RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780524|ref|YP_003064937.1| flagellar hook-associated
protein FlgK [Candidatus Liberibacter asiaticus str. psy62]
(480 letters)
>2d4y_A HAP1, flagellar HOOK-associated protein 1; multi-domain protein,
alpha-helical bundle, complex all- beta folds,
structural protein; 2.10A {Salmonella typhimurium}
Length = 463
Score = 91.5 bits (226), Expect = 4e-19
Identities = 40/257 (15%), Positives = 102/257 (39%), Gaps = 5/257 (1%)
Query: 62 MFDKVLHAHSSAIGQQRLLQSFEALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLSED 121
+ +++ A + + G + + +++ +S + + SL++ N +
Sbjct: 7 ITNQLRGAQNQSSGLTTRYEQMSKIDNLLADKS---SSLSGSLQSFFTSLQTLVSNAEDP 63
Query: 122 ILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIK--F 179
+ +I AE +V F T+ + ++ + I ++ + + ++ +ND I
Sbjct: 64 AARQALIGKAEGLVNQFKTTDQYLRDQDKQVNIAIGSSVAQINNYAKQIANLNDQISRMT 123
Query: 180 KTASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDGTTLFETVPRDINFEK 239
+ +D LDQRD L+ ++++I+G+ V++ + ++G TL +
Sbjct: 124 GVGAGASPNDLLDQRDQLVSELNKIVGVEVSVQDGGTYNLTMANGYTLVQGSTARQLAAV 183
Query: 240 MNSYTVTSESNPIFIDGVVVSSNQGSAVPKGKIKALLQIRDSVVPIFQNQLDEMARVLIG 299
+S T + + + G + LL R + +N L ++A
Sbjct: 184 PSSADPTRTTVAYVDEAAGNIEIPEKLLNTGSLGGLLTFRSQDLDQTRNTLGQLALAFAD 243
Query: 300 SFSEKDPIAGNSENVPG 316
+F+ + +++ G
Sbjct: 244 AFNAQHTKGYDADGNKG 260
>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 = 49.9 bits (119), Expect = 1e-06
Identities = 63/432 (14%), Positives = 121/432 (28%), Gaps = 177/432 (40%)
Query: 100 PT-HYI--SKLRD----SLESYSKNLSEDILGKTVIDNAEEVVQNF-NTSAREVQKIRAD 151
PT + S+L++ L ++ + D T E+V F + V+
Sbjct: 23 PTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA----ELVGKFLGYVSSLVE----- 73
Query: 152 ADKEIELEISNLRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDV--LLQKISEIIGIS- 208
++ L L+E F+ +L+ D+ L K+ + +
Sbjct: 74 -PSKVGQFDQVLNLCLTE---------FEN-------CYLEGNDIHALAAKLLQENDTTL 116
Query: 209 ----TIVRNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQG 264
+++N Y ++ +F
Sbjct: 117 VKTKELIKN------Y-------ITAR------IMAKRPFDKKSNSALF----------- 146
Query: 265 SAVPKGKIKALLQIRDSVVPIFQNQ------LDE----------MARVLIGSFSEK-DPI 307
AV +G + +V IF Q +E + LI +E +
Sbjct: 147 RAVGEGNAQ--------LVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSEL 198
Query: 308 AGNSENVPGLFIADGIKDLDNKLCQGISETICVNPQYRSNPSFLRDGGS--VSKKFLWNV 365
+ + +F + L+ + + + NP + +L S +S
Sbjct: 199 IRTTLDAEKVF----TQGLN--ILEWLE-----NPSNTPDKDYL---LSIPIS------- 237
Query: 366 KNLAGYPDLIN-----HYCDSFNKNFIFDPVAGINTNVT---LLEYARNSIGWLEKNRSD 417
