RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|255764465|ref|YP_003064775.2| Na+/H+ antiporter NhaA
[Candidatus Liberibacter asiaticus str. psy62]
(382 letters)
>1zcd_A Na(+)/H(+) antiporter 1; membrane protein; 3.45A {Escherichia coli}
PDB: 3fi1_A
Length = 388
Score = 289 bits (740), Expect = 9e-79
Identities = 145/385 (37%), Positives = 221/385 (57%), Gaps = 15/385 (3%)
Query: 7 FLYRDNFTGILLISTTFITMILANISFSSAYYFDALEYKIA--------NLTLRDWVNDI 58
F D GI+LI + MI+AN +S +Y D LE + N + W+ND
Sbjct: 7 FFSSDASGGIILIIAAILAMIMANSGATSGWYHDFLETPVQLRVGSLEINKNMLLWINDA 66
Query: 59 LMILYFFMIGLELKHELIHGELSSWTKRSLPLLGAIGGITFPACIYMIINCHTEIYLKGW 118
LM ++F ++GLE+K EL+ G L+S + + P++ AIGG+ PA +Y+ N I +GW
Sbjct: 67 LMAVFFLLVGLEVKRELMQGSLASLRQAAFPVIAAIGGMIVPALLYLAFNYADPITREGW 126
Query: 119 AIPTATDIAFTLGILSWIGPNIPSSLKIFFTALTMIDDFSAIAIMAIFYTQSLNLFALQV 178
AIP ATDIAF LG+L+ +G +P +LKIF AL +IDD AI I+A+FYT L++ +L V
Sbjct: 127 AIPAATDIAFALGVLALLGSRVPLALKIFLMALAIIDDLGAIIIIALFYTNDLSMASLGV 186
Query: 179 AITLIFLLFLLNRCGFTNLFIYGFLGFFLWHSIFKSGIHTTVFGVIMALLLPDIKNY-HS 237
A I +L +LN CG +Y +G LW ++ KSG+H T+ GVI+ +P + + S
Sbjct: 187 AAVAIAVLAVLNLCGARRTGVYILVGVVLWTAVLKSGVHATLAGVIVGFFIPLKEKHGRS 246
Query: 238 PSNRISFYLLGDGLKSWVMPLVLPAFVFVNTGLTISTIPYTDISDPIVWGVMLGLFLGKQ 297
P+ R L L WV L+LP F F N G+++ + ++ + G++ GL +GK
Sbjct: 247 PAKR-----LEHVLHPWVAYLILPLFAFANAGVSLQGVTLDGLTSILPLGIIAGLLIGKP 301
Query: 298 SGIFLFAFSTVKIGWGKLPKDTNWCLLYGGSILCGIGFTMSLFLTLQAFPNAN-NLQEKA 356
GI LF + +++ LP+ T + + ILCGIGFTMS+F+ AF + + L A
Sbjct: 302 LGISLFCWLALRLKLAHLPEGTTYQQIMVVGILCGIGFTMSIFIASLAFGSVDPELINWA 361
Query: 357 KIGIILSSVISIIYAYLVFKIPLRK 381
K+GI++ S+ S + Y ++ LR
Sbjct: 362 KLGILVGSISSAVIGYSWLRVRLRP 386
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 49.6 bits (118), Expect = 1e-06
Identities = 59/316 (18%), Positives = 98/316 (31%), Gaps = 128/316 (40%)
Query: 38 YFDALE--YKIANLTLRDWVNDIL----MIL-----------YFFMIGLELKHELIHGE- 79
YF+ L Y+ T V D++ L F GL + L +
Sbjct: 169 YFEELRDLYQ----TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSN 224
Query: 80 ------LSSWTKRSLPLLGAIGGITFPACIYMIINCHTEIYLKGWAIPTATDIAFTLGIL 133
L S S PL IG I Y++ LG
Sbjct: 225 TPDKDYLLS-IPISCPL---IGVIQL--AHYVVT-AKL------------------LG-F 258
Query: 134 SWIGPNIPSSLKIFFTALT-----MIDDFSAIAI-MAI----FYTQSLNLFALQVAITLI 183
+ P L+ + T ++ +A+AI F+ AIT++
Sbjct: 259 T------PGELRSYLKGATGHSQGLV---TAVAIAETDSWESFFVSVRK------AITVL 303
Query: 184 FLLFLLNRC--GFTNLFIYGFLGFFLWHSIFKS------GIHT---TVFGVIMALLLPDI 232
F F+ RC + N L SI + G+ + ++ + + +
Sbjct: 304 F--FIGVRCYEAYPNTS--------LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYV 353
