RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3014
(570 letters)
>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 = 92.1 bits (229), Expect = 2e-22
Identities = 42/99 (42%), Positives = 61/99 (61%)
Query: 13 LLKDKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKTI 72
L + GN + ++ EA+E Y +A++LD N + N +AA+ K G YE+ALED EK +
Sbjct: 2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKAL 61
Query: 73 SLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPN 111
L PD K Y G A LG+Y+E++ YE+ L+LDPN
Sbjct: 62 ELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
Score = 89.4 bits (222), Expect = 1e-21
Identities = 37/98 (37%), Positives = 55/98 (56%)
Query: 379 EEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGLKDCETC 438
E GN +K G Y +A++ Y +A+ +PD+ Y N AA Y KL ++ L+D E
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKA 60
Query: 439 LKLDPKFLKGWIRKGKILQGMQQQSKAIDAYEKALELD 476
L+LDP K + G + + +A++AYEKALELD
Sbjct: 61 LELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELD 98
Score = 70.1 bits (172), Expect = 8e-15
Identities = 32/96 (33%), Positives = 54/96 (56%), Gaps = 3/96 (3%)
Query: 251 KELGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIEN 310
LGN YK +++EAL +Y KA+E DP + N+AA Y++ +Y++ +E Y + +E
Sbjct: 4 LNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALEL 63
Query: 311 RADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMS 346
D AKA +G Y K+ ++ A +EK++
Sbjct: 64 DPDN---AKAYYNLGLAYYKLGKYEEALEAYEKALE 96
Score = 53.5 bits (129), Expect = 5e-09
Identities = 34/126 (26%), Positives = 58/126 (46%), Gaps = 26/126 (20%)
Query: 319 KALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPEIRTLISEMEKKIKEEEKKAYIDPVKA 378
+AL +GN Y K+ D+ A Y+EK++ ++ + AY +
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKAL-----------------ELDPDNADAYYN---- 39
Query: 379 EEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGLKDCETC 438
+K GKY +A+++Y +A+ +PD+ K Y N Y KL ++ L+ E
Sbjct: 40 -----LAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKA 94
Query: 439 LKLDPK 444
L+LDP
Sbjct: 95 LELDPN 100
Score = 50.5 bits (121), Expect = 6e-08
Identities = 25/63 (39%), Positives = 38/63 (60%)
Query: 50 NRSAAFAKEGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLD 109
N + K G+Y++ALE EK + L PD Y +A LG+Y+E++ YE+ L+LD
Sbjct: 5 NLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD 64
Query: 110 PNN 112
P+N
Sbjct: 65 PDN 67
Score = 43.9 bits (104), Expect = 1e-05
Identities = 22/66 (33%), Positives = 34/66 (51%)
Query: 12 SLLKDKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKT 71
+ A + + EA+E Y +A++LD N + N A+ K G YE+ALE EK
Sbjct: 35 DAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKA 94
Query: 72 ISLKPD 77
+ L P+
Sbjct: 95 LELDPN 100
Score = 27.3 bits (61), Expect = 6.6
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 253 LGNEAYKKKNFEEALAHYNKAVEFDPT 279
LG YK +EEAL Y KA+E DP
Sbjct: 74 LGLAYYKLGKYEEALEAYEKALELDPN 100
Score = 27.3 bits (61), Expect = 8.8
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 82 YSRKGSALSYLGRYKESISTYEEGLKLDPNNEQ 114
G+ LG Y E++ YE+ L+LDP+N
Sbjct: 3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNAD 35
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 68.5 bits (168), Expect = 1e-14
Identities = 28/68 (41%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 377 KAEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKL-AAFDLGLKDC 435
AE K GN LFK G Y +A++ Y +A+ +PD+ + Y N A Y KL ++ L+D
Sbjct: 2 NAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALEDL 61
Query: 436 ETCLKLDP 443
E L+LDP
Sbjct: 62 EKALELDP 69
Score = 59.6 bits (145), Expect = 2e-11
Identities = 29/65 (44%), Positives = 42/65 (64%), Gaps = 1/65 (1%)
Query: 13 LLKDKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEG-NYEKALEDAEKT 71
LK+ GNA + ++ EAIEAY +A++LD N + N + A+ K G +YE+ALED EK
Sbjct: 5 ALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALEDLEKA 64
Query: 72 ISLKP 76
+ L P
Sbjct: 65 LELDP 69
Score = 52.7 bits (127), Expect = 4e-09
Identities = 19/61 (31%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 245 RSAKKEKELGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKE-YDQCIEQ 303
+A+ K LGN +K +++EA+ Y KA+E DP + N+A Y + + Y++ +E
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALED 60
Query: 304 Y 304
Sbjct: 61 L 61
Score = 49.2 bits (118), Expect = 7e-08
Identities = 23/65 (35%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 47 LFSNRSAAFAKEGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLG-RYKESISTYEEG 105
N A K G+Y++A+E EK + L PD + Y A LG Y+E++ E+
Sbjct: 5 ALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALEDLEKA 64
Query: 106 LKLDP 110
L+LDP
Sbjct: 65 LELDP 69
Score = 33.4 bits (77), Expect = 0.032
Identities = 17/34 (50%), Positives = 20/34 (58%)
Query: 449 WIRKGKILQGMQQQSKAIDAYEKALELDASNAEA 482
G L + +AI+AYEKALELD NAEA
Sbjct: 6 LKNLGNALFKLGDYDEAIEAYEKALELDPDNAEA 39
Score = 32.7 bits (75), Expect = 0.054
Identities = 15/31 (48%), Positives = 20/31 (64%)
Query: 82 YSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
G+AL LG Y E+I YE+ L+LDP+N
Sbjct: 6 LKNLGNALFKLGDYDEAIEAYEKALELDPDN 36
Score = 26.5 bits (59), Expect = 7.7
Identities = 14/58 (24%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 318 AKALQRIGNCYKKMEDWKNAKVYFEKSMS-EHRTPEIRTLISEMEKKIKEEEKKAYID 374
A+AL+ +GN K+ D+ A +EK++ + E ++ K+ ++ ++A D
Sbjct: 3 AEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALED 60
>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 = 67.3 bits (164), Expect = 1e-11
Identities = 57/203 (28%), Positives = 93/203 (45%), Gaps = 23/203 (11%)
Query: 290 VYFERKEYDQCIEQYIQKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHR 349
VY++RK Q + + R K K + KK KNA V E
Sbjct: 53 VYYQRKGQQQRESKPKISKKERRKRKQAEKETEG-KTEEKKSTAPKNAPVE---PADELP 108
Query: 350 TPEIRTLISEMEKKIKEEEKKAYIDPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNP 409
+ ++ + EEE+K Y A + KE+GN+ ++N + A+K Y++AI P
Sbjct: 109 EIDESSVA-----NLSEEERKKY-----AAKLKEKGNKAYRNKDFNKAIKLYSKAIECKP 158
Query: 410 DDPKYYSNRAACYTKLAAFDLGLKDCETCLKLDPKFLKGWIRKGKILQGMQQQSKAIDAY 469
D P YYSNRAAC+ L ++ ++D L+LDP + K R+ G+ + + A+
Sbjct: 159 D-PVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADAL--- 214
Query: 470 EKALELDASNAEAVEGYRQCSIA 492
LD + + ++G+R A
Sbjct: 215 -----LDLTASCIIDGFRNEQSA 232
Score = 61.2 bits (148), Expect = 9e-10
Identities = 76/323 (23%), Positives = 138/323 (42%), Gaps = 53/323 (16%)
Query: 207 DAEEMDVDPQPPSPKKAPSPPPAKKPAEPEDKN---LTDEQRS--AKKEKELGNEAYKKK 261
+ E + + +PK AP P + P E ++ + L++E+R A K KE GN+AY+ K
Sbjct: 83 ETEGKTEEKKSTAPKNAPVEPADELP-EIDESSVANLSEEERKKYAAKLKEKGNKAYRNK 141
Query: 262 NFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIENRADFKLIAKAL 321
+F +A+ Y+KA+E P D + +N AA + ++++ +E +E D+ +KAL
Sbjct: 142 DFNKAIKLYSKAIECKP-DPVYYSNRAACHNALGDWEKVVEDTTAALELDPDY---SKAL 197
Query: 322 QRIGNCYKKMEDWKNAKVYFEKSM------SEHRTPEI-RTLISEMEKKIKE--EEKKAY 372
R N Y + + +A + S +E + R L E K KE E K
Sbjct: 198 NRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPEN 257
Query: 373 IDPV---------------------KAEEAKERGNELFKNGK----------YADAVKEY 401
+ V E +E GN + G Y +A + +
Sbjct: 258 LPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAF 317
Query: 402 TEAINRNPDDPK--YYSNRAACYTKLAAFDLG-LKDCETCLKLDPKFLKGWIRKGKILQG 458
+A++ K N + L L L D ++LDP+ + +I++ +
Sbjct: 318 EKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLE 377
Query: 459 MQQQSKAIDAYEKALELDASNAE 481
+ KA + ++KAL+L++ + +
Sbjct: 378 LGDPDKAEEDFDKALKLNSEDPD 400
Score = 60.8 bits (147), Expect = 1e-09
Identities = 95/484 (19%), Positives = 176/484 (36%), Gaps = 72/484 (14%)
Query: 14 LKDKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKTIS 73
LK+KGN A + +F +AI+ YS+AI+ + + +SNR+A G++EK +ED +
Sbjct: 130 LKEKGNKAYRNKDFNKAIKLYSKAIECK-PDPVYYSNRAACHNALGDWEKVVEDTTAALE 188
Query: 74 LKPDWPKGYSRKGSALSYLGRYKESISTYE-EGLKLDPNNEQMKEAIKDVRNQEMNDMNR 132
L PD+ K +R+ +A LG+Y +++ + NEQ +A++ R + ++
Sbjct: 189 LDPDYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQAVE--RLLKKFAESK 246
Query: 133 GDPFANLFSDPNIFVQLQLDPRTKPFLSDPSYVQMIKEIQKDPSLMTTKLKDPRMMTTLS 192
I +Y+Q + + L + D
Sbjct: 247 AK---------EILETKP--ENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQL 295
Query: 193 VLLGVNMSSTMGDGDAEEMDVDPQPPSPKKAPSPPPAKKPAEPEDKNLTDEQRSAKKEKE 252
L + S + E A+ + D E+ +
Sbjct: 296 QLGLKSPESKADESYEE------------------AARAFEKALDLGKLGEKEAIALNLR 337
Query: 253 LGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIENRA 312
G K EALA +K++E DP A++ E + D+ E + + ++
Sbjct: 338 -GTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALK--- 393
Query: 313 DFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPEIRTLISEMEKKIKEEEKKAY 372
+ ++ +Y+ HR ++ + E + K+ +K
Sbjct: 394 -------------------LNSEDPDIYY------HRA-QLHFIKGEFAQAGKDYQKSID 427
Query: 373 IDPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGL 432
+DP + G +K G A ++ + P+ P Y+ FD +
Sbjct: 428 LDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAI 487
Query: 433 KDCETCLKLDPKFLKG-------WIRKGKIL-QGMQQQSKAIDAYEKALELDASNAEAVE 484
+ +T ++L+ + K I K L Q Q +A + EKAL +D AV
Sbjct: 488 EKFDTAIELEKE-TKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVA 546
Query: 485 GYRQ 488
Q
Sbjct: 547 TMAQ 550
Score = 33.8 bits (77), Expect = 0.26
Identities = 23/103 (22%), Positives = 49/103 (47%), Gaps = 7/103 (6%)
Query: 5 QSLVYEVSLLKDKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKA 64
QS + S+ + G+ +A E + +A+KL+ + ++ +R+ +G + +A
Sbjct: 366 QSYIKRASMNLELGDPD-------KAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQA 418
Query: 65 LEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLK 107
+D +K+I L PD+ + + G G S++T+ K
Sbjct: 419 GKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKK 461
>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1;
Provisional.