P LI HY V T L Y + + G
Sbjct: 238 -----CP-LIGVIQLAHYV-----------VTAKLLGFTPGELRSYLKGATG-------- 272
Query: 418 SHDLHMKSQ--VVFNHISES------YSNTV-GVNLQEELSFLIKVE--QSYNISNKLIM 466
H SQ V I+E+ + + + + F I V ++Y ++
Sbjct: 273 -H-----SQGLVTAVAIAETDSWESFFVSVRKAI----TVLFFIGVRCYEAYPNTS---- 318
Query: 467 FTDKMLQTLLEG 478
+L+ LE
Sbjct: 319 LPPSILEDSLEN 330
Score = 34.5 bits (79), Expect = 0.054
Identities = 53/264 (20%), Positives = 102/264 (38%), Gaps = 68/264 (25%)
Query: 1 MSLLAVFNKAQNICNNASQQFA--------SIVRN------IENADNKNYVRRDTMTTIS 46
M L AQ++ N A F IV N I K R+ + +
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI 1692
Query: 47 PENVTVVTQRSENKNMFDKVLHAHSSAI---GQQRLLQ---------------SFEALKE 88
E T+V + + + +F K ++ HS++ ++ LL +FE LK
Sbjct: 1693 FE--TIVDGKLKTEKIF-KEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKS 1749
Query: 89 --MMSADDHY-NNSPTHY--ISKLRD--SLES-----YSKNLS------EDILGKT---- 126
++ AD + +S Y ++ L D S+ES + + ++ D LG++
Sbjct: 1750 KGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGM 1809
Query: 127 VIDNAEEVVQNFNTSARE--VQKIRADADKEIEL---EISNLRRF----LSELTVVNDAI 177
+ N V +F+ A + V+++ +E+ + N + L L V + +
Sbjct: 1810 IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVL 1869
Query: 178 KFKTASKHDAHDFLDQRDVLLQKI 201
F K D + Q+ + L+++
Sbjct: 1870 NFIKLQKIDIIEL--QKSLSLEEV 1891
Score = 33.8 bits (77), Expect = 0.091
Identities = 43/189 (22%), Positives = 80/189 (42%), Gaps = 56/189 (29%)
Query: 79 LLQSFEALKEMMS-ADDHYNNSPTHYISKLRDSLESYSKNLS-----EDILGKTVIDNAE 132
L ++ +A +++ + AD+H+ ++ Y + D + + NL+ E GK + +N
Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDT---YGFSILDIVINNPVNLTIHFGGEK--GKRIRENYS 1689
Query: 133 EVVQNFNT---SAREVQKIRADADKEIELEISNLRRFLSE-------------LTVVNDA 176
++ F T + +KI KEI E S F SE LT++ A
Sbjct: 1690 AMI--FETIVDGKLKTEKIF----KEIN-EHSTSYTFRSEKGLLSATQFTQPALTLMEKA 1742
Query: 177 ----IKFK-------TASKHDAHDFLDQRDVLLQKISEIIGISTIVRNNNDMVVYTSDGT 225
+K K T + H ++ L +++++ I ++V ++V Y G
Sbjct: 1743 AFEDLKSKGLIPADATFAGHSLGEY-----AALASLADVMSIESLV----EVVFYR--GM 1791
Query: 226 TLFETVPRD 234
T+ VPRD
Sbjct: 1792 TMQVAVPRD 1800
Score = 31.1 bits (70), Expect = 0.55
Identities = 58/303 (19%), Positives = 91/303 (30%), Gaps = 129/303 (42%)
Query: 262 NQGS-----AVPKGKIKALLQIRDSVVPIFQNQL----------DEMARV--LIGSF--- 301
+ GS VP Q+++ F L DE L+G F
Sbjct: 12 SHGSLEHVLLVPTASFFIASQLQEQ----FNKILPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 302 --SEKDPIA-GNSENVPGLFIAD---------GIKDLDNKLCQGISET-------ICVN- 341
S +P G + V L + + I L KL ++T + N
