPNLPIISTVTLLN 174
>gnl|CDD|239500 cd03406, Band_7_3, A subgroup of the band 7 domain of flotillin
(reggie) like proteins. This subgroup contains proteins
similar to stomatin, prohibitin, flotillin, HlfK/C and
podicin. Many of these band 7 domain-containing
proteins are lipid raft-associated. Individual proteins
of this band 7 domain family may cluster to form
membrane microdomains which may in turn recruit
multiprotein complexes. Microdomains formed from
flotillin proteins may in addition be dynamic units with
their own regulatory functions. Flotillins have been
implicated in signal transduction, vesicle trafficking,
cytoskeleton rearrangement and are known to interact
with a variety of proteins. Stomatin interacts with and
regulates members of the degenerin/epithelia Na+ channel
family in mechanosensory cells of Caenorhabditis elegans
and vertebrate neurons and participates in trafficking
of Glut1 glucose transporters. Prohibitin may act as a
chaperone for the stabilization of mitochondrial
proteins. Prokaryotic HflK/C plays a role in the
decision between lysogenic and lytic cycle growth during
lambda phage infection. Flotillins have been implicated
in the progression of prion disease, in the pathogenesis
of neurodegenerative diseases such as Parkinson's and
Alzheimer's disease and, in cancer invasion and
metastasis. Mutations in the podicin gene give rise to
autosomal recessive steroid resistant nephritic
syndrome.
Length = 280
Score = 29.0 bits (65), Expect = 5.5
Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 16/100 (16%)
Query: 306 EGEQETERKKTLTACHLNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDL 365
E E ETERKK + A + + Q K+ + E+E ++AF R
Sbjct: 186 EKEAETERKKAVIEAEKVAQVAKILFGQKVMEKETEKRISEIE---DEAFLAR------- 235
Query: 366 NEPELAEKDFQKVLQIDPNNKAAVQKLTQTKQKLREQKIK 405
E A+ ++ + A KL T + L K +
Sbjct: 236 -EKAKADAEYYTAQKE-----AEANKLKLTPEYLELMKYE 269
>gnl|CDD|225504 COG2956, COG2956, Predicted N-acetylglucosaminyl transferase
[Carbohydrate transport and metabolism].
Length = 389
Score = 28.9 bits (65), Expect = 5.6
Identities = 15/66 (22%), Positives = 26/66 (39%), Gaps = 7/66 (10%)
Query: 325 AMCLLKLKQAKPAKDQCDKAIEL-------EPNNEKAFFRRGNAYLDLNEPELAEKDFQK 377
A +L Q A D+A EL + +A G L + + A + ++
Sbjct: 180 AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALER 239
Query: 378 VLQIDP 383
VL+ +P
Sbjct: 240 VLEQNP 245
>gnl|CDD|225323 COG2603, COG2603, Predicted ATPase [General function prediction
only].
Length = 334
Score = 29.0 bits (65), Expect = 5.8
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 350 NNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQTKQK 398
+ E RG+++ EP+ ++K F+ VL I+ A Q L K+
Sbjct: 165 DLEGLANHRGSSFGRTLEPQPSQKAFENVLAIEELKLQARQVLEAEKRI 213
>gnl|CDD|233149 TIGR00845, caca, sodium/calcium exchanger 1. The Ca2+:Cation
Antiporter (CaCA) Family (TC 2.A.19)Proteins of the CaCA
family are found ubiquitously, having been identified in
animals, plants, yeast, archaea and widely divergent
bacteria.All of the characterized animal proteins
catalyze Ca2+:Na+ exchange although some also transport
K+. The NCX1 plasma membrane protein exchanges 3 Na+ for
1 Ca2+. The E. coli ChaA protein catalyzes Ca2+:H+
antiport but may also catalyze Na+:H+ antiport. All
remaining well-characterized members of the family
catalyze Ca2+:H+ exchange.This model is specific for the
eukaryotic sodium ion/calcium ion exchangers of the Caca
family [Transport and binding proteins, Other].
Length = 928
Score = 29.4 bits (66), Expect = 5.8
Identities = 13/63 (20%), Positives = 33/63 (52%)
Query: 339 DQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKDFQKVLQIDPNNKAAVQKLTQTKQK 398
D+ +K I ++ +++ + + +++L EP A++ + L ++ QKLT +++
Sbjct: 590 DETEKTIRVKIVDDEEYEKNDTFFIELGEPRWAKRGIKAALLLNETITDDDQKLTSKEEE 649
Query: 399 LRE 401
R
Sbjct: 650 ERR 652
>gnl|CDD|223420 COG0343, Tgt, Queuine/archaeosine tRNA-ribosyltransferase
[Translation, ribosomal structure and biogenesis].
Length = 372
Score = 28.8 bits (65), Expect = 6.4
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 9/48 (18%)
Query: 132 EMISWEAEDISPTHDGGIR-------REILEEGASFSTPKDGANVEIT 172
+ + W+ T GG + R+I EEG +F + DG+ V +T
Sbjct: 76 KFMGWDG--PILTDSGGFQVFSLGDLRKITEEGVTFKSHIDGSKVFLT 121
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB [Transport and binding proteins, Other,
Cellular processes, Pathogenesis].