Length = 356
Score = 64.0 bits (156), Expect = 5e-11
Identities = 39/110 (35%), Positives = 62/110 (56%)
Query: 12 SLLKDKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKT 71
L+DK A ++F A++ Y++AI LD N L+++R+ A K GN+ +A+ DA K
Sbjct: 3 KDLEDKAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKA 62
Query: 72 ISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNNEQMKEAIKD 121
I L P K Y RKG+A L Y+ + + E+G L P + + + IK+
Sbjct: 63 IELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPGDSRFTKLIKE 112
Score = 52.9 bits (127), Expect = 2e-07
Identities = 32/133 (24%), Positives = 66/133 (49%)
Query: 378 AEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGLKDCET 437
A++ +++ E F + +A AV YT+AI+ +P++ + Y++RA KL F + D
Sbjct: 2 AKDLEDKAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANK 61
Query: 438 CLKLDPKFLKGWIRKGKILQGMQQQSKAIDAYEKALELDASNAEAVEGYRQCSIAVSSNP 497
++LDP K ++RKG +++ A A EK L ++ + ++C ++
Sbjct: 62 AIELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPGDSRFTKLIKECDEKIAEEE 121
Query: 498 EEVRKRAMGDPEV 510
+++ + D
Sbjct: 122 KDLVQPVPSDLPS 134
Score = 42.1 bits (99), Expect = 5e-04
Identities = 34/124 (27%), Positives = 56/124 (45%), Gaps = 4/124 (3%)
Query: 247 AKKEKELGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQ 306
AK ++ EA+ +F A+ Y +A++ DP + + A + + + + +
Sbjct: 2 AKDLEDKAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANK 61
Query: 307 KIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMS-EHRTPEIRTLISEMEKKIK 365
IE +AKA R G K+E+++ AK EK S LI E ++KI
Sbjct: 62 AIELDPS---LAKAYLRKGTACMKLEEYQTAKAALEKGASLAPGDSRFTKLIKECDEKIA 118
Query: 366 EEEK 369
EEEK
Sbjct: 119 EEEK 122
>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 = 51.6 bits (124), Expect = 1e-06
Identities = 87/506 (17%), Positives = 172/506 (33%), Gaps = 69/506 (13%)
Query: 18 GNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKTISLKPD 77
G A L +F +A E ++A +LD N + + +G+ +A+ D E L P+
Sbjct: 370 GEAYLALGDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPE 429
Query: 78 WPKGYSRKGSALSYL--GRYKESISTYEEGLKLDPNNEQM-----------KEAIKDVRN 124
+ + LSYL G++ ++++ ++ K P+N + + K
Sbjct: 430 LGR--ADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREA 487
Query: 125 QEMN-DMNRGDPFANLFSDPNIFVQLQLDPRTKPFLSDPSYVQMIKEIQKDPSLMTTKLK 183
E + A ++D + IQ+ ++T K
Sbjct: 488 FEKALSIEPDFFPA-------AANLARIDIQEG---------NPDDAIQRFEKVLTIDPK 531
Query: 184 DPRMMTTLSVLLGVNMSSTMGDGDAEE-MDVDPQPPSPKKA------PSPPPAKKPAEPE 236
+ R + L+ L + E+ +++PQ P A K A
Sbjct: 532 NLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKK--ALAI 589
Query: 237 DKNLTDEQRSAKKEKELGNEAYKK-KNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERK 295
D + + + A + +A++ + K + P +A Y K
Sbjct: 590 LNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMK 649
Query: 296 EYDQCIEQYIQKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPEIRT 355
Y + I + +E + D L ++ K+ E K +K +
Sbjct: 650 NYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKA------A 703
Query: 356 LISEMEKKIKEEEK--KAYIDPVKAEEAKERGNE--------LFKNGKYADAVKEYTEAI 405
L E+E + +K A I + + ++ L +G A+AVK +
Sbjct: 704 LGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWL 763
Query: 406 NRNPDDPKYYSNRAACYTKLAAFDLGLKDCETCLKLDPKFLK-----GWIRKGKILQGMQ 460
+P+D + A Y +D +K +T +K P W L
Sbjct: 764 KTHPNDAVLRTALAELYLAQKDYDKAIKHYQTVVKKAPDNAVVLNNLAW------LYLEL 817
Query: 461 QQSKAIDAYEKALELDASNAEAVEGY 486
+ +A++ E+AL+L + ++
Sbjct: 818 KDPRALEYAERALKLAPNIPAILDTL 843
Score = 45.8 bits (109), Expect = 6e-05
Identities = 103/507 (20%), Positives = 177/507 (34%), Gaps = 81/507 (15%)
Query: 21 ALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKTISLKPDWPK 80
AL N F EA E + D N + GN E AL K I+L+P+
Sbjct: 169 ALAENRFDEARALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNIA 228
Query: 81 GYSRKGSALSYLGRYKESISTYEEGLKLDPNNEQMK--EAIKDVRNQEMNDMNRGDPFAN 138
+ L G ++E+ + LK PN+ +A+ D + + D R
Sbjct: 229 VLLALATILIEAGEFEEAEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDA-RETLQDA 287
Query: 139 LFSDPNIFVQLQLDPRTKPFLSD--PSYVQMIKEIQKDPS-------LMTTKLKDPRMM- 188
L S P L L ++ L + +Y + + ++ P+ L + +L+ R+
Sbjct: 288 LKSAPEYLPALLLAGASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDE 347
Query: 189 --TTLSVLLGVNMSST----------MGDGDAEEM--------DVDPQPPS--PKKAPSP 226
TLS LG++ + GD E+ ++DP+ + + S
Sbjct: 348 AIATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAARTQLGISK 407
Query: 227 PPAKKPAEPEDKNLTDEQRSAKKEKELGN------EAY-KKKNFEEALAHYNKAVEFDPT 279
P+E +L +A+ + ELG +Y + F++ALA K + P
Sbjct: 408 LSQGDPSEAI-ADLET---AAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPD 463
Query: 280 DITFQNNIAAVYFERKEYDQCIEQYIQKIE-NRADFKLIAKALQRIGNCYKKMEDWKNAK 338
+ + N + A+Y + + + E + + + F A L RI +D A
Sbjct: 464 NASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAAN-LARIDIQEGNPDD---AI 519
Query: 339 VYFEKSMSEHRT--PEIRTLISEMEKKIKEEEKKAYIDPVKAEEAKERGNELFKNGKYAD 396
FEK ++ I L A GNE +
Sbjct: 520 QRFEKVLTIDPKNLRAILAL---------------------AGLYLRTGNE-------EE 551
Query: 397 AVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGLKDCETCLKLDPKFLKGWIRKGKIL 456
AV +A NP + + A Y L P + W+ G+
Sbjct: 552 AVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQ 611
Query: 457 QGMQQQSKAIDAYEKALELDASNAEAV 483
+KA+ +++K L L +A A+
Sbjct: 612 LAAGDLNKAVSSFKKLLALQPDSALAL 638
Score = 43.9 bits (104), Expect = 2e-04
Identities = 39/232 (16%), Positives = 79/232 (34%), Gaps = 14/232 (6%)
Query: 262 NFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIENRADFKLIAKAL 321
++ A KA+ +A Y + ++ Q +++ K + AL
Sbjct: 71 DYAAAEKELRKALSLGYPKNQVLPLLARAYLLQGKFQQVLDELPGKTLLDDEGAAELLAL 130
Query: 322 QRIGNCYKKMEDWKNAKVYFEKSMS-EHRTPEIRT---LISEMEKKIKEEEK------KA 371
+ G Y + + A+ +E++++ + R+ + ++ E + E A
Sbjct: 131 R--GLAYLGLGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAENRFDEARALIDEVLTA 188
Query: 372 YIDPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLG 431
V A K G+ L G A+ Y +AI P++ A + F+
Sbjct: 189 DPGNVDALLLK--GDLLLSLGNIELALAAYRKAIALRPNNIAVLLALATILIEAGEFEEA 246
Query: 432 LKDCETCLKLDPKFLKGWIRKGKILQGMQQQSKAIDAYEKALELDASNAEAV 483
K + LK P K + + A + + AL+ A+
Sbjct: 247 EKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETLQDALKSAPEYLPAL 298
Score = 39.3 bits (92), Expect = 0.006
Identities = 96/530 (18%), Positives = 176/530 (33%), Gaps = 87/530 (16%)
Query: 18 GNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFA--KEGNYEKALEDAEKTISLK 75
++A F EA E +++A+ N ++ A ++ NYE A E + +
Sbjct: 234 ATILIEAGEFEEA-EKHADALLKKAPNS-PLAHYLKALVDFQKKNYEDARETLQDALKSA 291
Query: 76 PDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNNEQ---MKEAIKDVRNQEMNDMNR 132
P++ G++ LG +++ + LK PN+ Q + +I+ + +
Sbjct: 292 PEYLPALLLAGASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIAT 351
Query: 133 GDPFANLFSDPNIFVQLQLDPRTKPFLSDPSYVQMIKEIQKDPSLMTTKLKDPRMMTTLS 192
P L DP+ L L +L+ + + + + K L ++ T L
Sbjct: 352 LSPA--LGLDPDDPAALSLLGEA--YLALGDFEKAAEYLAKATEL---DPENAAARTQLG 404
Query: 193 VLLGVNMSSTMGDGDAEE--------MDVDPQPPSPKKAPSPPPAKKPAEPEDKNLTDEQ 244
+ S + GD E +DP+ + + DK L +
Sbjct: 405 I-------SKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLR--SGQFDKALAAAK 455
Query: 245 RSAKKEKE-------LGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEY 297
+ KK+ + LG K + +A + KA+ +P N+A + +
Sbjct: 456 KLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNP 515
Query: 298 DQCIEQYIQKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPE--IRT 355
D I Q +K+ L +A+ + Y + + + A + EK+ +
Sbjct: 516 DDAI-QRFEKVLTIDPKNL--RAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALA 572
Query: 356 LISEMEKK--------IKEEEKKAYIDPVKAEEAKERGNELFKNGKYADAVKEYTEAINR 407
L K I E A D +A G G AV + + +
Sbjct: 573 LAQYYLGKGQLKKALAILNEAADAAPDSPEAWLML--GRAQLAAGDLNKAVSSFKKLLAL 630
Query: 408 NPDDPKYYSNRAACYTKLAAFDLGLKDCETCLKLDPKFLKGWIRKG-------------K 454
PD A Y + + + + L+L P + I K
Sbjct: 631 QPDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKK 690
Query: 455 ILQGMQQQS---------------------KAIDAYEKALELDASNAEAV 483
I + +Q+Q AI AY KAL+ S+ A+
Sbjct: 691 IAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAI 740
Score = 38.9 bits (91), Expect = 0.007
Identities = 82/490 (16%), Positives = 169/490 (34%), Gaps = 93/490 (18%)
Query: 13 LLKDKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAK--EGNYEKALEDAEK 70
LL +G A L A ++Y +A+ +D + L++ A E +++A ++
Sbjct: 127 LLALRGLAYLGLGQLELAQKSYEQALAIDPRS--LYAKLGLAQLALAENRFDEARALIDE 184
Query: 71 TISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNNE--------------QMK 116
++ P KG L LG + +++ Y + + L PNN + +
Sbjct: 185 VLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNIAVLLALATILIEAGEFE 244
Query: 117 EAIKDVRNQEMNDMNRGDPFANLFSDPNIFVQLQLDPRTKPFLSDPSYVQMIKEIQKDPS 176
EA K + P A+ +++ +D + K + +Q ++ P
Sbjct: 245 EAEKHA--DALLKKAPNSPLAH-------YLKALVDFQKKNYEDARETLQ--DALKSAPE 293
Query: 177 LMTTKLKDPRMMTTLSVLLGVNMSSTMGDGDAEEMDVDPQPPSPKKAPSPPPAKKPAEPE 236
+ L L G + +G+ + ++ K AP+ A++
Sbjct: 294 YLPALL-----------LAGASEYQ-LGNLEQAYQYLN---QILKYAPNSHQARRLL--- 335
Query: 237 DKNLTDEQRSAKKEKELGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKE 296
A + LG +EA+A + A+ DP D + + Y +
Sbjct: 336 ----------ASIQLRLGR-------VDEAIATLSPALGLDPDDPAALSLLGEAYLALGD 378
Query: 297 YDQCIEQYIQKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPEIRTL 356
+++ E +AKA + D +NA + +S+ +
Sbjct: 379 FEKAAE-------------YLAKATEL---------DPENAAARTQLGISKLSQGDPSEA 416
Query: 357 ISEMEKKIKEEEKKAYIDPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYS 416
I+++E + + + D + ++G++ A+ + + PD+ ++
Sbjct: 417 IADLETAAQLDPELGRADLLLILSY-------LRSGQFDKALAAAKKLEKKQPDNASLHN 469
Query: 417 NRAACYTKLAAFDLGLKDCETCLKLDPKFLKGWIRKGKILQGMQQQSKAIDAYEKALELD 476
A Y + E L ++P F +I AI +EK L +D
Sbjct: 470 LLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID 529
Query: 477 ASNAEAVEGY 486
N A+
Sbjct: 530 PKNLRAILAL 539
Score = 29.3 bits (66), Expect = 7.1
Identities = 20/99 (20%), Positives = 39/99 (39%), Gaps = 1/99 (1%)
Query: 18 GNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKTISLKPD 77
L ++ +AI+ Y +K ++ + N A E +ALE AE+ + L P+
Sbjct: 777 AELYLAQKDYDKAIKHYQTVVKKA-PDNAVVLNNLAWLYLELKDPRALEYAERALKLAPN 835
Query: 78 WPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNNEQMK 116
P G L G ++ + + + P ++
Sbjct: 836 IPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIR 874
>gnl|CDD|128966 smart00727, STI1, Heat shock chaperonin-binding motif.
Length = 41
Score = 42.3 bits (100), Expect = 9e-06
Identities = 14/41 (34%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 507 DPEVQQILRDPAMRLILEQMQNDPRALSDHLK-NPEIASKI 546
DPE+ L++P ++ +L+ MQ +P L+ L+ NP++ I
Sbjct: 1 DPEMALRLQNPQVQSLLQDMQQNPDMLAQMLQENPQLLQLI 41
>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only].