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKL-LQENDTTLVKTKELIKNY 126
Query: 342 ---------PQYRSNPSFL----RDG-----------GSVSKKF-----LWNVKNLAGYP 372
P + + S L +G G+ F L+ Y
Sbjct: 127 ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT-----YH 181
Query: 373 DLINHYCDSFNKNFIFDPVAGINTNVTLLEYARNS-------------IGWLEKNRSDSH 419
L+ + I A TL E R + + WLE N S++
Sbjct: 182 VLV--------GDLI-KFSAE-----TLSELIRTTLDAEKVFTQGLNILEWLE-NPSNTP 226
Query: 420 DLHMKSQVVFNHISESYSNTVGVNLQEELSF-LIKVEQ--SYNISNKLIMFTDKMLQTLL 476
D + Y ++ + S LI V Q Y ++ KL+ FT L++ L
Sbjct: 227 D-------------KDYLLSIPI------SCPLIGVIQLAHYVVTAKLLGFTPGELRSYL 267
Query: 477 EGV 479
+G
Sbjct: 268 KGA 270
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 43.3 bits (101), Expect = 1e-04
Identities = 75/335 (22%), Positives = 132/335 (39%), Gaps = 91/335 (27%)
Query: 110 SLESYSKNLSEDILGKTVIDNAEEV---VQNFNTSAREVQKIRADADKEIELEISNLRRF 166
S++ S NL+ + ++ ++ V+N E++ ++ +A+ EI E N F
Sbjct: 1236 SVKYASPNLNMKYRKRQLVTREAQIKDWVEN------ELEALKLEAE-EIPSEDQN--EF 1286
Query: 167 LSELT--VVNDA-IKFKTASKHDAHDFLDQRDVLLQKISEIIG-ISTIVRNNNDMVVYTS 222
L E T + N+A + + A + +DF +RD +I+ + G ++T +D+ V +
Sbjct: 1287 LLERTREIHNEAESQLRAAQQQWGNDFY-KRD---PRIAPLRGALATYGLTIDDLGVASF 1342
Query: 223 DGTTLFETVPRDIN----FEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPKGK-----IK 273
GT+ T D N +M + SE NP+ GV G PKG +
Sbjct: 1343 HGTS---TKANDKNESATINEMMKHLGRSEGNPVI--GVFQKFLTGH--PKGAAGAWMMN 1395
Query: 274 ALLQIRDS-VVPIFQNQ------LDEMARVLIGSFSEKDPIAGNSENVPGLFIADGIKDL 326
LQI +S ++P +N L++ VL S + K DG++ +
Sbjct: 1396 GALQILNSGIIPGNRNADNVDKILEQFEYVLYPSKTLK---------------TDGVRAV 1440
Query: 327 DNK---LCQGISETICVNPQY---------------------RSNPSFLRDGGSVSKKFL 362
Q + I V+P Y +S F +G +K F+
Sbjct: 1441 SITSFGFGQKGGQAIVVHPDYLYGAITEDRYNEYVAKVSAREKSAYKFFHNGMIYNKLFV 1500
Query: 363 WNVKNLAGYPDLINHYCDSFNKNFIFDPVAGINTN 397
K A P Y D ++ DP+A ++ +
Sbjct: 1501 --SKEHA--P-----YTDELEEDVYLDPLARVSKD 1526
Score = 30.2 bits (67), Expect = 1.1
Identities = 36/179 (20%), Positives = 71/179 (39%), Gaps = 51/179 (28%)
Query: 89 MMSADDHYNNSPTHYISKLRDSLESYS-KNLSEDILG---KTVIDNAEE--VVQNFNTSA 142
+MSA NN I K+ + ++S K ++ ++LG V++ ++ V+ + N
Sbjct: 678 LMSA----NNIIAEGIEKM--GVRTFSQKEMAFNLLGLLTPEVVELCQKSPVMADLNGGL 731
Query: 143 REVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKIS 202
+ V ++ KE + LR+ L E + V A+ +TA +H
Sbjct: 732 QFVPEL-----KEF---TAKLRKELVETSEVRKAVSIETALEH----------------- 766
Query: 203 EIIGISTIVRNNNDMVVYTSDGTTLFETVPR---DINFEKMNSYTVTSESNPIFIDGVV 258