Query: 233 K--NYHSPSNR---ISFYLLGDGLKSWVM---PLVLPAF------VFVNTGLTISTIPYT 278
N H P+ + IS L +G K+ V+ P L +GL S IP++
Sbjct: 354 NKTNSHLPAGKQVEIS---LVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 279 D-----------ISDP 283
+ ++ P
Sbjct: 411 ERKLKFSNRFLPVASP 426
Score = 40.3 bits (94), Expect = 7e-04
Identities = 60/399 (15%), Positives = 103/399 (25%), Gaps = 155/399 (38%)
Query: 19 ISTTFITMILANISFS----SAYYFDALEYKIANLTLRDWVNDILMILYFFMIGL-ELKH 73
ST +T+ ++ +A +F A L++ F L E
Sbjct: 4 YSTRPLTLSHGSLEHVLLVPTASFFIAS-------QLQE----------QFNKILPEPTE 46
Query: 74 ELIHG-ELSSWTKRSLPLLGA-IGGI----------TFPACIYMIINCHTEIYLKGWAIP 121
E ++ L+G +G + F + + + YL+G
Sbjct: 47 GFAADDEPTT----PAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG---- 98
Query: 122 TATDI-AFTLGILSWIGPNIPSS---LKIFFTALTMIDD----------FSAIA-----I 162
DI A +L + + +K + TA M F A+ +
Sbjct: 99 --NDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL 156
Query: 163 MAIFYTQSLNLFALQVAITLIFLLFLLNRCGFTNLF-IY----GFLGFFLWHSIFKSGIH 217
+AIF Q + F L +Y +G I
Sbjct: 157 VAIFGGQGNT-----------------DDY-FEELRDLYQTYHVLVGDL---------IK 189
Query: 218 TTVFGVIMALLLPDIKNYHSPSNRISFYLLGDGLKSWVMPLVLPAFVFVNTGLTISTIPY 277
A L ++ + + + G + W L P S P
Sbjct: 190 F------SAETLSEL--IRTTLDAEKVFTQGLNILEW---LENP-----------SNTPD 227
Query: 278 TD------ISDPI--------------VWGV----MLGLFLG----KQSGIFLFAFSTVK 309
D IS P+ + G + G Q G+
Sbjct: 228 KDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ-GLVTAVAIAET 286
Query: 310 IGWGKLPKDTNWCLLYGGSILCGIGFTMSLFLTLQAFPN 348
W + ++L IG +A+PN
Sbjct: 287 DSWESFFVSVRKAI----TVLFFIGVR-----CYEAYPN 316
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.4 bits (67), Expect = 0.80
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 9/27 (33%)
Query: 140 IPSSLKIFFTALTMIDDFS--AIAIMA 164
+ +SLK++ A D S A+AI A
Sbjct: 25 LQASLKLY--A-----DDSAPALAIKA 44
>2r9r_B Paddle chimera voltage gated potassium channel KV1.2-KV2.1; voltage
sensor, voltage dependent, ION channel, shaker, membrane
protein; HET: NAP PGW; 2.40A {Rattus norvegicus} PDB:
2a79_B*
Length = 514
Score = 28.3 bits (62), Expect = 3.1
Identities = 32/255 (12%), Positives = 76/255 (29%), Gaps = 20/255 (7%)
Query: 104 YMIINCHTEIYLKGWAIPTATDIAFTLGILSWIGPNIPSSLKIFFTALTMIDDFSAIAIM 163
+ + + AI + I + I+S+ +P F +
Sbjct: 170 LLFEYPESSGPARIIAIVSVMVILIS--IVSFCLETLPIFRDENEDMHGGGVTFHTYSQS 227
Query: 164 AIFYTQSLN----LFALQVAITLIF-------LLFLLNRCGF----TNLF-IYGFLGFFL 207
I Y QS + F ++ + F ++ GF N+ I + +++
Sbjct: 228 TIGYQQSTSFTDPFFIVETLCIIWFSFEFLVRFFACPSKAGFFTNIMNIIDIVAIIPYYV 287
Query: 208 WHSIFKSGIHTTVFGVIMALLLPDIKNYHSPSNRISFYLLGDGLKSWVMPLVLPAFVFVN 267