Length = 291
Score = 46.4 bits (108), Expect = 2e-05
Identities = 53/263 (20%), Positives = 99/263 (37%), Gaps = 16/263 (6%)
Query: 242 DEQRSAKKEKELGNEAYKKKNFEEALAHYNKAVEFDP--TDITFQNNIAAVYFERKEYDQ 299
+ + EAL +A+E P +A + ++
Sbjct: 18 LLAEALALLEAGLALLELLGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEE 77
Query: 300 CIEQYIQKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPE------- 352
+ ++K +A+AL +G + + ++ A EK+++ P+
Sbjct: 78 -ALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLA 136
Query: 353 --IRTLISEMEKKIKEEEKKAYIDPV---KAEEAKERGNELFKNGKYADAVKEYTEAINR 407
+ + E+ ++ EK +DP AE G L G+Y +A++ +A+
Sbjct: 137 LGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL 196
Query: 408 NPD-DPKYYSNRAACYTKLAAFDLGLKDCETCLKLDPKFLKGWIRKGKILQGMQQQSKAI 466
NPD D + N Y KL ++ L+ E L+LDP + +L + + +A+
Sbjct: 197 NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEAL 256
Query: 467 DAYEKALELDASNAEAVEGYRQC 489
+A EKALELD
Sbjct: 257 EALEKALELDPDLYNLGLALLLL 279
Score = 43.7 bits (101), Expect = 2e-04
Identities = 46/209 (22%), Positives = 81/209 (38%), Gaps = 26/209 (12%)
Query: 239 NLTDEQRSAKKEKELGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIA-AVYFERKEY 297
L A+ LG +EEAL KA+ DP + +A +E +Y
Sbjct: 87 ELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDY 146
Query: 298 DQCIEQYIQKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPEIRTLI 357
++ +E Y + +E + +A+AL +G + + ++ A EK++
Sbjct: 147 EEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL------------ 194
Query: 358 SEMEKKIKEEEKKAYIDPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSN 417
AE G K GKY +A++ Y +A+ +PD+ + N
Sbjct: 195 -------------KLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYN 241
Query: 418 RAACYTKLAAFDLGLKDCETCLKLDPKFL 446
A +L ++ L+ E L+LDP
Sbjct: 242 LALLLLELGRYEEALEALEKALELDPDLY 270
Score = 42.1 bits (97), Expect = 5e-04
Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 1/132 (0%)
Query: 2 ENLQSLVYEVSLLKDKGNAALQANNFIEAIEAYSEAIKLD-GTNHILFSNRSAAFAKEGN 60
E L L G + EA+E +A+KL+ + N + K G
Sbjct: 158 ELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGK 217
Query: 61 YEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNNEQMKEAIK 120
YE+ALE EK + L PD + L LGRY+E++ E+ L+LDP+ + A+
Sbjct: 218 YEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPDLYNLGLALL 277
Query: 121 DVRNQEMNDMNR 132
+ + + + +
Sbjct: 278 LLLAEALELLEK 289
Score = 33.3 bits (74), Expect = 0.31
Identities = 35/116 (30%), Positives = 52/116 (44%), Gaps = 3/116 (2%)
Query: 9 YEVSLLKDKGNAALQANNFIEAIEAYSEAIK--LDGTNHILFSNRSAAFAKEGNYEKALE 66
LL A L+ EA+E +A++ L N G YE+ALE
Sbjct: 57 DLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE 116
Query: 67 DAEKTISLKPDWPKGYSRKG-SALSYLGRYKESISTYEEGLKLDPNNEQMKEAIKD 121
EK ++L PD + AL LG Y+E++ YE+ L+LDP ++ EA+
Sbjct: 117 LLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLA 172
Score = 33.3 bits (74), Expect = 0.31
Identities = 31/121 (25%), Positives = 54/121 (44%), Gaps = 4/121 (3%)
Query: 13 LLKDKGNAALQANNFIEAIEAYSEAIKLDGTN-HILFSNRSAAFAKEGNYEKALEDAEKT 71
L + G + EA+E +A+ LD A + G+YE+ALE EK
Sbjct: 97 ALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKA 156
Query: 72 ISLKP---DWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNNEQMKEAIKDVRNQEMN 128
+ L P + + G+ L LGRY+E++ E+ LKL+P+++ + ++
Sbjct: 157 LELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLG 216
Query: 129 D 129
Sbjct: 217 K 217
>gnl|CDD|225605 COG3063, PilF, Tfp pilus assembly protein PilF [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 250
Score = 44.3 bits (105), Expect = 7e-05
Identities = 37/198 (18%), Positives = 65/198 (32%), Gaps = 61/198 (30%)
Query: 234 EPEDKNLTDEQRSAKKEKEL-------GNEAYKKKNFEEALAH----------------- 269
+P TD +AK +L G+ A KKN E+AL H
Sbjct: 22 DPAPSRQTDRNEAAKARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQK 81
Query: 270 ----------YNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIENRADFKLIAK 319
Y KA+ P + NN A + ++ ++Q+ + + + + +
Sbjct: 82 LGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALAD-PAYGEPSD 140
Query: 320 ALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPEIRTLISEMEKKIKEEEKKAYIDPVKAE 379
L+ +G C K + A+ Y ++++ +DP
Sbjct: 141 TLENLGLCALKAGQFDQAEEYLKRAL--------------------------ELDPQFPP 174
Query: 380 EAKERGNELFKNGKYADA 397
E +K G YA A
Sbjct: 175 ALLELARLHYKAGDYAPA 192
Score = 35.5 bits (82), Expect = 0.046
Identities = 27/114 (23%), Positives = 43/114 (37%), Gaps = 14/114 (12%)
Query: 366 EEEKKAYIDPVKAEEAK-ERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTK 424
+ D +A +A+ + + G YA A K +A+ +P + RA Y K
Sbjct: 22 DPAPSRQTDRNEAAKARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQK 81
Query: 425 LAAFDLGLKDCETCLKLDPK----------FLKGWIRKGKILQGMQQQSKAIDA 468
L DL + L L P FL +G+ + MQQ +A+
Sbjct: 82 LGENDLADESYRKALSLAPNNGDVLNNYGAFLCA---QGRPEEAMQQFERALAD 132
Score = 30.9 bits (70), Expect = 1.6
Identities = 23/90 (25%), Positives = 44/90 (48%), Gaps = 1/90 (1%)
Query: 22 LQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKTISLKPDWPKG 81
LQ ++ +A + +A++ D + ++ R+ + K G + A E K +SL P+
Sbjct: 46 LQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDV 105
Query: 82 YSRKGSALSYLGRYKESISTYEEGLKLDPN 111
+ G+ L GR +E++ +E L DP
Sbjct: 106 LNNYGAFLCAQGRPEEAMQQFERAL-ADPA 134
Score = 30.5 bits (69), Expect = 2.1
Identities = 14/54 (25%), Positives = 25/54 (46%)
Query: 59 GNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
G+Y +A ++ EK + P + + + LG + +Y + L L PNN
Sbjct: 49 GDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNN 102
Score = 28.9 bits (65), Expect = 6.3
Identities = 21/93 (22%), Positives = 36/93 (38%), Gaps = 10/93 (10%)
Query: 359 EMEKKIKEEEKKAYIDPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYS-- 416
E + + K + P + G L G+ +A++++ A+ DP Y
Sbjct: 84 ENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALA----DPAYGEPS 139
Query: 417 ----NRAACYTKLAAFDLGLKDCETCLKLDPKF 445
N C K FD + + L+LDP+F
Sbjct: 140 DTLENLGLCALKAGQFDQAEEYLKRALELDPQF 172
>gnl|CDD|222123 pfam13432, TPR_16, Tetratricopeptide repeat.
Length = 65
Score = 40.4 bits (95), Expect = 8e-05
Identities = 9/62 (14%), Positives = 15/62 (24%)
Query: 383 ERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGLKDCETCLKLD 442
+ G Y +A+ A+ R P + + L D
Sbjct: 2 ALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAAD 61
Query: 443 PK 444
P
Sbjct: 62 PD 63
Score = 38.4 bits (90), Expect = 5e-04
Identities = 13/62 (20%), Positives = 23/62 (37%)
Query: 16 DKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKTISLK 75
AAL+A ++ EA+ A A+ A ++G +A ++
Sbjct: 2 ALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAAD 61
Query: 76 PD 77
PD
Sbjct: 62 PD 63
Score = 37.3 bits (87), Expect = 0.001
Identities = 16/60 (26%), Positives = 27/60 (45%)
Query: 54 AFAKEGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNNE 113
A + G+Y++AL E ++ P + G AL GR E+ + L DP++
Sbjct: 6 AALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAADPDDP 65
Score = 34.6 bits (80), Expect = 0.009
Identities = 8/48 (16%), Positives = 16/48 (33%)
Query: 252 ELGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQ 299
L A + +++EALA A+ P + + +
Sbjct: 2 ALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAE 49
>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 = 43.9 bits (104), Expect = 9e-05
Identities = 20/84 (23%), Positives = 42/84 (50%), Gaps = 1/84 (1%)
Query: 261 KNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIENRADFKLIAKA 320
E+A + +A+ +P + NN ++ +Y+Q ++Q+ Q IE+ + A++
Sbjct: 79 GELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIED-PLYPQPARS 137
Query: 321 LQRIGNCYKKMEDWKNAKVYFEKS 344
L+ G C K D+ A+ Y ++
Sbjct: 138 LENAGLCALKAGDFDKAEKYLTRA 161
Score = 35.8 bits (83), Expect = 0.038
Identities = 15/56 (26%), Positives = 27/56 (48%)
Query: 57 KEGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
++G+ E A E+ +K + PD Y LG +++ ++ L L+PNN
Sbjct: 43 EQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNN 98
Score = 31.5 bits (72), Expect = 0.83
Identities = 19/93 (20%), Positives = 47/93 (50%), Gaps = 1/93 (1%)
Query: 22 LQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKTISLKPDWPKG 81
L+ + A E +A++ D +++ + + + + G EKA + + ++L P+
Sbjct: 42 LEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDV 101
Query: 82 YSRKGSALSYLGRYKESISTYEEGLKLDPNNEQ 114
+ G+ L G+Y++++ +E+ ++ DP Q
Sbjct: 102 LNNYGTFLCQQGKYEQAMQQFEQAIE-DPLYPQ 133
Score = 31.5 bits (72), Expect = 0.98
Identities = 15/74 (20%), Positives = 33/74 (44%)
Query: 413 KYYSNRAACYTKLAAFDLGLKDCETCLKLDPKFLKGWIRKGKILQGMQQQSKAIDAYEKA 472
K A Y + ++ ++ + L+ DP ++ Q + + KA D++ +A
Sbjct: 32 KIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRA 91
Query: 473 LELDASNAEAVEGY 486
L L+ +N + + Y
Sbjct: 92 LTLNPNNGDVLNNY 105
Score = 29.6 bits (67), Expect = 3.6
Identities = 26/104 (25%), Positives = 40/104 (38%), Gaps = 14/104 (13%)
Query: 374 DPVKAEEAK-ERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGL 432
D KA + + + + G A + +A+ +PDD Y A Y +L +
Sbjct: 26 DRNKAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAE 85
Query: 433 KDCETCLKLDPK----------FLKGWIRKGKILQGMQQQSKAI 466
L L+P FL ++GK Q MQQ +AI
Sbjct: 86 DSFRRALTLNPNNGDVLNNYGTFL---CQQGKYEQAMQQFEQAI 126
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 40.0 bits (94), Expect = 2e-04
Identities = 17/65 (26%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 285 NNIAAVYFERKEYDQCIEQYIQKIENRADFK----LIAKALQRIGNCYKKMEDWKNAKVY 340
NN+A V +YD+ +E + +E + A+AL + Y + D+ A Y
Sbjct: 9 NNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGDYDEALEY 68
Query: 341 FEKSM 345
EK++
Sbjct: 69 LEKAL 73
Score = 37.0 bits (86), Expect = 0.002
Identities = 17/72 (23%), Positives = 30/72 (41%), Gaps = 7/72 (9%)
Query: 47 LFSNRSAAFAKEGNYEKALEDAEKTISLK-------PDWPKGYSRKGSALSYLGRYKESI 99
+N + + G+Y++ALE EK + L P+ + + LG Y E++
Sbjct: 7 ALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGDYDEAL 66
Query: 100 STYEEGLKLDPN 111
E+ L L
Sbjct: 67 EYLEKALALREA 78
Score = 37.0 bits (86), Expect = 0.002
Identities = 17/76 (22%), Positives = 31/76 (40%), Gaps = 7/76 (9%)
Query: 408 NPDDPKYYSNRAACYTKLAAFDLGLKDCETCLKL-------DPKFLKGWIRKGKILQGMQ 460
+PD +N A +L +D L+ E L+L P+ + ++ +
Sbjct: 1 HPDLAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALG 60
Query: 461 QQSKAIDAYEKALELD 476
+A++ EKAL L
Sbjct: 61 DYDEALEYLEKALALR 76
Score = 32.3 bits (74), Expect = 0.081
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 7/62 (11%)
Query: 252 ELGNEAYKKKNFEEALAHYNKAVEF-------DPTDITFQNNIAAVYFERKEYDQCIEQY 304
L + +++EAL KA+E P NN+A +Y +YD+ +E
Sbjct: 10 NLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGDYDEALEYL 69
Query: 305 IQ 306
+
Sbjct: 70 EK 71
Score = 31.6 bits (72), Expect = 0.15
Identities = 15/95 (15%), Positives = 33/95 (34%), Gaps = 19/95 (20%)
Query: 316 LIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPEIRTLISEMEKKIKEEEKKAYIDP 375
+A AL + +++ D+ A EK++ E+ +++ E+ P
Sbjct: 3 DLAAALNNLALVLRRLGDYDEALELLEKAL-------------ELARELGED------HP 43
Query: 376 VKAEEAKERGNELFKNGKYADAVKEYTEAINRNPD 410
A G Y +A++ +A+
Sbjct: 44 ETARALNNLARLYLALGDYDEALEYLEKALALREA 78
Score = 31.6 bits (72), Expect = 0.15
Identities = 17/73 (23%), Positives = 36/73 (49%), Gaps = 7/73 (9%)
Query: 12 SLLKDKGNAALQANNFIEAIEAYSEAIKLD---GTNH----ILFSNRSAAFAKEGNYEKA 64
+ L + + ++ EA+E +A++L G +H +N + + G+Y++A
Sbjct: 6 AALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGDYDEA 65
Query: 65 LEDAEKTISLKPD 77
LE EK ++L+
Sbjct: 66 LEYLEKALALREA 78
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 38.6 bits (91), Expect = 2e-04
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 253 LGNEAYKKKNFEEALAHYNKAVEFDPTD 280
LGN K ++EAL +Y KA+E +P +
Sbjct: 7 LGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 37.0 bits (87), Expect = 7e-04
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 79 PKGYSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
K G+A LG+Y E++ YE+ L+L+PNN
Sbjct: 1 AKALYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 35.1 bits (82), Expect = 0.003
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 447 KGWIRKGKILQGMQQQSKAIDAYEKALELDASN 479
K G + + +A++ YEKALEL+ +N
Sbjct: 2 KALYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 33.5 bits (78), Expect = 0.011
Identities = 11/34 (32%), Positives = 15/34 (44%)
Query: 412 PKYYSNRAACYTKLAAFDLGLKDCETCLKLDPKF 445
K N Y KL +D L+ E L+L+P
Sbjct: 1 AKALYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 33.2 bits (77), Expect = 0.017
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 14 LKDKGNAALQANNFIEAIEAYSEAIKLDGTN 44
L + GNA L+ + EA+E Y +A++L+ N
Sbjct: 4 LYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 32.4 bits (75), Expect = 0.029
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 384 RGNELFKNGKYADAVKEYTEAINRNPDD 411
GN K GKY +A++ Y +A+ NP++
Sbjct: 7 LGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 32.4 bits (75), Expect = 0.032
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 318 AKALQRIGNCYKKMEDWKNAKVYFEK 343
AKAL +GN Y K+ + A Y+EK
Sbjct: 1 AKALYNLGNAYLKLGKYDEALEYYEK 26
Score = 30.5 bits (70), Expect = 0.13
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 48 FSNRSAAFAKEGNYEKALEDAEKTISLKPD 77
N A+ K G Y++ALE EK + L P+
Sbjct: 4 LYNLGNAYLKLGKYDEALEYYEKALELNPN 33
>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 = 37.8 bits (89), Expect = 3e-04
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 251 KELGNEAYKKKNFEEALAHYNKAVEFDPTD 280
LGN K +++EAL +Y KA+E DP +
Sbjct: 5 YNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 35.5 bits (83), Expect = 0.002
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 79 PKGYSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
+ G+A LG Y E++ YE+ L+LDPNN
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 33.6 bits (78), Expect = 0.012
Identities = 9/30 (30%), Positives = 17/30 (56%)
Query: 382 KERGNELFKNGKYADAVKEYTEAINRNPDD 411
GN K G Y +A++ Y +A+ +P++
Sbjct: 5 YNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 33.2 bits (77), Expect = 0.014
Identities = 12/28 (42%), Positives = 19/28 (67%)
Query: 318 AKALQRIGNCYKKMEDWKNAKVYFEKSM 345
A+AL +GN Y K+ D+ A Y+EK++
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKAL 28
Score = 33.2 bits (77), Expect = 0.015
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 447 KGWIRKGKILQGMQQQSKAIDAYEKALELDASN 479
+ G + +A++ YEKALELD +N
Sbjct: 2 EALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 32.8 bits (76), Expect = 0.023
Identities = 11/34 (32%), Positives = 15/34 (44%)
Query: 412 PKYYSNRAACYTKLAAFDLGLKDCETCLKLDPKF 445
+ N Y KL +D L+ E L+LDP
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 32.4 bits (75), Expect = 0.032
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 11 VSLLKDKGNAALQANNFIEAIEAYSEAIKLDGTN 44
L + GNA L+ ++ EA+E Y +A++LD N
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 29.3 bits (67), Expect = 0.37
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 48 FSNRSAAFAKEGNYEKALEDAEKTISLKPD 77
N A+ K G+Y++ALE EK + L P+
Sbjct: 4 LYNLGNAYLKLGDYDEALEYYEKALELDPN 33
Score = 26.3 bits (59), Expect = 4.2
Identities = 7/25 (28%), Positives = 14/25 (56%)
Query: 285 NNIAAVYFERKEYDQCIEQYIQKIE 309
N+ Y + +YD+ +E Y + +E
Sbjct: 5 YNLGNAYLKLGDYDEALEYYEKALE 29
>gnl|CDD|227122 COG4783, COG4783, Putative Zn-dependent protease, contains TPR
repeats [General function prediction only].