+V N+ Y E PR ++F ++ Y + P ++G++
Sbjct: 767 ------KVVNGNSADAAYAQ-----VEIQPRANIQLDFPELKPYKQVKQIAPAELEGLL 814
>3a69_A Flagellar HOOK protein FLGE; the bacterial flagellar motor,
universal joint, bacterial flagellum, motor protein;
7.10A {Salmonella enterica subsp}
Length = 402
Score = 36.9 bits (84), Expect = 0.010
Identities = 11/36 (30%), Positives = 22/36 (61%)
Query: 441 GVNLQEELSFLIKVEQSYNISNKLIMFTDKMLQTLL 476
V+L +EL +I +++Y + + I D++L TL+
Sbjct: 364 NVDLSKELVNMIVAQRNYQSNAQTIKTQDQILNTLV 399
>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 = 34.2 bits (77), Expect = 0.058
Identities = 8/34 (23%), Positives = 20/34 (58%), Gaps = 11/34 (32%)
Query: 84 EALKEMMS-----ADDHYNNSPTHYISKLRDSLE 112
+ALK++ + ADD ++P ++ ++ ++E
Sbjct: 20 QALKKLQASLKLYADD---SAPA--LA-IKATME 47
>3ol1_A Vimentin; structural genomics, PSI-2, protein structure initiative,
no structural genomics consortium, NESG, structural
protein; 2.81A {Homo sapiens}
Length = 119
Score = 32.1 bits (73), Expect = 0.29
Identities = 14/91 (15%), Positives = 35/91 (38%), Gaps = 7/91 (7%)
Query: 103 YISKLRDSLESYSKNLSEDILGKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISN 162
+ +LR ++ + + + + DN E + +E R +A E + +
Sbjct: 21 EMRELRRQVDQLTNDKARVEVE---RDNLAEDIMRLREKLQEEMLQREEA----ENTLQS 73
Query: 163 LRRFLSELTVVNDAIKFKTASKHDAHDFLDQ 193
R+ + ++ ++ K S + FL +
Sbjct: 74 FRQDVDNASLARLDLERKVESLQEEIAFLKK 104
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.1 bits (69), Expect = 0.63
Identities = 13/55 (23%), Positives = 26/55 (47%), Gaps = 10/55 (18%)
Query: 76 QQRLLQSFEALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLSEDILGKTVIDN 130
Q++ LQ +A ++M + + K + LE +++ SE + K I+N
Sbjct: 94 QRKRLQELDAASKVMEQE---------WREKAKKDLEEWNQRQSEQV-EKNKINN 138
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 30.7 bits (69), Expect = 0.77
Identities = 8/45 (17%), Positives = 13/45 (28%), Gaps = 10/45 (22%)
Query: 352 RDGGSVSKKFLWNVKNLAGYPDLINH---YCDSFNKNFIFDPVAG 393
R+ S+ K+ NL I C + + G
Sbjct: 4 RE--SIDKRAGRRGPNLN-----IVLTCPECKVYPPKIVERFSEG 41
>1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D-
structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB:
1i6v_D* 2gho_D
Length = 1265
Score = 29.6 bits (66), Expect = 1.5
Identities = 48/320 (15%), Positives = 100/320 (31%), Gaps = 67/320 (20%)
Query: 27 NIENADNKNYVRRDTMTTISPENVTVVTQRSENKNMFDKVLHAHSSAIGQ---QRLLQSF 83
+ ++ + T + + + ++ + V + +IG+ Q +++F
Sbjct: 923 EVREVPVRSPLTCQTRYGVCQKCYGYDLSMARPVSIGEAVGVVAAESIGEPGTQLTMRTF 982
