RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780855|ref|YP_003065268.1| NADH dehydrogenase subunit D
[Candidatus Liberibacter asiaticus str. psy62]
(396 letters)
>d2fug41 e.18.1.2 (4:35-409) NADH-quinone oxidoreductase chain 4,
Nqo4 {Thermus thermophilus [TaxId: 274]}
Length = 375
Score = 394 bits (1013), Expect = e-111
Identities = 174/379 (45%), Positives = 247/379 (65%), Gaps = 4/379 (1%)
Query: 18 PAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQE 77
P+ HGVLRL++ L GE V V PHIG LH G EK +E +T+LQ + Y R+DY+ +
Sbjct: 1 PSTHGVLRLMVTLSGEEVLEVVPHIGYLHTGFEKTMEHRTYLQNITYTPRMDYLHSFAHD 60
Query: 78 HAYALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGALTPPLWGFEERE 137
AYALAVEKLLG +P R + IRV+ +E+ R+ SHL+ + T +D+GALTP + F ERE
Sbjct: 61 LAYALAVEKLLGAVVPPRAETIRVILNELSRLASHLVFLGTGLLDLGALTPFFYAFRERE 120
Query: 138 KLMVFYERASGSRMHAAYFRPGGVHQDIPPELVEDIGCWCDSFPSALNDISDLLTGNRIF 197
++ +E +G R H Y R GGV +D+P E V ++ + P +++ L + IF
Sbjct: 121 TILDLFEWVTGQRFHHNYIRIGGVKEDLPEEFVPELKKLLEVLPHRIDEYEALFAESPIF 180
Query: 198 KQRNVNIGTVKLEDAWGWGFSGVMIRGSGAAWDLRKSQPYECYSELDFDIPIGKHGDCYD 257
+R +G + E A G +G +R SG +D+RK+ PY Y FD+P+G+ GD +D
Sbjct: 181 YERARGVGVIPPEVAIDLGLTGGSLRASGVNYDVRKAYPYSGYETYTFDVPLGERGDVFD 240
Query: 258 RYLVRMMEMRESVKIIRQCVNRLLGKNKVGPVSASDPKIVPPKRADMKRSMESLIHHFKL 317
R LVR+ EMRESVKII+Q + RL + GPV +P+I PP R ++ SME++I+HFK
Sbjct: 241 RMLVRIREMRESVKIIKQALERL----EPGPVRDPNPQITPPPRHLLETSMEAVIYHFKH 296
Query: 318 YTEGYHVPVGEVYAAVEAPKGEFGVYLISDGGNKPYRCKIRAPGYAHLQAMEFLCKGHQL 377
YTEG+H P GEVY E+ +GE G Y++SDGG+ PYR K+RAP + +LQ++ + CKG Q+
Sbjct: 297 YTEGFHPPKGEVYVPTESARGELGYYIVSDGGSMPYRVKVRAPSFVNLQSLPYACKGEQV 356
Query: 378 ADVSAILGSLDIVFGEVDR 396
D+ AI+ SLD V G+VDR
Sbjct: 357 PDMVAIIASLDPVMGDVDR 375
>d1cc1l_ e.18.1.1 (L:) Nickel-iron hydrogenase, large subunit
{Desulfomicrobium baculatum [TaxId: 899]}
Length = 487
Score = 200 bits (510), Expect = 1e-52
Identities = 72/466 (15%), Positives = 127/466 (27%), Gaps = 98/466 (21%)
Query: 21 HGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAY 80
G L++ +E+ V G + RG E+++ + + R+ V P A
Sbjct: 12 EGHLKIEVEVKDGKVVDAKCS-GGMFRGFEQILRGRDPRDSSQIVQRICGVCPTAHCTAS 70
Query: 81 ALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLN------------------------- 115
+A + G+++ G++ R L + SH+L+
Sbjct: 71 VMAQDDAFGVKVTTNGRITRNLIFGANYLQSHILHFYHLAALDYVKGPDVSPFVPRYANA 130
Query: 116 ----------VTTQAMDVGALTPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDI 165
A + L L E R G H GG +
Sbjct: 131 DLLTDRIKDGAKADATNTYGLNQYLKALEIRRICHEMVAMFGGRMPHVQGMVVGGATEIP 190