Length = 484
Score = 43.2 bits (102), Expect = 3e-04
Identities = 19/101 (18%), Positives = 36/101 (35%)
Query: 12 SLLKDKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKT 71
+ + A + EA++ I N + ++A+E +K
Sbjct: 307 AAQYGRALQTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKA 366
Query: 72 ISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
++L P+ P AL G+ +E+I L DP +
Sbjct: 367 LALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPED 407
Score = 34.7 bits (80), Expect = 0.12
Identities = 31/115 (26%), Positives = 50/115 (43%)
Query: 11 VSLLKDKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEK 70
L+ G+ L+AN EAIE +A+ LD + +L N + A K G ++A+ +
Sbjct: 340 PYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNR 399
Query: 71 TISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNNEQMKEAIKDVRNQ 125
+ P+ P G+ A + LG E++ EG L EQ + Q
Sbjct: 400 YLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFLMRASQQ 454
Score = 32.0 bits (73), Expect = 0.93
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 384 RGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKL 425
L K GK +A++ + +P+DP + A Y +L
Sbjct: 380 LAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAEL 421
>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 = 36.0 bits (84), Expect = 0.002
Identities = 14/29 (48%), Positives = 18/29 (62%)
Query: 252 ELGNEAYKKKNFEEALAHYNKAVEFDPTD 280
LG YK ++EEAL Y KA+E DP +
Sbjct: 6 NLGLAYYKLGDYEEALEAYEKALELDPNN 34
Score = 34.8 bits (81), Expect = 0.004
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 79 PKGYSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
+ G A LG Y+E++ YE+ L+LDPNN
Sbjct: 1 AEALYNLGLAYYKLGDYEEALEAYEKALELDPNN 34
Score = 33.6 bits (78), Expect = 0.011
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 378 AEEAKERGNELFKNGKYADAVKEYTEAINRNPDD 411
AE G +K G Y +A++ Y +A+ +P++
Sbjct: 1 AEALYNLGLAYYKLGDYEEALEAYEKALELDPNN 34
Score = 31.7 bits (73), Expect = 0.047
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 13 LLKDKGNAALQANNFIEAIEAYSEAIKLDGTN 44
L + G A + ++ EA+EAY +A++LD N
Sbjct: 3 ALYNLGLAYYKLGDYEEALEAYEKALELDPNN 34
Score = 30.9 bits (71), Expect = 0.092
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 447 KGWIRKGKILQGMQQQSKAIDAYEKALELD 476
+ G + +A++AYEKALELD
Sbjct: 2 EALYNLGLAYYKLGDYEEALEAYEKALELD 31
Score = 29.0 bits (66), Expect = 0.52
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 47 LFSNRSAAFAKEGNYEKALEDAEKTISLKPDW 78
N A+ K G+YE+ALE EK + L P+
Sbjct: 3 ALYNLGLAYYKLGDYEEALEAYEKALELDPNN 34
Score = 27.1 bits (61), Expect = 2.1
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 318 AKALQRIGNCYKKMEDWKNAKVYFEKS 344
A+AL +G Y K+ D++ A +EK+
Sbjct: 1 AEALYNLGLAYYKLGDYEEALEAYEKA 27
>gnl|CDD|227343 COG5010, TadD, Flp pilus assembly protein TadD, contains TPR
repeats [Intracellular trafficking and secretion].
Length = 257
Score = 39.7 bits (93), Expect = 0.002
Identities = 17/70 (24%), Positives = 28/70 (40%)
Query: 374 DPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGLK 433
P E +G +NG + +AV +A P D + ++ A +L FD +
Sbjct: 96 YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARR 155
Query: 434 DCETCLKLDP 443
L+L P
Sbjct: 156 AYRQALELAP 165
Score = 36.3 bits (84), Expect = 0.029
Identities = 18/57 (31%), Positives = 30/57 (52%)
Query: 56 AKEGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
+ GN+ +A+ K L P + ++ G+AL LGR+ E+ Y + L+L PN
Sbjct: 111 IRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNE 167
Score = 34.7 bits (80), Expect = 0.080
Identities = 16/59 (27%), Positives = 24/59 (40%)
Query: 251 KELGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIE 309
G + NF EA++ KA PTD N + A + +D+ Y Q +E
Sbjct: 104 AAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALE 162
Score = 32.8 bits (75), Expect = 0.41
Identities = 23/100 (23%), Positives = 40/100 (40%), Gaps = 1/100 (1%)
Query: 13 LLKDKGNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKTI 72
LL +G ++ NF EA+ +A +L T+ ++ AA + G +++A + +
Sbjct: 102 LLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQAL 161
Query: 73 SLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
L P+ P + G L E T L P
Sbjct: 162 ELAPNEPSIANNLG-MSLLLRGDLEDAETLLLPAYLSPAA 200
>gnl|CDD|236983 PRK11788, PRK11788, tetratricopeptide repeat protein; Provisional.
Length = 389
Score = 39.4 bits (93), Expect = 0.004
Identities = 21/119 (17%), Positives = 50/119 (42%), Gaps = 15/119 (12%)
Query: 252 ELGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAA------VYFERKEYDQCIEQYI 305
EL +A + + + A A KA+ DP + A + + +Y IE
Sbjct: 185 ELAQQALARGDLDAARALLKKALAADP------QCVRASILLGDLALAQGDYAAAIEALE 238
Query: 306 QKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPE-IRTLISEMEKK 363
+ E ++ +++ L ++ CY+ + D + +++ E+ + + L +E++
Sbjct: 239 RVEEQDPEY--LSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQ 295
>gnl|CDD|205609 pfam13431, TPR_17, Tetratricopeptide repeat.
Length = 34
Score = 33.7 bits (78), Expect = 0.010
Identities = 10/34 (29%), Positives = 18/34 (52%)
Query: 269 HYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIE 302
Y KA+E DP + N+A + +YD+ ++
Sbjct: 1 LYEKALELDPNNAEAYYNLALLLLNLGQYDEALQ 34
Score = 28.7 bits (65), Expect = 0.67
Identities = 6/23 (26%), Positives = 12/23 (52%)
Query: 400 EYTEAINRNPDDPKYYSNRAACY 422
Y +A+ +P++ + Y N A
Sbjct: 1 LYEKALELDPNNAEAYYNLALLL 23
Score = 28.3 bits (64), Expect = 0.82
Identities = 10/34 (29%), Positives = 18/34 (52%)
Query: 33 AYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALE 66
Y +A++LD N + N + G Y++AL+
Sbjct: 1 LYEKALELDPNNAEAYYNLALLLLNLGQYDEALQ 34
>gnl|CDD|226687 COG4235, COG4235, Cytochrome c biogenesis factor [Posttranslational
modification, protein turnover, chaperones].
Length = 287
Score = 36.6 bits (85), Expect = 0.022
Identities = 24/105 (22%), Positives = 42/105 (40%), Gaps = 17/105 (16%)
Query: 18 GNAALQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYE---KALEDAEKTISL 74
G A + +A+ AY A++L G N + + A + + KA + ++L
Sbjct: 163 GRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL 222
Query: 75 KPDWPKGYSRKGSALSYL-------GRYKESISTYEEGLKLDPNN 112
P + ALS L G Y E+ + ++ L L P +
Sbjct: 223 DPANIR-------ALSLLAFAAFEQGDYAEAAAAWQMLLDLLPAD 260
Score = 36.6 bits (85), Expect = 0.022
Identities = 24/99 (24%), Positives = 41/99 (41%), Gaps = 13/99 (13%)
Query: 436 ETCLKLDPKFLKGWIRKGKILQGMQQQSKAIDAYEKALELDASNAEAVEGYRQCSIAVSS 495
ET L+ +P +GW G+ + + S A+ AY AL L N E + G + ++ +
Sbjct: 146 ETHLQQNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAE-ALYYQA 204
Query: 496 NPEEVRKRAMGDPEVQQILRDPAMRLILEQMQNDPRALS 534
+ + + +LR L + RALS
Sbjct: 205 GQQM-------TAKARALLRQ-----ALALDPANIRALS 231
Score = 29.7 bits (67), Expect = 4.1
Identities = 17/84 (20%), Positives = 33/84 (39%), Gaps = 4/84 (4%)
Query: 49 SNRSAAFAKEGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKL 108
++ A E E + E + P +G+ G A LGR +++ Y L+L
Sbjct: 126 ADPLAQPPAEQEMEALIARLETHLQQNPGDAEGWDLLGRAYMALGRASDALLAYRNALRL 185
Query: 109 DPNNEQMKEAIKDVR----NQEMN 128
+N ++ + + Q+M
Sbjct: 186 AGDNPEILLGLAEALYYQAGQQMT 209
>gnl|CDD|205362 pfam13181, TPR_8, Tetratricopeptide repeat.
Length = 34
Score = 32.1 bits (74), Expect = 0.033
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 82 YSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
Y G LG Y+E+ YE+ L+LDPNN
Sbjct: 4 YYLLGQIYLQLGDYEEAKEYYEKALELDPNN 34
Score = 31.7 bits (73), Expect = 0.043
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 449 WIRKGKILQGMQQQSKAIDAYEKALELDASN 479
+ G+I + +A + YEKALELD +N
Sbjct: 4 YYLLGQIYLQLGDYEEAKEYYEKALELDPNN 34
Score = 30.1 bits (69), Expect = 0.17
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 318 AKALQRIGNCYKKMEDWKNAKVYFEKSMS 346
A+A +G Y ++ D++ AK Y+EK++
Sbjct: 1 ARAYYLLGQIYLQLGDYEEAKEYYEKALE 29
Score = 27.8 bits (63), Expect = 1.1
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 253 LGNEAYKKKNFEEALAHYNKAVEFDP 278
LG + ++EEA +Y KA+E DP
Sbjct: 7 LGQIYLQLGDYEEAKEYYEKALELDP 32
>gnl|CDD|236875 PRK11189, PRK11189, lipoprotein NlpI; Provisional.
Length = 296
Score = 34.9 bits (81), Expect = 0.096
Identities = 20/58 (34%), Positives = 27/58 (46%)
Query: 22 LQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALEDAEKTISLKPDWP 79
QA NF A EA+ ++LD T + + NR A G YE A +D P+ P
Sbjct: 109 TQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDP 166
Score = 32.2 bits (74), Expect = 0.61
Identities = 17/54 (31%), Positives = 26/54 (48%)
Query: 58 EGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPN 111
GN++ A E + + L P + Y +G AL Y GRY+ + + DPN
Sbjct: 111 AGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN 164
>gnl|CDD|227310 COG4976, COG4976, Predicted methyltransferase (contains TPR repeat)
[General function prediction only].
Length = 287
Score = 34.8 bits (80), Expect = 0.097
Identities = 19/55 (34%), Positives = 29/55 (52%)
Query: 56 AKEGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDP 110
A+ G+ E A E + + L P+W G+ R G G + + + YEE L+LDP
Sbjct: 6 AESGDAEAAAELYNQALELAPEWAAGWFRLGEYTEKAGEFDAAAAAYEEVLELDP 60
Score = 32.1 bits (73), Expect = 0.74
Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 15/72 (20%)
Query: 439 LKLDPKFLKGWIRKGKILQGMQQQSKAIDAYEKALELDASNAEAVEGYRQCSIAVSSNPE 498
L+L P++ GW R G+ + + A AYE+ LELD +
Sbjct: 22 LELAPEWAAGWFRLGEYTEKAGEFDAAAAAYEEVLELDPEDHGGA--------------- 66
Query: 499 EVRKRAMGDPEV 510
++ +G E
Sbjct: 67 ALKLAVLGRGET 78
>gnl|CDD|222499 pfam14022, DUF4238, Protein of unknown function (DUF4238). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria, archaea and
eukaryotes. Proteins in this family are typically
between 274 and 374 amino acids in length.