Query: 84 EALKEMMSADDHYNNSPTHYISKLRDSLESYSKNLSEDILGKTVIDNAEEVVQNFNTSAR 143
+ D P + +L ++ +K + +I G I+ E+ + F S
Sbjct: 983 H-TGGVAVGTDITQGLPR--VIELFEARRPKAKAVISEIDGVVRIEEGEDRLSVFVESEG 1039
Query: 144 EVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFK-----TASKHDAHDFL------D 192
++ + D + +V D + T D H L
Sbjct: 1040 FSKEYKLPKDARL---------------LVKDGDYVEAGQPLTRGAIDPHQLLEAKGPEA 1084
Query: 193 QRDVLLQKISEIIG----------ISTIVRNNNDMVVYTSDGTTLFETVPRDI----NFE 238
L+ +I ++ I +VR V T G + + + + E
Sbjct: 1085 VERYLVDEIQKVYRAQGVKLHDKHIEIVVRQMLKYVEVTDPGDS--PLLEGQVLEKWDVE 1142
Query: 239 KMNSYTVTSESNPIFIDGVVVSSNQGSAVPKGKIKALLQIRDSVVPI--FQNQLDEMARV 296
+N + P+ +++ G K+ L S + FQ V
Sbjct: 1143 ALNERLIAEGKVPVAWKPLLM----------GVTKSALS-TKSWLSAASFQ----NTTHV 1187
Query: 297 LI--GSFSEKDPIAGNSENV 314
L +KD + G ENV
Sbjct: 1188 LTEAAIAGKKDELIGLKENV 1207
>2ywb_A GMP synthase [glutamine-hydrolyzing]; GMP synthetase, XMP binding,
ATP binding, purine nucleotide biosynthetic pathway;
2.10A {Thermus thermophilus HB8} PDB: 2ywc_A*
Length = 503
Score = 29.6 bits (66), Expect = 1.7
Identities = 10/77 (12%), Positives = 26/77 (33%), Gaps = 16/77 (20%)
Query: 210 IVRNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPK 269
I R ++ ++ +P D E++ + P +++S S
Sbjct: 15 IARRLRELRAFS-------LILPGDAPLEEVLKH------RP---QALILSGGPRSVFDP 58
Query: 270 GKIKALLQIRDSVVPIF 286
+ ++ S +P+
Sbjct: 59 DAPRPDPRLFSSGLPLL 75
>2kcp_A 30S ribosomal protein S8E; RPS8E, beta, NESG, ribonucleoprotein,
structural genomics, PSI-2; NMR {Methanothermobacter
thermautotrophicusstr} PDB: 2kcy_A
Length = 98
Score = 29.2 bits (66), Expect = 1.9
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 22 ASIVRNIENADNKNYVRRDTMT 43
A I +EN N ++VRR+ +T
Sbjct: 38 AEIRNVVENTANPHFVRRNIIT 59
>2kco_A 30S ribosomal protein S8E; ribosomal protein of unknown function,
ribonucleoprotein, PSI-2, protein structure initiative;
NMR {Sulfolobus solfataricus P2}
Length = 133
Score = 29.2 bits (66), Expect = 2.0
Identities = 6/22 (27%), Positives = 9/22 (40%)
Query: 22 ASIVRNIENADNKNYVRRDTMT 43
I+ +E NK RR +
Sbjct: 76 VKILEILETPANKELARRGIII 97
>3dsk_A Cytochrome P450 74A, chloroplast; P450 fold, fatty acid
biosynthesis, heme, iron, lipid synthesis, lyase,
metal-binding; HET: HEM T25; 1.55A {Arabidopsis
thaliana} PDB: 2rcm_A* 3dsj_A* 3dsi_A* 2rcl_A* 2rch_A*
3cli_A*
Length = 495
Score = 28.7 bits (63), Expect = 3.1
Identities = 23/109 (21%), Positives = 35/109 (32%), Gaps = 8/109 (7%)
Query: 205 IGISTIVRNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQG 264
+ + N +V F + EK + T T + G + S