Length = 346
Score = 28.6 bits (64), Expect = 6.5
Identities = 10/57 (17%), Positives = 23/57 (40%)
Query: 376 QKVLQIDPNNKAAVQKLTQTKQKLREQKIKEKQVYANMFDKFAKHDTEKEEEEKKKE 432
Q+ + +KL Q ++ +Q+ E+ + + A K+ E+ K+
Sbjct: 57 QQKKPAAKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQ 113
>gnl|CDD|234956 PRK01490, tig, trigger factor; Provisional.
Length = 435
Score = 29.0 bits (66), Expect = 6.7
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 4/59 (6%)
Query: 52 VKVHYTGTLLDGTVFDSSKTRGEPFEFDLGKGQVIKAWDRGIATMKKDEVAVFTCK-PE 109
V + + G++ DG F+ K E F +LG G+ I ++ + MK E PE
Sbjct: 164 VTIDFVGSI-DGEEFEGGK--AEDFSLELGSGRFIPGFEEQLVGMKAGEEKTIDVTFPE 219
>gnl|CDD|217803 pfam03938, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a molecular
chaperone that interacts with unfolded proteins as they
emerge in the periplasm from the Sec translocation
machinery.
Length = 157
Score = 28.0 bits (63), Expect = 7.2
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 374 DFQKVLQIDPNNKAAVQKLTQTKQKLREQKIKEKQVYANMFDKF-AKHDTEKEEEEKKKE 432
D QKVL P KAA ++L + +KL+ + K+++ K + T EE K K+
Sbjct: 22 DVQKVLSESPAGKAAQKQLEKEFKKLQAELQKKEKELQKEEQKLQKQAATLSEEARKAKQ 81
Query: 433 PDVMK 437
++ +
Sbjct: 82 QELQQ 86
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 29.0 bits (64), Expect = 7.4
Identities = 43/205 (20%), Positives = 83/205 (40%), Gaps = 14/205 (6%)
Query: 253 KIKDTWQLNSDEKLEQGKLLKERGTTYFKQDKFELACRNYKKAIPYLDFDGGFEGEQETE 312
+I++ +L +EK + + K+ K ++ + A KK + L E ++ E
Sbjct: 1593 RIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKA-EEEKKKVEQLKKKEAEEKKKAEE 1651
Query: 313 RKKTLTACHLNAAMCLLKLKQAKPAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAE 372
KK + AA K ++ K ++ KA E E +A +
Sbjct: 1652 LKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKE-------------A 1698
Query: 373 KDFQKVLQIDPNNKAAVQKLTQTKQKLREQKIKEKQVYANMFDKFAKHDTEKEEEEKKKE 432
++ +K ++ +K + K+ E KIK ++ + K + K++EE+KK+
Sbjct: 1699 EEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKK 1758
Query: 433 PDVMKTLGEWGAEERGRESTNFEKE 457
+K E AEE +E +E
Sbjct: 1759 IAHLKKEEEKKAEEIRKEKEAVIEE 1783
>gnl|CDD|225725 COG3184, COG3184, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 183
Score = 27.9 bits (62), Expect = 7.9
Identities = 12/59 (20%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 367 EPELAEKDFQKVLQIDPNNKAAVQKLTQTKQKLREQKIKEKQVYANMFDKFAKHDTEKE 425
P+ A+ +++Q P+ +A + L + +K + + + +AK TE+E
Sbjct: 56 LPQYAQMLAAELIQAKPDQQALI--LERYDEKALKLAPRRADLEREAALLYAKIFTEEE 112
>gnl|CDD|173592 PTZ00401, PTZ00401, aspartyl-tRNA synthetase; Provisional.
Length = 550
Score = 28.8 bits (64), Expect = 8.0
Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 3/43 (6%)
Query: 252 EKIKDTWQLNS-DEKLEQGKLLKER-GTTYFKQDKFELACRNY 292
EK+ T +N+ +EKL GKL+KER GT +F D+F + R +
Sbjct: 409 EKMAPTDDINTTNEKL-LGKLVKERYGTDFFISDRFPSSARPF 450
>gnl|CDD|215967 pfam00519, PPV_E1_C, Papillomavirus helicase. This protein is a
DNA helicase that is required for initiation of viral
DNA replication. This protein forms a complex with the
E2 protein pfam00508.
Length = 432
Score = 28.3 bits (64), Expect = 9.7
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 336 PAKDQCDKAIELEPNNEKAFFRRGNAYLDLNEPELAEKD 374
P + + EL N K+FF R + LDL++ E E+D
Sbjct: 385 PFDENGNPVFELTDANWKSFFERLWSQLDLSDQEDEEED 423
>gnl|CDD|223618 COG0544, Tig, FKBP-type peptidyl-prolyl cis-trans isomerase
(trigger factor) [Posttranslational modification,
protein turnover, chaperones].
Length = 441
Score = 28.4 bits (64), Expect = 9.9
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 3/56 (5%)
Query: 52 VKVHYTGTLLDGTVFDSSKTRGEPFEFDLGKGQVIKAWDRGIATMKKDEVAVFTCK 107
V + + G++ DG F+ K F +LG G+ I ++ + MK E
Sbjct: 164 VTIDFEGSV-DGEEFEGGKAEN--FSLELGSGRFIPGFEDQLVGMKAGEEKDIKVT 216
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.312 0.132 0.383
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,190,024
Number of extensions: 2371749
Number of successful extensions: 1966
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1890
Number of HSP's successfully gapped: 138
Length of query: 473
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 373
Effective length of database: 6,502,202
Effective search space: 2425321346
Effective search space used: 2425321346
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 61 (27.2 bits)