Length = 268
Score = 34.7 bits (80), Expect = 0.097
Identities = 31/200 (15%), Positives = 65/200 (32%), Gaps = 33/200 (16%)
Query: 269 HYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIENRADFKLIAKALQRIGNCY 328
K P ++ + + + + D+ IE+ + KIE RA + + +I +
Sbjct: 26 KSGKIFNKSPKNVASEKDFYSFEDLDGDDDE-IEKLLSKIEGRA-----SPIIDKIIDGN 79
Query: 329 KKM----EDWKNAKVYFEKSMSEHRTPEIRTLISEMEKKIKEEEKKAYIDPVKAEEAKER 384
+ ED + ++ ++ RTP R I + I + + + +A + +
Sbjct: 80 RSALLTPEDKEKLALFL--ALQYLRTPAFRERILSFLEAIARQVDELE-EADEAIKELLK 136
Query: 385 GNELFKNGKYADAV-------KEYTEAINR-------NPDDPKYY------SNRAACYTK 424
G E ++ ++ E + R N + +
Sbjct: 137 GIEEDTEELPDLSLLLLLKSLRKVAELLERLKWNLLINDTGQPFITSDNPVVLYSRGRKD 196
Query: 425 LAAFDLGLKDCETCLKLDPK 444
LG E L + PK
Sbjct: 197 PGNPGLGSPGIEIYLPISPK 216
>gnl|CDD|222121 pfam13428, TPR_14, Tetratricopeptide repeat.
Length = 44
Score = 31.0 bits (70), Expect = 0.11
Identities = 9/44 (20%), Positives = 14/44 (31%)
Query: 378 AEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAAC 421
L G +A+ A+ +PDDP+ A
Sbjct: 1 PAALLALARALLALGDLDEALALLRRALALDPDDPEALLLLARL 44
Score = 26.7 bits (59), Expect = 3.6
Identities = 8/44 (18%), Positives = 17/44 (38%)
Query: 446 LKGWIRKGKILQGMQQQSKAIDAYEKALELDASNAEAVEGYRQC 489
+ + L + +A+ +AL LD + EA+ +
Sbjct: 1 PAALLALARALLALGDLDEALALLRRALALDPDDPEALLLLARL 44
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 35.1 bits (81), Expect = 0.12
Identities = 29/172 (16%), Positives = 67/172 (38%), Gaps = 6/172 (3%)
Query: 238 KNLTDEQRSAKKEKELGNEAYKKKNFEEALAHYNKAVEFDPT-DITFQNNIAAVYFERKE 296
+ + + EL + + EE L + + + Q + + + +E
Sbjct: 606 EERLSQLEELLQSLELSEAENELEEAEEELESELEKLNLQAELEELLQAALEELEEKVEE 665
Query: 297 YDQCIEQYIQKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPEIRTL 356
+ I + +Q+IEN + + L+++ +++ + + ++ + E E+ +
Sbjct: 666 LEAEIRRELQRIENEEQLEEKLEELEQLEEELEQLRE-ELEELLKKLGEIEQLIEELESR 724
Query: 357 ISEMEKKIKEEEKKAYIDPVKAEEAKERGNELFKNGKYADAVKEYTEAINRN 408
+E+E+ KE EK E +E +L K G AD ++ I
Sbjct: 725 KAELEELKKELEKLEK----ALELLEELREKLGKAGLRADILRNLLAQIEAE 772
>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 = 34.1 bits (79), Expect = 0.13
Identities = 40/218 (18%), Positives = 69/218 (31%), Gaps = 36/218 (16%)
Query: 235 PEDKNLTDEQRSAKKEKELGNEAYKKKNFEEALAHYNKAVEFDPTD---ITFQNNIAAVY 291
+ + E+ A++ E EA ++ EA+ ++ P Q ++A Y
Sbjct: 21 KKKEADPVEEWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAY 80
Query: 292 FERKEYDQCIEQYIQKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTP 351
++ +Y + I + I + A G D +
Sbjct: 81 YKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQID-----------RVDRDQT 129
Query: 352 EIRTLISEMEKKIKEEEKKAYIDPVKAEEAKER---------GNEL------FKNGKYAD 396
R ++ I + Y + A +AK+R G EL K G Y
Sbjct: 130 AAREAFEAFQELI-----RRYPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVA 184
Query: 397 AVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGLKD 434
A+ + + PD P + A A LGL D
Sbjct: 185 AINRFQTVVENYPDTP--ATEEALARLVEAYLKLGLTD 220
Score = 28.3 bits (64), Expect = 8.5
Identities = 14/57 (24%), Positives = 23/57 (40%)
Query: 286 NIAAVYFERKEYDQCIEQYIQKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFE 342
+A Y +R Y I ++ +EN D +AL R+ Y K+ A+
Sbjct: 171 YVARFYLKRGAYVAAINRFQTVVENYPDTPATEEALARLVEAYLKLGLTDLAQDAAA 227
>gnl|CDD|189027 cd09857, PIN_EXO1, PIN domain of Exonuclease-1, a
structure-specific, divalent-metal-ion dependent, 5'
nuclease and homologs. Exonuclease-1 (EXO1) is involved
in multiple, eukaryotic DNA metabolic pathways,
including DNA replication processes (5' flap DNA
endonuclease activity and double stranded DNA
5'-exonuclease activity), DNA repair processes (DNA
mismatch repair (MMR) and post-replication repair
(PRR)), recombination, and telomere integrity. EXO1
functions in the MMS2 error-free branch of the PRR
pathway in the maintenance and repair of stalled
replication forks. Studies also suggest that EXO1 plays
both structural and catalytic roles during MMR-mediated
mutation avoidance. EXO1 belongs to the FEN1-EXO1-like
family of structure-specific, 5' nucleases. These
nucleases contain a PIN (PilT N terminus) domain with a
helical arch/clamp region (I domain) of variable length
(approximately 43 residues in EXO1 PIN domains) and a
H3TH (helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region. Both the H3TH domain
(not included here) and the helical arch/clamp region
are involved in DNA binding. Nucleases within this group
also have a carboxylate-rich active site that is
involved in binding essential divalent metal ion
cofactors (Mg2+/Mn2+). EXO1 nucleases also have
C-terminal Mlh1- and Msh2-binding domains which allow
interaction with MMR and PRR proteins, respectively.
Length = 210
Score = 33.6 bits (78), Expect = 0.16
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 362 KKIKEEEKKAYIDPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNPD 410
KK EEE++ + EE E+ EL + G ++A + + A++ P+
Sbjct: 85 KKGTEEERRE-----RREENLEKALELLREGNRSEARECFQRAVDITPE 128
Score = 28.6 bits (65), Expect = 6.4
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 15/57 (26%)
Query: 228 PAKKPAEPEDKNLTDEQRSAKKEK--ELGNEAYKKKNFEEALAHYNKAVEFDPTDIT 282
P+KK T+E+R ++E+ E E ++ N EA + +AV DIT
Sbjct: 83 PSKK--------GTEEERRERREENLEKALELLREGNRSEARECFQRAV-----DIT 126
>gnl|CDD|236698 PRK10475, PRK10475, 23S rRNA pseudouridine synthase F; Provisional.
Length = 290
Score = 33.9 bits (78), Expect = 0.17
Identities = 12/44 (27%), Positives = 15/44 (34%)
Query: 218 PSPKKAPSPPPAKKPAEPEDKNLTDEQRSAKKEKELGNEAYKKK 261
P K P K+P +K R A K + KKK
Sbjct: 245 PKAKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKK 288
>gnl|CDD|237866 PRK14952, PRK14952, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 584
Score = 34.1 bits (78), Expect = 0.20
Identities = 17/73 (23%), Positives = 25/73 (34%), Gaps = 5/73 (6%)
Query: 195 LGVNMSSTMGDGDAEEMDVDPQPPSPKKAPSPP-PAKKPAEPEDKNLTDEQRSAKKEKEL 253
LGVN G P+ A +PP KP DE+ S E
Sbjct: 500 LGVNWRVRCETGKPA----AAASPAGGGANAPPAKPVKPPPSCLSAQRDEEESMLAEAGR 555
Query: 254 GNEAYKKKNFEEA 266
+ + +++ EE
Sbjct: 556 DDPSTPRRDPEEV 568
>gnl|CDD|179448 PRK02603, PRK02603, photosystem I assembly protein Ycf3;
Provisional.
Length = 172
Score = 32.7 bits (75), Expect = 0.23
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 5/81 (6%)
Query: 18 GNAALQANNFIEAIEAYSEAIKLD----GTNHILFSNRSAAFAKEGNYEKALEDAEKTIS 73
G +A + EA+E Y EA+KL+ ++IL+ N +A G ++KALE + +
Sbjct: 42 GMSAQADGEYAEALENYEEALKLEEDPNDRSYILY-NMGIIYASNGEHDKALEYYHQALE 100
Query: 74 LKPDWPKGYSRKGSALSYLGR 94
L P P + G
Sbjct: 101 LNPKQPSALNNIAVIYHKRGE 121
Score = 29.3 bits (66), Expect = 3.6
Identities = 23/72 (31%), Positives = 35/72 (48%), Gaps = 9/72 (12%)
Query: 247 AKKEKEL------GNEAYKKKNFEEALAHYNKAV--EFDPTDITFQ-NNIAAVYFERKEY 297
KK KE G A + EAL +Y +A+ E DP D ++ N+ +Y E+
Sbjct: 29 NKKAKEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEH 88
Query: 298 DQCIEQYIQKIE 309
D+ +E Y Q +E
Sbjct: 89 DKALEYYHQALE 100
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 33.8 bits (78), Expect = 0.27
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 366 EEEKKAYIDPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACY 422
EE++K +D + E R + L K G+ +A Y ++RNP++ YY
Sbjct: 28 EEKEKQIVDRLAVMEM--RADLLLKLGRKEEAEATYRALLDRNPENYDYYEGLQKAL 82
>gnl|CDD|221837 pfam12895, Apc3, Anaphase-promoting complex, cyclosome, subunit 3.
Apc3, otherwise known as Cdc27, is one of the subunits
of the anaphase-promoting complex or cyclosome. The
anaphase-promoting complex is a multiprotein subunit E3
ubiquitin ligase complex that controls segregation of
chromosomes and exit from mitosis in eukaryotes. The
protein members of this family contain TPR repeats just
as those of Apc7 do, and it appears that these TPR units
bind the C-termini of the APC co-activators CDH1 and
CDC20.
Length = 80
Score = 30.7 bits (70), Expect = 0.33
Identities = 17/88 (19%), Positives = 35/88 (39%), Gaps = 10/88 (11%)
Query: 259 KKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIENRAD--FKL 316
+ N+E A+ K + P++ +A YF + +Y + E + + + L
Sbjct: 1 DQGNYENAIFLAEKLLALTPSNED-AYLLAQCYFLQGQYKRAYELLRKLKLDNSSGCRYL 59
Query: 317 IAKALQRIGNCYKKMEDWKNAKVYFEKS 344
+A+ C K+ + A EK+
Sbjct: 60 LAQ-------CLLKLGKYDEAIAVLEKA 80
>gnl|CDD|239145 cd02682, MIT_AAA_Arch, MIT: domain contained within Microtubule
Interacting and Trafficking molecules. This sub-family
of MIT domains is found in mostly archaebacterial
AAA-ATPases. The molecular function of the MIT domain is
unclear.
Length = 75
Score = 30.6 bits (69), Expect = 0.40
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 246 SAKKEKELGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYI 305
A+K +A K+ N E+A+ +Y KA+E + + R Y+Q I +Y
Sbjct: 5 MARKYAINAVKAEKEGNAEDAITNYKKAIEVLSQIVKNYPDSPT----RLIYEQMINEYK 60
Query: 306 QKIE 309
++IE
Sbjct: 61 RRIE 64
>gnl|CDD|224302 COG1384, LysS, Lysyl-tRNA synthetase (class I) [Translation,
ribosomal structure and biogenesis].
Length = 521
Score = 33.1 bits (76), Expect = 0.41
Identities = 28/149 (18%), Positives = 50/149 (33%), Gaps = 20/149 (13%)
Query: 254 GNEAYKKKNFEEA---LAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIEN 310
G E K+ + L+H E P + F++ V E + +E I++
Sbjct: 337 GEEDAKEDERLKRIYELSHPGNPPERLPYQVPFRHLAVLVQIANAEEEDILEILIRRYLP 396
Query: 311 RADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEHRT------------PEIRTLIS 358
AD I +RI + D+ KV F + ++ +
Sbjct: 397 DADPDTIEDLDERIEYAINWLRDYAPEKVKFSIL-EKPPEAELSEDAKLEALEDLAEFLE 455
Query: 359 EMEKKIKEEEKKAYIDPVKAEEAKERGNE 387
++K E E + E AK++G
Sbjct: 456 SIQKASLEVELHNEV----YEVAKKKGIL 480
>gnl|CDD|227124 COG4785, NlpI, Lipoprotein NlpI, contains TPR repeats [General
function prediction only].
Length = 297
Score = 32.9 bits (75), Expect = 0.44
Identities = 17/46 (36%), Positives = 23/46 (50%)
Query: 22 LQANNFIEAIEAYSEAIKLDGTNHILFSNRSAAFAKEGNYEKALED 67
QA NF A EA+ ++LD T + NR A G Y+ A +D
Sbjct: 110 TQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDD 155
Score = 29.4 bits (66), Expect = 5.3
Identities = 18/77 (23%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 376 VKAEEAKERGNELFKNGKYADAV-------KEYTEAINRNPDDPKYYSNRAACYTKLAAF 428
+A +ER LF+ G D++ ++++A+ PD P+ ++ T+ F
Sbjct: 56 SRALTDEERAQLLFERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNF 115
Query: 429 DLGLKDCETCLKLDPKF 445
D + ++ L+LDP +
Sbjct: 116 DAAYEAFDSVLELDPTY 132
Score = 28.6 bits (64), Expect = 9.5
Identities = 17/55 (30%), Positives = 27/55 (49%)
Query: 58 EGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
GN++ A E + + L P + + +G AL Y GRYK + + DPN+
Sbjct: 112 AGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPND 166
>gnl|CDD|188247 TIGR02795, tol_pal_ybgF, tol-pal system protein YbgF. Members of
this protein family are the product of one of seven
genes regularly clustered in operons to encode the
proteins of the tol-pal system, which is critical for
maintaining the integrity of the bacterial outer
membrane. The gene for this periplasmic protein has been
designated orf2 and ybgF. All members of the seed
alignment were from unique tol-pal gene regions from
completed bacterial genomes. The architecture of this
protein is a signal sequence, a low-complexity region
usually rich in Asn and Gln, a well-conserved region
with tandem repeats that resemble the tetratricopeptide
(TPR) repeat, involved in protein-protein interaction.