Sbjct: 74 MPPGAFIAENPQVVALL--DGKSFPVLFDVDKVEKKDLLTGTYMPSTELTGGYRILSYLD 131
Query: 265 SAVPK-GKIKALLQ-----IRDSVVPIFQNQLDEMARVLIGSFSEKDPI 307
+ PK K+K LL R+ + P FQ E+ L S K
Sbjct: 132 PSEPKHEKLKNLLFFLLKSSRNRIFPEFQATYSELFDSLEKELSLKGKA 180
>1dos_A Aldolase class II; lyase, classii fructose 1,6-bisphosphate
aldolase, glycolysis; 1.67A {Escherichia coli} SCOP:
c.1.10.2 PDB: 1b57_A* 1gyn_A 1zen_A
Length = 358
Score = 28.6 bits (63), Expect = 3.5
Identities = 28/165 (16%), Positives = 54/165 (32%), Gaps = 10/165 (6%)
Query: 94 DHYNNSPTHYISKLRDSLESYSKNLSEDILGKTVIDN-AEEVVQNFNTSAREVQKIRADA 152
DH +I L D+ E + + + +ID E + +N ++ ++++
Sbjct: 109 DHCAKKLLPWIDGLLDAGEKHFAATGKPLFSSHMIDLSEESLQENIEICSKYLERMSK-I 167
Query: 153 DKEIELEISNLRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKISEIIGISTI-V 211
+E+E L D + + + D ++S+I TI
Sbjct: 168 GMTLEIE-------LGCTGGEEDGVDNSHMDASALYTQPEDVDYAYTELSKISPRFTIAA 220
Query: 212 RNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESNPIFIDG 256
N VY + L T+ RD + + S G
Sbjct: 221 SFGNVHGVYKAGNVVLTPTILRDSQEYVSKKHNLPHNSLNFVFHG 265
>1gpm_A GMP synthetase, XMP aminase; class I glutamine amidotransferase,
N-type ATP pyrophosphatase, transferase (glutamine
amidotransferase); HET: AMP CIT; 2.20A {Escherichia coli
K12} SCOP: c.23.16.1 c.26.2.1 d.52.2.1
Length = 525
Score = 28.4 bits (63), Expect = 4.0
Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 16/77 (20%)
Query: 210 IVRNNNDMVVYTSDGTTLFETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPK 269
+ R ++ VY E D+ ++ + NP G+++S S +
Sbjct: 23 VARRVRELGVYC-------ELWAWDVTEAQIRDF------NP---SGIILSGGPESTTEE 66
Query: 270 GKIKALLQIRDSVVPIF 286
+A + ++ VP+F
Sbjct: 67 NSPRAPQYVFEAGVPVF 83
>2xs1_A Programmed cell death 6-interacting protein; protein
transport-viral protein complex, cell cycle; 2.30A {Homo
sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A
2ojq_A
Length = 704
Score = 28.0 bits (61), Expect = 4.7
Identities = 14/103 (13%), Positives = 43/103 (41%), Gaps = 5/103 (4%)
Query: 104 ISKLRDSLESYSKNLSEDILGKTV-IDNAEEVVQNFNTSAREVQKIRADADKEIELEISN 162
+ K R+ LE+ K+++ D+ K + + V+ S E+ ++ +++ +
Sbjct: 568 VKKEREGLENDLKSVNFDMTSKFLTALAQDGVINEEALSVTELDRVYGGLTTKVQESLKK 627
Query: 163 LRRFLSELTVVNDAIKFKTASKHDAHDFLDQRDVLLQKISEII 205
L + V + + +++ + R+ +L+ ++
Sbjct: 628 QEGLLKNIQVSHQEF----SKMKQSNNEANLREEVLKNLATAY 666
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2
PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D*
2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3dxj_D* 3eql_D*