Query: 166 PPELVEDIGCWCDSFPS-----------ALNDISDLLTGNRIFKQRNVNIGTVKLEDAWG 214
+ V + L + L I + + G +D +
Sbjct: 191 TADKVAEYAARFKEVQKFVIEEYLPLIYTLGSVYTDLFETGIGWKNVIAFGVFPEDDDYK 250
Query: 215 WGF--SGVMIRGSGAAWDLRKSQPYECYSELDFDIPIGKHGDCYD--------------- 257
GV I G +D + + Y +S D P G H +
Sbjct: 251 TFLLKPGVYIDGKDEEFDSKLVKEYVGHSFFDHSAPGGLHYSVGETNPNPDKPGAYSFVK 310
Query: 258 --RYLVRMMEMRESVKIIRQC-----VNRLLGKNKVGPVSASDPKIVPPKRADMKR---- 306
RY + E+ ++ Q V + L K G + + + M R
Sbjct: 311 APRYKDKPCEVGPLARMWVQNPELSPVGQKLLKELYGIEAKKFRDLGDKAFSIMGRHVLR 370
Query: 307 ---------SMESLIHHFKLYTEGYHVPV----GEVYAAVEAPKGEFGVYLISDGGNKPY 353
++E + + E Y E EAP+G YL K
Sbjct: 371 AEETWLTAVAVEKWLKQVQPGAETYVKSEIPDAAEGTGFTEAPRGALLHYLKIKDK-KIE 429
Query: 354 RCKIRAP---------GYAHLQAMEFLCKGHQLADVSAILGSLDIV 390
+I + +E G + D+ + +V
Sbjct: 430 NYQIVSATLWNANPRDDMGQRGPIEEALIGVPVPDIKNPVNVGRLV 475
>d1frfl_ e.18.1.1 (L:) Nickel-iron hydrogenase, large subunit
{Desulfovibrio fructosovorans [TaxId: 878]}
Length = 543
Score = 119 bits (299), Expect = 4e-28
Identities = 37/210 (17%), Positives = 65/210 (30%), Gaps = 29/210 (13%)
Query: 21 HGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAY 80
G LR+++E++ V+ L RG E +++ + A + R V A
Sbjct: 19 EGHLRIMVEVENGKVKDAWSSSQL-FRGLEIILKGRDPRDAQHFTQRACGVCTYVHALAS 77
Query: 81 ALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVG---------------- 124
+ V+ + + IP +++R L + HL++
Sbjct: 78 SRCVDDAVKVSIPANARMMRNLVMASQYLHDHLVHFYHLHALDWVDVTAALKADPNKAAK 137
Query: 125 ---ALTPPLWGFEER------EKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVEDIGC 175
++ G E+ +KL F E AYF G +PPE+
Sbjct: 138 LAASIDTARTGNSEKALKAVQDKLKAFVESGQLGIFTNAYFLGGHKAYYLPPEVNLIATA 197
Query: 176 ---WCDSFPSALNDISDLLTGNRIFKQRNV 202
+L G Q V
Sbjct: 198 HYLEALHMQVKAASAMAILGGKNPHTQFTV 227
Score = 94.9 bits (235), Expect = 1e-20
Identities = 35/341 (10%), Positives = 74/341 (21%), Gaps = 75/341 (21%)
Query: 112 HLLNVTTQAMDVGALTPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVE 171
H +++ A L + K G H + GG +
Sbjct: 182 HKAYYLPPEVNLIATAHYLEALHMQVKAASAMAILGGKNPHTQFTVVGGCSNYQGLT-KD 240
Query: 172 DIGCWCDSFPSALNDISDLL---------------------------------------T 192
+ + +++
Sbjct: 241 PLANYLALSKEVCQFVNECYIPDLLAVAGFYKDWGGIGGTSNYLAFGEFATDDSSPEKHL 300
Query: 193 GNRIFKQRNVNIGTVKLEDAWGWGFSGVMIRGSGAAWDLRKSQPYECYSELDFDIPIGKH 252
F + + D G ++ S A PY+ ++ + K
Sbjct: 301 ATSQFPSGVITGRDLGKVDNVDLGAIYEDVKYSWYAPGGDGKHPYDGVTDPKYTKLDDKD 360
Query: 253 GDCYDRYLVRMMEMRESVKIIRQCVN-------------RLLGKNKVGPVSASDP----- 294