Length = 117
Score = 31.1 bits (71), Expect = 0.51
Identities = 8/58 (13%), Positives = 26/58 (44%)
Query: 291 YFERKEYDQCIEQYIQKIENRADFKLIAKALQRIGNCYKKMEDWKNAKVYFEKSMSEH 348
Y+ + +Y + ++ ++ AL ++G +++ D + AK ++ + +
Sbjct: 47 YYAQGDYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRY 104
Score = 30.3 bits (69), Expect = 0.91
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 384 RGNELFKNGKYADAVKEYTEAINRNPDDPK 413
G + G YADA K + + + P PK
Sbjct: 43 LGEAYYAQGDYADAAKAFLAVVKKYPKSPK 72
Score = 29.9 bits (68), Expect = 1.3
Identities = 22/113 (19%), Positives = 41/113 (36%), Gaps = 8/113 (7%)
Query: 379 EEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSN----RAACYTKLAAFDLGLKD 434
E + + K G YADA++ + + + P Y N Y + K
Sbjct: 1 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKST-YAPNAHYWLGEAYYAQGDYADAAKA 59
Query: 435 CETCLKLDPKFLK---GWIRKGKILQGMQQQSKAIDAYEKALELDASNAEAVE 484
+K PK K ++ G LQ + + KA ++ ++ ++ A
Sbjct: 60 FLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKRYPGSSAAKL 112
>gnl|CDD|225504 COG2956, COG2956, Predicted N-acetylglucosaminyl transferase
[Carbohydrate transport and metabolism].
Length = 389
Score = 32.8 bits (75), Expect = 0.53
Identities = 19/102 (18%), Positives = 41/102 (40%), Gaps = 9/102 (8%)
Query: 252 ELGNEAYKKKNFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIENR 311
EL +A + + A KA++ D + + V + +Y + +E + +E
Sbjct: 185 ELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQN 244
Query: 312 ADFKLIAKALQRIGNCYK---KMEDWKNAKVYFEKSMSEHRT 350
++ +++ L+ + CY K + N F + E T
Sbjct: 245 PEY--LSEVLEMLYECYAQLGKPAEGLN----FLRRAMETNT 280
>gnl|CDD|193441 pfam12968, DUF3856, Domain of Unknown Function (DUF3856). TPR-like
protein. The 2hr2 structure belongs to the SCOP all
alpha class, TPR-like superfamily, CT2138-like family. A
DALI search gives hits with the putative peptidyl-prolyl
isomerase 2fbn (Z=16), the SGTA protein (Z=16), the PLCR
protein 2qfc (Z=16), a putative FK506-binding protein
(PDB:1qz2-A; DALI Z-score 15.3; RMSD 2.9; 16% sequence
identity within 132 superimposed residues), and with the
tetratricopeptide repeats of the protein phosphatase 5
(PDB:2bug; DALI Z-score 15.1; RMSD 2.5; 19% sequence
identity within 117 superimposed residues).
Length = 142
Score = 30.9 bits (70), Expect = 0.83
Identities = 24/109 (22%), Positives = 38/109 (34%), Gaps = 23/109 (21%)
Query: 17 KGNAALQANNFIEAIEAYS------------EAIKLDGTNHILFSNRSAAFAKEGNYEKA 64
LQ + EA + EA G + + S A A G Y++A
Sbjct: 15 DAERQLQDGAYEEAAASCRKAMEVSRTIPPEEAFDHAGFDAFCHAGLSGALAGLGRYDEA 74
Query: 65 LEDAEKTI-------SLKPD----WPKGYSRKGSALSYLGRYKESISTY 102
L A++ + L D W + AL LGR +E++ +
Sbjct: 75 LHSADRALRYFNRRGELHQDEGKLWIAAVFSRAVALEGLGRKEEALKEF 123
>gnl|CDD|223881 COG0811, TolQ, Biopolymer transport proteins [Intracellular
trafficking and secretion].
Length = 216
Score = 31.5 bits (72), Expect = 0.97
Identities = 21/100 (21%), Positives = 35/100 (35%), Gaps = 14/100 (14%)
Query: 46 ILFSNRSAAFAKEGNYE--------KALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKE 97
+L + A A E ++LEDA ++ D L + E
Sbjct: 27 LLLKILALALAGERLSLFEKRFWSGRSLEDAVLKLAESRDPLSA-----LELIFASAINE 81
Query: 98 SISTYEEGLKL-DPNNEQMKEAIKDVRNQEMNDMNRGDPF 136
GLKL P E+ + A+++ +E + RG
Sbjct: 82 LRRIERAGLKLGAPLKERARRALEEAIAREERRLERGLTL 121
>gnl|CDD|212566 cd11684, DHR2_DOCK, Dock Homology Region 2, a GEF domain, of
Dedicator of Cytokinesis proteins. DOCK proteins
comprise a family of atypical guanine nucleotide
exchange factors (GEFs) that lack the conventional Dbl
homology (DH) domain. As GEFs, they activate the small
GTPases Rac and Cdc42 by exchanging bound GDP for free
GTP. They are also called the CZH (CED-5, Dock180, and
MBC-zizimin homology) family, after the first family
members identified. Dock180 was first isolated as a
binding partner for the adaptor protein Crk. The
Caenorhabditis elegans protein, Ced-5, is essential for
cell migration and phagocytosis, while the Drosophila
ortholog, Myoblast city (MBC), is necessary for myoblast
fusion and dorsal closure. DOCKs are divided into four
classes (A-D) based on sequence similarity and domain
architecture: class A includes Dock1 (or Dock180), 2 and
5; class B includes Dock3 and 4; class C includes Dock6,
7, and 8; and class D includes Dock9, 10 and 11. All
DOCKs contain two homology domains: the DHR-1 (Dock
homology region-1), also called CZH1, and DHR-2 (also
called CZH2 or Docker). This alignment model represents
the DHR-2 domain of DOCK proteins, which contains the
catalytic GEF activity for Rac and/or Cdc42.
Length = 392
Score = 31.9 bits (73), Expect = 0.99
Identities = 32/181 (17%), Positives = 65/181 (35%), Gaps = 50/181 (27%)
Query: 262 NFEEALAHYNKAVEFDPTDITFQNNIAAVYFERKE--------YDQCIEQYIQKIENRAD 313
+FE A Y KA++ F++ + Y + I QY EN D
Sbjct: 56 SFERKEALYKKAID---------------LFDKGKAWEFAIALYKELIPQY----ENNFD 96
Query: 314 FKLIAKALQRIGNCYKKMEDWKNAKVY----------FEKSMSE----HRTPEIRTLISE 359
+ +++ ++I Y+K+ + F +S+ +R PE L +
Sbjct: 97 YAKLSEVHRKIAKLYEKIAEKDRLFPTYFRVGFYGKGFPESLRGKEFIYRGPEFERL-GD 155
Query: 360 MEKKIKEEEKKAYIDPVKAEEAKERGNELFKNGKY-----ADAVKEYTEAINRNPDDPKY 414
+++K A I +EE + L G+Y + + + ++R +
Sbjct: 156 FCERLKSLYPGAEIIQ-SSEEPDD--EILDSEGQYIQITSVEPYFDDEDLVSRAAPGVRQ 212
Query: 415 Y 415
+
Sbjct: 213 F 213
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 31.4 bits (71), Expect = 1.2
Identities = 20/49 (40%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 204 GDGDAEEMDVDPQPPSPKKAPSPPPAKKPAEPEDKNLTDEQRSAKKEKE 252
G G+AE+ P PPSP AP+PPP K A P K + + EK
Sbjct: 10 GKGEAEQPA--PAPPSPAAAPAPPPPAKTAAPATKAAAPAAAAPRAEKP 56
>gnl|CDD|238037 cd00084, HMG-box, High Mobility Group (HMG)-box is found in a
variety of eukaryotic chromosomal proteins and
transcription factors. HMGs bind to the minor groove of
DNA and have been classified by DNA binding preferences.
Two phylogenically distinct groups of Class I proteins
bind DNA in a sequence specific fashion and contain a
single HMG box. One group (SOX-TCF) includes
transcription factors, TCF-1, -3, -4; and also SRY and
LEF-1, which bind four-way DNA junctions and duplex DNA
targets. The second group (MATA) includes fungal mating
type gene products MC, MATA1 and Ste11. Class II and III
proteins (HMGB-UBF) bind DNA in a non-sequence specific
fashion and contain two or more tandem HMG boxes. Class
II members include non-histone chromosomal proteins,
HMG1 and HMG2, which bind to bent or distorted DNA such
as four-way DNA junctions, synthetic DNA cruciforms,
kinked cisplatin-modified DNA, DNA bulges, cross-overs
in supercoiled DNA, and can cause looping of linear DNA.
Class III members include nucleolar and mitochondrial
transcription factors, UBF and mtTF1, which bind
four-way DNA junctions.
Length = 66
Score = 28.7 bits (65), Expect = 1.3
Identities = 17/38 (44%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 347 EHRTPEIRTLISEMEKKIKEEEKKAYIDPVKAEEAKER 384
EI ++ EM K + EEEKK Y + KAE+ KER
Sbjct: 25 GLSVGEISKILGEMWKSLSEEEKKKYEE--KAEKDKER 60
>gnl|CDD|227665 COG5373, COG5373, Predicted membrane protein [Function unknown].
Length = 931
Score = 31.7 bits (72), Expect = 1.4
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 207 DAEEMDVDPQPPSPKKAPSPPPAKKPAEPE 236
A+ + P + + AP P A+ A PE
Sbjct: 47 VAKAAEQMAAPEAAEAAPLPAAAESIASPE 76
>gnl|CDD|234673 PRK00166, apaH, diadenosine tetraphosphatase; Reviewed.
Length = 275
Score = 30.9 bits (71), Expect = 1.6
Identities = 12/42 (28%), Positives = 15/42 (35%), Gaps = 4/42 (9%)
Query: 498 EEVRKRAMGDPEVQQILRDPAMRLILEQM-QNDPRALSDHLK 538
A EV+ +LR R L M N+P S L
Sbjct: 130 ATALALAR---EVEAVLRSDDYRDFLANMYGNEPDRWSPDLT 168
>gnl|CDD|233692 TIGR02031, BchD-ChlD, magnesium chelatase ATPase subunit D. This
model represents one of two ATPase subunits of the
trimeric magnesium chelatase responsible for insertion
of magnesium ion into protoporphyrin IX. This is an
essential step in the biosynthesis of both chlorophyll
and bacteriochlorophyll. This subunit is found in green
plants, photosynthetic algae, cyanobacteria and other
photosynthetic bacteria. Unlike subunit I (TIGR02030),
this subunit is not found in archaea [Biosynthesis of
cofactors, prosthetic groups, and carriers, Chlorophyll
and bacteriochlorphyll].
Length = 589
Score = 31.3 bits (71), Expect = 1.6
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 215 PQPPSPKKAPSPPPAKKPAEPEDKNLTDEQRSAKKEKE 252
P + P PPP +P EPE++ DE +
Sbjct: 265 RLPEPEPQPPPPPPPPEPPEPEEEP--DEPDQTDPDDG 300
Score = 29.4 bits (66), Expect = 6.2
Identities = 8/36 (22%), Positives = 12/36 (33%)
Query: 209 EEMDVDPQPPSPKKAPSPPPAKKPAEPEDKNLTDEQ 244
E + P PP P P P + + E+
Sbjct: 267 PEPEPQPPPPPPPPEPPEPEEEPDEPDQTDPDDGEE 302
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 31.3 bits (70), Expect = 1.9
Identities = 44/180 (24%), Positives = 75/180 (41%), Gaps = 10/180 (5%)
Query: 221 KKAPSPPPAKKPAEPEDKNLTDEQRSA---------KKEKELGNEAYKKKNFEEALAHYN 271
KKA A + + E+ DE + A KK +EL KKK E A +
Sbjct: 1516 KKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKKAEED 1575
Query: 272 KAVEFDPTDITFQNNIAAVYFERKEYDQCIEQYIQKIENRADFKLIAKALQRIGNCYKKM 331
K + + + A + K Y++ + ++ + + K+ A+ L++ KK+
Sbjct: 1576 KNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKV 1635
Query: 332 EDWKNAKVYFEKSMSEHRTPEIRTLI-SEMEKKIKEEEKKAYIDPVKAEEAKERGNELFK 390
E K + +K E + E I + E K EE+KK + KAEE +++ E K
Sbjct: 1636 EQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALK 1695
>gnl|CDD|221956 pfam13174, TPR_6, Tetratricopeptide repeat.
Length = 33
Score = 27.1 bits (61), Expect = 2.0
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 319 KALQRIGNCYKKMEDWKNAKVYFEK 343
AL ++ Y K+ D AK E+
Sbjct: 1 DALYKLALAYLKLGDTDEAKEALER 25
>gnl|CDD|238686 cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class II and III
members of the HMG-box superfamily of DNA-binding
proteins. These proteins bind the minor groove of DNA in
a non-sequence specific fashion and contain two or more
tandem HMG boxes. Class II members include non-histone
chromosomal proteins, HMG1 and HMG2, which bind to bent
or distorted DNA such as four-way DNA junctions,
synthetic DNA cruciforms, kinked cisplatin-modified DNA,
DNA bulges, cross-overs in supercoiled DNA, and can
cause looping of linear DNA. Class III members include
nucleolar and mitochondrial transcription factors, UBF
and mtTF1, which bind four-way DNA junctions.
Length = 66
Score = 28.0 bits (63), Expect = 2.1
Identities = 15/33 (45%), Positives = 22/33 (66%), Gaps = 2/33 (6%)
Query: 352 EIRTLISEMEKKIKEEEKKAYIDPVKAEEAKER 384
E+ ++ E K++ EEEKK Y + KAE+ KER
Sbjct: 30 EVTKILGEKWKELSEEEKKKYEE--KAEKDKER 60
>gnl|CDD|234796 PRK00571, atpC, F0F1 ATP synthase subunit epsilon; Validated.
Length = 135
Score = 29.3 bits (67), Expect = 2.1
Identities = 17/39 (43%), Positives = 19/39 (48%), Gaps = 4/39 (10%)
Query: 373 IDPVKAEEAKERGNELFKNGK----YADAVKEYTEAINR 407
ID +AEEAKER E +N YA A AI R
Sbjct: 89 IDEARAEEAKERAEEALENKHDDVDYARAQAALARAIAR 127
>gnl|CDD|224237 COG1318, COG1318, Predicted transcriptional regulators
[Transcription].