+ +S F + ++ ++S + G + + + +
Sbjct: 288 TIFLTESNKSVLQFQNVRRVVQIFRIMRILRIFKLSRHSKGLQILGQTLKASMRELGLLI 347
Query: 268 TGLTISTIPYTDISDPIVWGVMLGLFLGKQSGIFLFAFSTVKIGWGKLPKDTNWCLLYGG 327
L I I ++ F + S +G+G + T + G
Sbjct: 348 FFLFIGVILFSSAVYFAEADERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGS 407
Query: 328 -SILCGIGFTMSLFL 341
+ G+ ++L +
Sbjct: 408 LCAIAGVLT-IALPV 421
>1y7l_A O-acetylserine sulfhydrylase, O-acetylserine (thiol)-lyase; X-RAY
crystallography, sulfhydrylase; HET: LLP; 1.55A
{Haemophilus influenzae} SCOP: c.79.1.1 PDB: 1fcj_A*
1oas_A* 1d6s_A*
Length = 316
Score = 27.6 bits (60), Expect = 5.6
Identities = 13/83 (15%), Positives = 26/83 (31%), Gaps = 3/83 (3%)
Query: 51 LRDWVNDILMILYFFMIGLELKHELIHGELSSWTKRSLPLLGAIGGITFPACIYMIINCH 110
++ + + + + + + GE + IG P + + I
Sbjct: 189 IKLDFGKQITSVAVEPVESPVISQTLAGEEVKPGPHKIQ---GIGAGFIPKNLDLSIIDR 245
Query: 111 TEIYLKGWAIPTATDIAFTLGIL 133
E A+ TA + GIL
Sbjct: 246 VETVDSDTALATARRLMAEEGIL 268
>2j8s_A ACRB, acriflavine resistance protein B; membrane protein/complex,
designed ankyrin repeat protein, multidrug resistance
protein; HET: LMT LMU; 2.54A {Escherichia coli} PDB:
2dhh_A 1iwg_A 2dr6_A* 2drd_A* 2hqf_A 2hqg_A 2hqd_A
2hqc_A 2i6w_A 1oy6_A* 1oy9_A* 1oyd_A* 1oy8_A* 1oye_A
2rdd_A* 2w1b_A* 3d9b_A 1t9x_A* 1t9t_A* 1t9v_A* ...
Length = 1055
Score = 26.7 bits (58), Expect = 8.9
Identities = 13/160 (8%), Positives = 42/160 (26%), Gaps = 1/160 (0%)
Query: 70 ELKHELIHGELSSWTKRSLPLLGAIGGITFPACIYMIINCHTEIYLKGWAIPTATDIAFT 129
++ + + + I +Y+ + + A+P F
Sbjct: 322 KIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATLIPTIAVPVVLLGTFA 381
Query: 130 LGILSWIGPNIPSSLKIFFTALTMIDDFSAIAIMAIFYTQSLNLFALQVAITLIFLLFLL 189
+ N ++ A+ ++ D + + + + + + A
Sbjct: 382 VLAAFGFSINTL-TMFGMVLAIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQG 440
Query: 190 NRCGFTNLFIYGFLGFFLWHSIFKSGIHTTVFGVIMALLL 229
G + F+ + + ++ A+ L
Sbjct: 441 ALVGIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMAL 480
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.331 0.146 0.459
Gapped
Lambda K H
0.267 0.0568 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,305,613
Number of extensions: 149332
Number of successful extensions: 380
Number of sequences better than 10.0: 1
Number of HSP's gapped: 369
Number of HSP's successfully gapped: 35
Length of query: 382
Length of database: 5,693,230
Length adjustment: 94
Effective length of query: 288
Effective length of database: 3,414,294
Effective search space: 983316672
Effective search space used: 983316672
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 57 (26.1 bits)