+ + + E + R + +LGK V +
Sbjct: 361 HYSWMKAPRYKGKAMEVGPLARTFIAYAKGQPDFKKVVDMVLGKLSVPATALHSTLGRTA 420
Query: 295 -------KIVPPKRADMKRSMESLIHHFKLYTEGYHVPVGEVYAAVEAPKGEFGVYLISD 347
+ +K +S L + + +AP+G ++
Sbjct: 421 ARGIETAIVCANMEKWIKEMADSGAKDNTLCAKWEMPEESKGVGLADAPRGSLSHWIRIK 480
Query: 348 GGNKPYRCKIRAP---------GYAHLQAMEFLCKGHQLAD 379
G K ++ P +E G +AD
Sbjct: 481 GK-KIDNFQLVVPSTWNLGPRGPQGDKSPVEEALIGTPIAD 520
>d1e3db_ e.18.1.1 (B:) Nickel-iron hydrogenase, large subunit
{Desulfovibrio desulfuricans [TaxId: 876]}
Length = 537
Score = 118 bits (296), Expect = 8e-28
Identities = 24/137 (17%), Positives = 43/137 (31%), Gaps = 2/137 (1%)
Query: 21 HGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAY 80
G LR+ +E++G +++ L RG E +++ + A + R V A
Sbjct: 19 EGHLRIEVEVEGGVIKEARSC-ATLFRGIETILKGRDPRDAQHFTQRTCGVCTYTHALAS 77
Query: 81 ALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGALTPPLWGFEEREKLM 140
+E + IP IR L + HL++ + K
Sbjct: 78 TRCLEDAINKPIPANATYIRNLVLGNQFMHDHLVHFYHLHALDFV-DVTSALLADPAKAA 136
Query: 141 VFYERASGSRMHAAYFR 157
S + F
Sbjct: 137 KLANSISPRKATTEEFA 153
Score = 87.2 bits (215), Expect = 2e-18
Identities = 24/236 (10%), Positives = 54/236 (22%), Gaps = 39/236 (16%)
Query: 155 YFRPGGVHQDIPPELVEDIGCWCDSFPSALNDISDLLTGNRIFKQRNVNIGTVKLEDAWG 214
Y R G Q P +E+ A + F K G
Sbjct: 307 YDRKVGSVQPFDPSKIEEHVRHSWYEGKARAPFEGETNPHFTFMGDTDKYSWNKAPRYDG 366
Query: 215 -WGFSGVMIRG-SGAAWDLRKSQPYECYSELDFDIPIGKHGDCYDRYLVRMMEMRESVKI 272
+G + + + + +P ++ R R ++ +
Sbjct: 367 HAVETGPLAQMLVAYGHNHKTIKPTIDAVLGKLNLGPEALFSTLGRTAARGIQTLVIAQQ 426
Query: 273 IRQCVNRLLGKNKVGPVSASDPKIVPPKRADMKRSMESLIHHFKLYTEGYHVPVGEVYAA 332
+ +N +++ ++ +
Sbjct: 427 MENWLNEY---------------------------ENNIVKDKQIVEDYAVPTSARGVGF 459
Query: 333 VEAPKGEFGVYLISDGGNKPYRCKIRAP---------GYAHLQAMEFLCKGHQLAD 379
+ +G ++ + G K ++ P A E G +AD
Sbjct: 460 ADVSRGGLSHWMTIEDG-KIDNFQLVVPTTWNLGPRDDKGVPSAAEAALVGTPVAD 514
>d1wuil1 e.18.1.1 (L:19-552) Nickel-iron hydrogenase, large subunit
{Desulfovibrio vulgaris [TaxId: 881]}
Length = 534
Score = 117 bits (294), Expect = 2e-27
Identities = 25/137 (18%), Positives = 46/137 (33%), Gaps = 2/137 (1%)
Query: 21 HGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAY 80
G LR+ +E++ V+ L RG E +++ + A + R V A
Sbjct: 16 EGHLRIEVEVENGKVKNAYSS-STLFRGLEIILKGRDPRDAQHFTQRTCGVCTYTHALAS 74
Query: 81 ALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGALTPPLWGFEEREKLM 140
V+ +G+ IP IR L + H+++ + +
Sbjct: 75 TRCVDNAVGVHIPKNATYIRNLVLGAQYLHDHIVHFYHLHALDFVDVTAALKADPAKAAK 134
Query: 141 VFYERASGSRMHAAYFR 157