Length = 182
Score = 30.2 bits (68), Expect = 2.1
Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 6/93 (6%)
Query: 319 KALQRIGNCYKKMEDWKNAKVYFEKSMSEHRTPEIRTLISEMEKKIKEEEKKAYIDPVKA 378
KA Q + Y+K+++ V E E +IR + + KKIK E P+
Sbjct: 87 KAGQLVRETYEKLKEGGLDAVEVEIEKLEKEGLKIRWAVEVL-KKIKGE-----HFPMDK 140
Query: 379 EEAKERGNELFKNGKYADAVKEYTEAINRNPDD 411
E +E+ G+ + V + E +P D
Sbjct: 141 ELLEEKLKGEVIKGEPLEEVIDKLEYPVESPAD 173
>gnl|CDD|163665 cd07422, MPP_ApaH, Escherichia coli ApaH and related proteins,
metallophosphatase domain. ApaH (also known as
symmetrically cleaving Ap4A hydrolase and
bis(5'nucleosyl)-tetraphosphatase) is a bacterial member
of the PPP (phosphoprotein phosphatase) family of
serine/threonine phosphatases that hydrolyzes the
nucleotide-signaling molecule diadenosine tetraphosphate
(Ap(4)A) into two ADP and also hydrolyzes Ap(5)A,
Gp(4)G, and other extending compounds. Null mutations
in apaH result in high intracellular levels of Ap(4)A
which correlate with multiple phenotypes, including a
decreased expression of catabolite-repressible genes, a
reduction in the expression of flagellar operons, and an
increased sensitivity to UV and heat. Ap4A hydrolase
is important in responding to heat shock and oxidative
stress via regulating the concentration of Ap4A in
bacteria. Ap4A hydrolase is also thought to play a role
in siderophore production, but the mechanism by which
ApaH interacts with siderophore pathways in unknown.
The PPP (phosphoprotein phosphatase) family, to which
ApaH belongs, is one of two known protein phosphatase
families specific for serine and threonine. The PPP
family also includes: PP1, PP2A, PP2B (calcineurin),
PP4, PP5, PP6, PP7, Bsu1, RdgC, PrpE, and PrpA/PrpB. The
PPP catalytic domain is defined by three conserved
motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The PPP enzyme
family is ancient with members found in all eukaryotes,
and in most bacterial and archeal genomes.
Dephosphorylation of phosphoserines and
phosphothreonines on target proteins plays a central
role in the regulation of many cellular processes. PPPs
belong to the metallophosphatase (MPP) superfamily.
MPPs are functionally diverse, but all share a conserved
domain with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 257
Score = 30.2 bits (69), Expect = 2.4
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 496 NPEEVRKRAMGDPEVQQILRDPAMRLILEQM-QNDPRALSDHLK 538
+ E+ K A EV+ LR P R L+ M N+P SD L
Sbjct: 126 SIEQALKLAR---EVEAALRGPNYREFLKNMYGNEPDRWSDDLT 166
>gnl|CDD|222828 PHA01732, PHA01732, proline-rich protein.
Length = 94
Score = 28.6 bits (63), Expect = 2.5
Identities = 14/51 (27%), Positives = 19/51 (37%), Gaps = 2/51 (3%)
Query: 203 MGDGDAEEMDVDPQPPSPKKAPSPPPAKKPA--EPEDKNLTDEQRSAKKEK 251
M A + P P P P PPPA EP K + E ++ +
Sbjct: 1 MCIFRAPKPPEPPAPLPPAPVPPPPPAPPAPVPEPTVKPVNAEAPKIREAQ 51
>gnl|CDD|238685 cd01389, MATA_HMG-box, MATA_HMG-box, class I member of the HMG-box
superfamily of DNA-binding proteins. These proteins
contain a single HMG box, and bind the minor groove of
DNA in a highly sequence-specific manner. Members
include the fungal mating type gene products MC, MATA1
and Ste11.
Length = 77
Score = 28.0 bits (63), Expect = 2.7
Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 348 HRTPEIRTLISEMEKKIKEEEKKAYIDPVKAEEAKERGNELFKNGKY 394
EI +I M + E K Y + AEE KER + + KY
Sbjct: 27 LTNNEISRIIGRMWRSESPEVKAYYKE--LAEEEKERHAREYPDYKY 71
>gnl|CDD|222346 pfam13728, TraF, F plasmid transfer operon protein. TraF protein
undergoes proteolytic processing associated with export.
The 19 amino acids at the amino terminus of the
polypeptides appear to constitute a typical membrane
leader peptide - not included in this family, while the
remainder of the molecule is predicted to be primarily
hydrophilic in character. F plasmid TraF and TraH are
required for F pilus assembly and F plasmid transfer,
and they are both localised to the outer membrane in the
presence of the complete F transfer region, especially
TraV, the putative anchor.
Length = 215
Score = 29.9 bits (68), Expect = 2.8
Identities = 17/86 (19%), Positives = 32/86 (37%), Gaps = 23/86 (26%)
Query: 214 DPQPPSPKKAPSPPPAKKPAEPEDKNLTDEQRSAKKEKELGNEAYKKKNFEEALAHYNKA 273
+P P + P A + + + A+ ++ EEAL KA
Sbjct: 7 EPPEPKEPEKAPAPAAPAQSPSATEQM----------------AWLREYLEEAL---AKA 47
Query: 274 VEFDPTDITFQNNIAAVYFERKEYDQ 299
+ +PT+ +N A + +R D+
Sbjct: 48 I-LNPTE---ENVAAYMRLQRFILDK 69
>gnl|CDD|205550 pfam13371, TPR_9, Tetratricopeptide repeat.
Length = 73
Score = 27.9 bits (63), Expect = 3.0
Identities = 19/71 (26%), Positives = 39/71 (54%), Gaps = 3/71 (4%)
Query: 53 AAFAKEGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGLKLDPNN 112
A + +E ++E+AL E+ + L PD P +G + LG ++ +++ E L+L P+
Sbjct: 3 AIYLREEDFERALAVVERLLLLAPDDPYERRDRGLLYAQLGCFQAALADLEYFLELCPDA 62
Query: 113 ---EQMKEAIK 120
E+++E +
Sbjct: 63 PDAERIREQLA 73
Score = 27.2 bits (61), Expect = 4.5
Identities = 14/36 (38%), Positives = 17/36 (47%)
Query: 408 NPDDPKYYSNRAACYTKLAAFDLGLKDCETCLKLDP 443
PDDP +R Y +L F L D E L+L P
Sbjct: 25 APDDPYERRDRGLLYAQLGCFQAALADLEYFLELCP 60
>gnl|CDD|237080 PRK12370, PRK12370, invasion protein regulator; Provisional.
Length = 553
Score = 30.2 bits (68), Expect = 3.1
Identities = 21/87 (24%), Positives = 35/87 (40%), Gaps = 25/87 (28%)
Query: 397 AVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGLKDCETCLKLDPKFLKGWIRKGKIL 456
A+K T+ +N +P+ Y A CY +A +G+ D + +
Sbjct: 280 ALKLLTQCVNMSPNSIAPYCALAECYLSMAQ--MGIFDKQNAM----------------- 320
Query: 457 QGMQQQSKAIDAYEKALELDASNAEAV 483
KA + KA ELD +N +A+
Sbjct: 321 ------IKAKEHAIKATELDHNNPQAL 341
>gnl|CDD|219404 pfam07415, Herpes_LMP2, Gammaherpesvirus latent membrane protein
(LMP2) protein. This family consists of several
Gammaherpesvirus latent membrane protein (LMP2)
proteins. Epstein-Barr virus is a human Gammaherpesvirus
that infects and establishes latency in B lymphocytes in
vivo. The latent membrane protein 2 (LMP2) gene is
expressed in latently infected B cells and encodes two
protein isoforms, LMP2A and LMP2B, that are identical
except for an additional N-terminal 119 aa cytoplasmic
domain which is present in the LMP2A isoform. LMP2A is
thought to play a key role in either the establishment
or the maintenance of latency and/or the reactivation of
productive infection from the latent state. The
significance of LMP2B and its role in pathogenesis
remain unclear.
Length = 489
Score = 30.2 bits (68), Expect = 3.1
Identities = 16/57 (28%), Positives = 22/57 (38%), Gaps = 3/57 (5%)
Query: 188 MTTLSVL-LGVNMSSTMGDGDAEEMDVDPQPPSPKKAPSPPPAKKPAEPEDKNLTDE 243
M +L + LG + G D +E D +P PS S P PED +
Sbjct: 1 MVSLEMQPLGAGGPRSHGGPDGDEGDSNPYYPS--SFGSSWDRPGPPVPEDYDAPSH 55
>gnl|CDD|226941 COG4575, ElaB, Uncharacterized conserved protein [Function
unknown].
Length = 104
Score = 28.4 bits (64), Expect = 3.2
Identities = 16/76 (21%), Positives = 30/76 (39%), Gaps = 8/76 (10%)
Query: 341 FEKSMSEHRTPEIRTLISEMEKKIKEEEKKAYIDPVKAEEAKERGNELFKNGKYA----- 395
F + E++ L+ +E+ +K A +AEE + + K +
Sbjct: 5 FTDDAIDQLLAELQELLDTLEEVLKSSGSLA---GDEAEELRSKAESALKEARDRLGDTG 61
Query: 396 DAVKEYTEAINRNPDD 411
DAV + ++A DD
Sbjct: 62 DAVVQRSKAAADATDD 77
>gnl|CDD|216617 pfam01633, Choline_kinase, Choline/ethanolamine kinase. Choline
kinase catalyzes the committed step in the synthesis of
phosphatidylcholine by the CDP-choline pathway. This
alignment covers the protein kinase portion of the
protein. The divergence of this family makes it very
difficult to create a model that specifically predicts
choline/ethanolamine kinases only. However if [add Pfam
ID here for Choline_kinase_C] is also present then it is
definitely a member of this family.
Length = 206
Score = 29.6 bits (67), Expect = 3.4
Identities = 15/87 (17%), Positives = 33/87 (37%), Gaps = 20/87 (22%)
Query: 300 CIEQYI-------QKIENRADFKLIAKALQRIGN----------CYKKMEDWKNAKVYFE 342
+E++I + + + K IAK L+ + + + W+ +
Sbjct: 47 RVEEFIPSRTLSAEDLRDPEISKKIAKRLREFHDIEPPGKKSPSLFDTIRKWEAQITFEN 106
Query: 343 KSMSEHRTPEIRTLISEMEKKIKEEEK 369
+ S+ + ++EK+I E EK
Sbjct: 107 VNKSKGLKLI---DLEDLEKEINELEK 130
>gnl|CDD|215573 PLN03098, LPA1, LOW PSII ACCUMULATION1; Provisional.
Length = 453
Score = 30.2 bits (68), Expect = 3.5
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 3/52 (5%)
Query: 374 DPVKAEEAKERGNELFKNGKYADAVKEYTEAI--NRNPDDPK-YYSNRAACY 422
D AE+A G LF G+ DA+ ++ A+ N NPD+ + Y N+A C+
Sbjct: 71 DVKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCH 122
Score = 29.9 bits (67), Expect = 4.3
Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 10/71 (14%)
Query: 221 KKAPSPPPAKKPAEPEDKNLTDEQRSAKKEKELGNEAYKKKNFEEALAHYNKAVEFDPTD 280
+PS PAK +E + K +A+ LG + K ++ALA + A+E +P
Sbjct: 56 SSSPSSSPAKDGSEADVK-------TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNP 108
Query: 281 ITFQNNIAAVY 291
Q AA Y
Sbjct: 109 DEAQ---AAYY 116
>gnl|CDD|183140 PRK11447, PRK11447, cellulose synthase subunit BcsC; Provisional.
Length = 1157
Score = 30.1 bits (68), Expect = 3.7
Identities = 14/32 (43%), Positives = 22/32 (68%)
Query: 13 LLKDKGNAALQANNFIEAIEAYSEAIKLDGTN 44
LL +G+AAL+ANN +A Y +A ++D T+
Sbjct: 353 LLIQQGDAALKANNLAQAERLYQQARQVDNTD 384
>gnl|CDD|149484 pfam08437, Glyco_transf_8C, Glycosyl transferase family 8
C-terminal. This domain is found at the C-terminus of
the Pfam: PF01501 domain in bacterial
glucosyltransferase and galactosyltransferase proteins.
Length = 57
Score = 27.3 bits (61), Expect = 3.8
Identities = 8/30 (26%), Positives = 14/30 (46%)
Query: 369 KKAYIDPVKAEEAKERGNELFKNGKYADAV 398
+D V +++ K + L K GKY +
Sbjct: 18 DVPLLDAVTSKQYKYKYKHLLKQGKYISGI 47
>gnl|CDD|221958 pfam13176, TPR_7, Tetratricopeptide repeat.
Length = 36
Score = 26.4 bits (59), Expect = 3.8
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 82 YSRKGSALSYLGRYKESISTYEEGLKL 108
S G LG Y+++IS YE L L
Sbjct: 2 LSNLGRLYRKLGDYEKAISLYERALAL 28
>gnl|CDD|237793 PRK14703, PRK14703, glutaminyl-tRNA synthetase/YqeY domain fusion
protein; Provisional.
Length = 771
Score = 30.1 bits (68), Expect = 3.9
Identities = 24/80 (30%), Positives = 31/80 (38%), Gaps = 12/80 (15%)
Query: 207 DAEEMDVDPQPPSPKKAPSPPPAKKPAEPEDKNLTDEQRS--AKKEKELG-NEAYKK--- 260
A E + + +PKK P +K A E L EQR+ + ELG NE +
Sbjct: 559 RAREAAREKRAAAPKKTAKPRRSKAEARAEAAALNPEQRARFDRYLSELGLNEEDARTLA 618
Query: 261 ------KNFEEALAHYNKAV 274
FE ALA V
Sbjct: 619 RDPALAAFFEAALAAGKSPV 638
>gnl|CDD|216500 pfam01432, Peptidase_M3, Peptidase family M3. This is the Thimet
oligopeptidase family, large family of mammalian and
bacterial oligopeptidases that cleave medium sized
peptides. The group also contains mitochondrial
intermediate peptidase which is encoded by nuclear DNA
but functions within the mitochondria to remove the
leader sequence.
Length = 450
Score = 30.0 bits (68), Expect = 4.1
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 465 AIDAYEKALELDASNAEAVEGYRQCSIAV--SSNPEEVRKRAMGDPE 509
A+D +EK E D N E Y ++ S +P E+ K+ G
Sbjct: 393 ALDIFEKFFEQDPLNRETGLRYYLEFLSRGGSLDPLELLKKFGGRMP 439
>gnl|CDD|176974 CHL00033, ycf3, photosystem I assembly protein Ycf3.
Length = 168
Score = 29.2 bits (66), Expect = 4.3
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 391 NGKYADAVKEYTEAINRNPDDPKYYSNRAACY 422
NG++ A++ Y +A+ RNP P+ +N A
Sbjct: 85 NGEHTKALEYYFQALERNPFLPQALNNMAVIC 116
>gnl|CDD|205590 pfam13412, HTH_24, Winged helix-turn-helix DNA-binding.
Length = 48
Score = 26.6 bits (60), Expect = 4.3
Identities = 12/47 (25%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 515 RDPAMRLILEQMQNDPRA----LSD--HLKNPEIASKIQKLVNSGLI 555
D IL +Q +PR L++ L + ++++L GLI
Sbjct: 1 LDEIDLKILRLLQENPRISQRELAERLGLSLGTVNRRLKRLEEEGLI 47
>gnl|CDD|147296 pfam05038, Cytochrom_B558a, Cytochrome Cytochrome b558
alpha-subunit. Cytochrome b-245 light chain (p22-phox)
is one of the key electron transfer elements of the
NADPH oxidase in phagocytes.
Length = 186
Score = 29.1 bits (65), Expect = 4.7
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 219 SPKKAPSPPPAKKPAEPEDKNLTDEQRSAK 248
+ K+ PS PP + PAE K L + SA
Sbjct: 146 TIKQPPSNPPPRPPAEARKKPLEELGVSAY 175
>gnl|CDD|219321 pfam07174, FAP, Fibronectin-attachment protein (FAP). This family
contains bacterial fibronectin-attachment proteins
(FAP). Family members are rich in alanine and proline,
are approximately 300 long, and seem to be restricted to
mycobacteria. These proteins contain a
fibronectin-binding motif that allows mycobacteria to
bind to fibronectin in the extracellular matrix.
Length = 297
Score = 29.5 bits (66), Expect = 4.8
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 214 DPQPPSPKKAPSPPPAKKPAEP 235
P P P P+ PPA +P +P
Sbjct: 56 APAAPPPPPPPAAPPAPQPDDP 77
>gnl|CDD|217208 pfam02734, Dak2, DAK2 domain. This domain is the predicted
phosphatase domain of the dihydroxyacetone kinase
family.
Length = 174
Score = 29.1 bits (66), Expect = 4.9
Identities = 28/97 (28%), Positives = 34/97 (35%), Gaps = 30/97 (30%)
Query: 17 KGNAALQANNFIEAIEAYSEAIKL-------DGTNHIL-------------FSNRSAAFA 56
KG L A + A+EA EAI+ D T +L A A
Sbjct: 65 KGKDELDAEDLAAALEAALEAIQARGKAKPGDKT--MLDVLRPAAEALEAAKDGADLAEA 122
Query: 57 KEGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLG 93
E + A E AE T L + G A SYLG
Sbjct: 123 LEAAVKAAEEGAEATKELLA-------KLGRA-SYLG 151
>gnl|CDD|187878 cd09747, Csx1_III-U, CRISPR/Cas system-associated protein Csx1.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Protein of this family often fused to HTH domain; Some
proteins could have an additional fusion with
RecB-family nuclease domain; Core domain appears to have
a Rossmann-like fold; loosely associated with CRISPR/Cas
systems; also known as Cas02710 family.
Length = 378
Score = 29.6 bits (67), Expect = 4.9
Identities = 22/125 (17%), Positives = 41/125 (32%), Gaps = 11/125 (8%)
Query: 351 PEIRTLISEMEKKIKEEEKKAYIDPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNPD 410
++ + E+ E A ++ +A LF G Y A++ + R D
Sbjct: 107 KDLGRVEPGTERLRILENPYAAFGDLERRQAIR----LFNKGDYGSALRILEDLARRVLD 162
Query: 411 DPKY--YSNRAACYTKLAAFDLG-----LKDCETCLKLDPKFLKGWIRKGKILQGMQQQS 463
P Y Y + Y +FD L L L +G +L+ +++
Sbjct: 163 QPDYAAYKLLSEGYLAWDSFDHEEAADYLSKVLALLHLLNAEREGLEALTAVLRALERIL 222
Query: 464 KAIDA 468
+
Sbjct: 223 NDLAG 227
>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 = 28.4 bits (64), Expect = 5.0
Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 1/54 (1%)
Query: 449 WIRKGKILQGMQQQSKAIDAYEKALELDASNAEAVEGYRQCSIAVSSNPEEVRK 502
W+ Q +++ +AIDAY A LD + +C +A+ PE K
Sbjct: 54 WLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLAL-GEPESALK 106
>gnl|CDD|214613 smart00315, RGS, Regulator of G protein signalling domain. RGS
family members are GTPase-activating proteins for
heterotrimeric G-protein alpha-subunits.
Length = 118
Score = 28.0 bits (63), Expect = 5.1
Identities = 16/73 (21%), Positives = 32/73 (43%), Gaps = 7/73 (9%)
Query: 465 AIDAYEKALELDASNAEAVEGYRQ-------CSIAVSSNPEEVRKRAMGDPEVQQILRDP 517
A++ ++KA + + A+A E Y + + + S+ E + + E L D
Sbjct: 33 AVEEFKKAEDDEERIAKAREIYDKFLSPNAPKEVNLDSDLREKIEENLESEEPPPDLFDE 92
Query: 518 AMRLILEQMQNDP 530
A R + E ++ D
Sbjct: 93 AQREVYELLEKDS 105
>gnl|CDD|225464 COG2912, COG2912, Uncharacterized conserved protein [Function
unknown].
Length = 269
Score = 29.2 bits (66), Expect = 5.9
Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 47 LFSNRSAAFAKEGNYEKALEDAEKTISLKPDWPKGYSRKGSALSYLGRYKESISTYEEGL 106
L N AA +E +E AL AE+ + L P+ P +G + LG Y ++ +
Sbjct: 183 LLRNLKAALLRELQWELALRVAERLLDLNPEDPYEIRDRGLIYAQLGCYHVALEDLSYFV 242
Query: 107 KL---DPNNEQMKEAIKDVRNQ 125
+ DP E ++ + ++R +
Sbjct: 243 EHCPDDPIAEMIRAQLLELRQE 264
>gnl|CDD|185261 PRK15363, PRK15363, pathogenicity island 2 chaperone protein SscA;
Provisional.
Length = 157
Score = 28.4 bits (63), Expect = 6.7
Identities = 23/86 (26%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 449 WIRKGKILQGMQQQSKAIDAYEKALELDASNAEAVEGYRQCSIAVSSNPEEVRK------ 502
W R G+ Q + +AI AY +A ++ +A +C +A N K
Sbjct: 72 WFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLA-CDNVCYAIKALKAVV 130
Query: 503 RAMGDPEVQQILRDPAMRLILEQMQN 528
R G+ QILR A +L+Q+ +
Sbjct: 131 RICGEVSEHQILRQRA-EKMLQQLSD 155
>gnl|CDD|143462 cd07144, ALDH_ALD2-YMR170C, Saccharomyces cerevisiae aldehyde
dehydrogenase 2 (YMR170c)-like. NAD(P)+-dependent
Saccharomyces cerevisiae aldehyde dehydrogenase 2
(YMR170c, ALD5, EC=1.2.1.5) and other similar sequences,
are present in this CD.
Length = 484
Score = 29.3 bits (66), Expect = 7.1
Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 8/93 (8%)
Query: 338 KVYFEKSMS--EHRTPEIRTLISEMEKKIKEEEKKAYIDPV----KAEEAKERGNELFKN 391
K +++ +S E E L+ EK + K +I P ++ + E+F
Sbjct: 333 KTQYDRVLSYIEKGKKEGAKLVYGGEKAPEGLGKGYFIPPTIFTDVPQDMRIVKEEIFGP 392
Query: 392 GKYADAVKEYTEAINRNPDDPKYYSNRAACYTK 424
K Y EAI + D Y AA +TK
Sbjct: 393 VVVISKFKTYEEAIKKANDTT--YGLAAAVFTK 423
>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family. This
family consists of the 116kDa V-type ATPase (vacuolar
(H+)-ATPases) subunits, as well as V-type ATP synthase
subunit i. The V-type ATPases family are proton pumps
that acidify intracellular compartments in eukaryotic
cells for example yeast central vacuoles,
clathrin-coated and synaptic vesicles. They have
important roles in membrane trafficking processes. The
116kDa subunit (subunit a) in the V-type ATPase is part
of the V0 functional domain responsible for proton
transport. The a subunit is a transmembrane glycoprotein
with multiple putative transmembrane helices it has a
hydrophilic amino terminal and a hydrophobic carboxy
terminal. It has roles in proton transport and assembly
of the V-type ATPase complex. This subunit is encoded by
two homologous gene in yeast VPH1 and STV1.
Length = 707
Score = 29.3 bits (66), Expect = 7.4
Identities = 20/80 (25%), Positives = 35/80 (43%), Gaps = 6/80 (7%)
Query: 351 PEIRTLISEMEKKIKEEEKKAYIDPVKAE--EAKERGNELFKNGKYADAVKEYTEAINRN 408
++ I ++E +IKE E+ ++ ++ E E +E N L + + D E ++
Sbjct: 70 LDLEEEILDLEAEIKEVEE--NLESLEKEINELEEWLNVLDEEKSFLDENLEELSELSNL 127
Query: 409 PDDPKYYSNRAACYTKLAAF 428
D KY R A KL
Sbjct: 128 DIDFKYL--RGAEGLKLGFV 145
>gnl|CDD|227505 COG5178, PRP8, U5 snRNP spliceosome subunit [RNA processing and
modification].
Length = 2365
Score = 29.2 bits (65), Expect = 7.9
Identities = 13/50 (26%), Positives = 18/50 (36%), Gaps = 7/50 (14%)
Query: 217 PPSPKKAPSPPPAKKPAEPEDKNLTDEQRSAKK-------EKELGNEAYK 259
PP P P P +P P + ++RS K+ GN Y
Sbjct: 9 PPPPPPPPGFEPPSQPPPPPPPGVNVKKRSRKQLSIVGDILGHSGNPIYS 58
>gnl|CDD|165230 PHA02914, PHA02914, Immunoglobulin-like domain protein;
Provisional.
Length = 500
Score = 28.9 bits (64), Expect = 7.9
Identities = 26/138 (18%), Positives = 42/138 (30%), Gaps = 21/138 (15%)
Query: 374 DPVKAEEAKERGNELFKNGKYADAVKEYTEAINRNPDDPKYYSNRAACYTKLAAFDLGLK 433
D V+ + A++ + + Y+D +K T I K + N A CY A +
Sbjct: 319 DIVEGDFAEDDDFMISAHANYSDDLKNSTLTI------KKAHINNAGCYEAQAFMGKFKE 372
Query: 434 DCETCLKLDPKFLKGWIRKGK-----ILQGMQQQSKAIDAY----------EKALELDAS 478
+C C K+ W +G Q + E A LD
Sbjct: 373 ECRHCFKVADHVFFKWNTEGDNETKVACYAAQYDMQPFSILWKSNGVSFGGEIADALDEH 432
Query: 479 NAEAVEGYRQCSIAVSSN 496
+G I +
Sbjct: 433 EGAICDGCEASEIIIMDK 450
>gnl|CDD|236940 PRK11633, PRK11633, cell division protein DedD; Provisional.
Length = 226
Score = 28.4 bits (64), Expect = 8.3
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 208 AEEMDVDPQPPSPKKAPSPPPAKKP-AEPEDKNLTDEQRSAKKE 250
V+P+P P + P P P +KP +P+ + + + K E
Sbjct: 92 PPNTPVEPEPA-PVEPPKPKPVEKPKPKPKPQQKVEAPPAPKPE 134
>gnl|CDD|215299 PLN02543, PLN02543, pfkB-type carbohydrate kinase family protein.
Length = 496
Score = 28.7 bits (64), Expect = 9.4
Identities = 21/102 (20%), Positives = 36/102 (35%), Gaps = 10/102 (9%)
Query: 176 SLMTTKLKDPRMMTTLSVLLGVNMSSTMGDGDAEEMDVDPQPPSPKKAPSPPPAKKPAEP 235
S T + P+ S+ + +G A P KK P+ P K
Sbjct: 28 SQKTRRFPKPKASLHPSIKRSRPGRCST-NGAAVPESPKPSRRGRKKKPTSSPPKAKTTR 86
Query: 236 EDKNLTDEQRSAKKEKELGNE-AYKKKNFEEALAHYNKAVEF 276
+R+ K ++EL E A + + E Y+ ++F
Sbjct: 87 --------RRTKKTDQELDPEGAEEDQEAAEDGEDYDDGIDF 120
>gnl|CDD|168831 PRK07122, PRK07122, RNA polymerase sigma factor SigF; Reviewed.
Length = 264
Score = 28.6 bits (64), Expect = 9.5
Identities = 22/79 (27%), Positives = 30/79 (37%), Gaps = 12/79 (15%)
Query: 460 QQQSKAIDAYEKALELDASNAEAVEG------YRQCSIAVSSNPEEVRKRAMG------D 507
Q+ +A A E A EL E VEG Y SI + RA+ D
Sbjct: 138 QRLGRAPTASELAAELGMDREEVVEGLVAGSAYNTLSIDSGGGSGDDDARAIADTLGDVD 197
Query: 508 PEVQQILRDPAMRLILEQM 526
+ QI A+R +L +
Sbjct: 198 AGLDQIENREALRPLLAAL 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 0.130 0.363
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: 29,400,330
Number of extensions: 2951300
Number of successful extensions: 5035
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4746
Number of HSP's successfully gapped: 349
Length of query: 570
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 468
Effective length of database: 6,413,494
Effective search space: 3001515192
Effective search space used: 3001515192
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 (21.9 bits)
S2: 62 (27.5 bits)