V S + AA +
Sbjct: 135 VASS-ISPRKTTAADLK 150
Score = 103 bits (257), Expect = 3e-23
Identities = 56/444 (12%), Positives = 108/444 (24%), Gaps = 80/444 (18%)
Query: 18 PAAHGVLRLILELDGEIVERVDPHI---GLLHRGTEKLIETKTFLQAVPYFDRLDYVAPM 74
A + L+L + + HI LH + ++P
Sbjct: 88 KNATYIRNLVLGA-----QYLHDHIVHFYHLHALDFVDVTAALKADPAKAAKVASSISPR 142
Query: 75 NQEHAYALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGALTPPLWGFE 134
A AV+ L + +G ++ L ++ A L
Sbjct: 143 KTTAADLKAVQDKLKTFVETGQLGPFTNAYFLGGHPAYYL---DPETNLIATAHYLEALR 199
Query: 135 EREKLMVFYERASGSRMHAAYFRPGGVHQDIPP---------ELVEDIGCWCDSFPSALN 185
+ K H + GGV L ++ + D
Sbjct: 200 LQVKAARAMAVFGAKNPHTQFTVVGGVTCYDALTPQRIAEFEALWKETKAFVDEVYIPDL 259
Query: 186 DIS--------------------DLLTGNRIFKQRNVNIGTVKLEDAWGWGFSGVMIRGS 225
+ + R G V D M
Sbjct: 260 LVVAAAYKDWTQYGGTDNFITFGEFPKDEYDLNSRFFKPGVVFKRDFKNIKPFDKMQIEE 319
Query: 226 GAAWDLRK----SQPYECYSELDFDIPIGKHGDCYD---RYLVRMMEMRESVKIIRQC-- 276
+ P++ ++ + G + RY+ ME +++
Sbjct: 320 HVRHSWYEGAEARHPWKGQTQPKYTDLHGDDRYSWMKAPRYMGEPMETGPLAQVLIAYSQ 379
Query: 277 --------VNRLLGKNKVGPVSASDP------------KIVPPKRADMKRSMESLIHHFK 316
+ +L K VGP + I ++ +++
Sbjct: 380 GHPKVKAVTDAVLAKLGVGPEALFSTLGRTAARGIETAVIAEYVGVMLQEYKDNIAKGDN 439
Query: 317 LYTEGYHVPV-GEVYAAVEAPKGEFGVYLISDGGNKPYRCKIRAP---------GYAHLQ 366
+ + +P E V AP+G ++ + G K ++ P L
Sbjct: 440 VICAPWEMPKQAEGVGFVNAPRGGLSHWIRIEDG-KIGNFQLVVPSTWTLGPRCDKNKLS 498
Query: 367 AMEFLCKGHQLADVSAILGSLDIV 390
+E G +AD + L V
Sbjct: 499 PVEASLIGTPVADAKRPVEILRTV 522
>d1yq9h1 e.18.1.1 (H:7-536) Nickel-iron hydrogenase, large subunit
{Desulfovibrio gigas [TaxId: 879]}
Length = 530
Score = 117 bits (293), Expect = 2e-27
Identities = 55/444 (12%), Positives = 108/444 (24%), Gaps = 80/444 (18%)
Query: 18 PAAHGVLRLILELDGEIVERVDPHI---GLLHRGTEKLIETKTFLQAVPYFDRLDYVAPM 74
A + L + + + H+ LH + + ++P
Sbjct: 84 ENATLMRNLTMGA-----QYMHDHLVHFYHLHALDWVNVANALNADPAKAARLANDLSPR 138
Query: 75 NQEHAYALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGALTPPLWGFE 134
AV+ + + GQL +++ + H V +D+ A L
Sbjct: 139 KTTTESLKAVQAKVK-ALVESGQLG--IFTNAYFLGGHPAYVLPAEVDLIATAHYLEALR 195
Query: 135 EREKLMVFYERASGSRMHAAYFRPGGVHQDIP--PELVEDIGCWCDSFPSALNDIS---- 188
+ K H + GG PE + + + +
Sbjct: 196 VQVKAARAMAIFGAKNPHTQFTVVGGCTNYDSLRPERIAEFRKLYKEVREFIEQVYITDL 255
Query: 189 -----------------------DLLTGNRIFKQRNVNIGTVKLEDAWGWGFSGVMIRGS 225
+ T R G + D +
Sbjct: 256 LAVAGFYKNWAGIGKTSNFLTCGEFPTDEYDLNSRYTPQGVIWGNDLSKVDDFNPDLIEE 315
Query: 226 GAAWDLRK----SQPYECYSELDFDIPIGKHGDCYDRYLVRMMEMRESVKIIRQCVNRLL 281
+ + PY+ ++ + G+ + + E E + V
Sbjct: 316 HVKYSWYEGADAHHPYKGVTKPKWTEFHGEDRYSWMKAPRYKGEAFEVGPLASVLVAYAK 375
Query: 282 G-------------KNKVGPVSASDPKIVPPKRAD-MKRSMESLIHHF------------ 315
VGP + R + + +
Sbjct: 376 KHEPTVKAVDLVLKTLGVGPEALFSTLGRTAARGIQCLTAAQEVEVWLDKLEANVKAGKD 435
Query: 316 KLYTEGYHVPVGEVYAAVEAPKGEFGVYLISDGGNKPYRCKIRAP---------GYAHLQ 366
LYT+ + + V AP+G +++ GG K ++ P L
Sbjct: 436 DLYTDWQYPTESQGVGFVNAPRGMLSHWIVQRGG-KIENFQLVVPSTWNLGPRCAEGKLS 494
Query: 367 AMEFLCKGHQLADVSAILGSLDIV 390
A+E G +AD + L V
Sbjct: 495 AVEQALIGTPIADPKRPVEILRTV 518
Score = 116 bits (290), Expect = 4e-27
Identities = 25/137 (18%), Positives = 47/137 (34%), Gaps = 2/137 (1%)
Query: 21 HGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAY 80
G LR+ +E++G ++ L RG E +++ + A + R V A
Sbjct: 12 EGHLRIEVEVEGGKIKNAWSM-STLFRGLEMILKGRDPRDAQHFTQRACGVCTYVHALAS 70
Query: 81 ALAVEKLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGALTPPLWGFEEREKLM 140
AV+ +G++IP L+R L + HL++ + K
Sbjct: 71 VRAVDNCVGVKIPENATLMRNLTMGAQYMHDHLVHFYHLHALDWVN-VANALNADPAKAA 129
Query: 141 VFYERASGSRMHAAYFR 157
S + +
Sbjct: 130 RLANDLSPRKTTTESLK 146
>d1dssg1 c.2.1.3 (G:1-148,G:313-334) Glyceraldehyde-3-phosphate
dehydrogenase (GAPDH) {South China Sea lobster
(Palinurus versicolor) [TaxId: 150436]}
Length = 169
Score = 26.0 bits (57), Expect = 6.1
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 23 VLRLILELDGEIVERVDPHIGL 44
VLR LE+ ++V DP I L
Sbjct: 15 VLRAALEMGAQVVAVNDPFIAL 36
>d1vema2 c.1.8.1 (A:1-417) Bacterial beta-amylase {Bacillus cereus
[TaxId: 1396]}
Length = 417
Score = 26.0 bits (57), Expect = 6.4
Identities = 7/73 (9%), Positives = 26/73 (35%), Gaps = 4/73 (5%)
Query: 122 DVGALTPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVED-IGCWCDSF 180
D + P W + ++ ++++ +G+ + P D+ + + + +
Sbjct: 97 DDCNVPIPSWVWNQKSDDSLYFKSETGTV-NKETLNPLAS--DVIRKEYGELYTAFAAAM 153
Query: 181 PSALNDISDLLTG 193
+ I+ +
Sbjct: 154 KPYKDVIAKIYLS 166
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.322 0.141 0.433
Gapped
Lambda K H
0.267 0.0471 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,574,753
Number of extensions: 77017
Number of successful extensions: 214
Number of sequences better than 10.0: 1
Number of HSP's gapped: 197
Number of HSP's successfully gapped: 15
Length of query: 396
Length of database: 2,407,596
Length adjustment: 87
Effective length of query: 309
Effective length of database: 1,213,086
Effective search space: 374843574
Effective search space used: 374843574
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.2 bits)