1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Length = 1524
Score = 27.8 bits (61), Expect = 6.0
Identities = 44/242 (18%), Positives = 83/242 (34%), Gaps = 43/242 (17%)
Query: 124 GKTVIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKTAS 183
K VI + VV+ T + + ++ E ++ R L + +A + T
Sbjct: 1270 AKAVISEIDGVVRIEETEEKLSVFVESE-GFSKEYKLPKEARLLVKDGDYVEAGQPLTRG 1328
Query: 184 KHDAHDFLDQRDV------LLQKISEII----------GISTIVRNNNDMVVYTSDGTTL 227
D H L+ + L+++I ++ I +VR V T G +
Sbjct: 1329 AIDPHQLLEAKGPEAVERYLVEEIQKVYRAQGVKLHDKHIEIVVRQMMKYVEVTDPGDSR 1388
Query: 228 FETVPRDINFEKMNSYTVTSESNPIFIDGVVVSSNQGSAVPKGKIKALLQIRDSVVPI-- 285
+ + + + V + + + +G + + + G K+ L S +
Sbjct: 1389 L------LEGQVLEKWDVEALNERLIAEGKTPVAWKP--LLMGVTKSALS-TKSWLSAAS 1439
Query: 286 FQNQLDEMARVLIGS--FSEKDPIAGNSENV------P---GLFIADGIKDLDNKLCQGI 334
FQ VL + +KD + G ENV P G + +D K + I
Sbjct: 1440 FQ----NTTHVLTEAAIAGKKDELIGLKENVILGRLIPAGTGSDFVRFTQVVDQKTLKAI 1495
Query: 335 SE 336
E
Sbjct: 1496 EE 1497
>2o8b_A DNA mismatch repair protein MSH2; DNA damage response, somatic
hypermutation, protein-DNA complex, DNA mispair, cancer,
ABC transporter ATPase; HET: DNA ADP; 2.75A {Homo
sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 2o8e_A*
Length = 934
Score = 27.7 bits (60), Expect = 6.3
Identities = 22/141 (15%), Positives = 51/141 (36%), Gaps = 17/141 (12%)
Query: 79 LLQSFEALKEM-MSADDHYNN-SPTHYISKLRD--SLESYSKNLSEDI-LGKTVIDNAEE 133
L + + ++A + + +++ +S+ +++E K VI+ A++
Sbjct: 790 LANQIPTVNNLHVTALTTEETLTMLY---QVKKGVCDQSFGIHVAELANFPKHVIECAKQ 846
Query: 134 VVQNFNTSAREVQKIRAD----ADKEIELEISNLRRFLSELTVVNDAIKFKTASKHDAHD 189
+ D A K+ LE + + E + F S+ +
Sbjct: 847 KALELEEFQYIGESQGYDIMEPAAKKCYLEREQGEKIIQEFLSKVKQMPFTEMSEENITI 906
Query: 190 FLDQ-RDVLLQK----ISEII 205
L Q + ++ K ++EII
Sbjct: 907 KLKQLKAEVIAKNNSFVNEII 927
>2b1e_A Exocyst complex component EXO70; tethering complex,
endocytosis/exocytosis complex; 2.00A {Saccharomyces
cerevisiae} PDB: 2b7m_A 2pfv_A
Length = 564
Score = 26.9 bits (59), Expect = 9.7
Identities = 7/82 (8%), Positives = 34/82 (41%), Gaps = 7/82 (8%)
Query: 127 VIDNAEEVVQNFNTSAREVQKIRADADKEIELEISNLRRFLSELTVVNDAIKFKTASKHD 186
+++ V N +++ ++ ++ L+++ + ++D ++ + + +
Sbjct: 8 TLNSVASVKDLANEASKYEIILQKGINQ------VGLKQYTQVVHKLDDMLEDIQSGQAN 61
Query: 187 AHDFLDQRDVLLQKISEIIGIS 208
+ + +L + ++I S
Sbjct: 62 REENSEF-HGILTHLEQLIKRS 82
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
0.315 0.131 0.362
Gapped
Lambda K H
0.267 0.0634 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,850,789
Number of extensions: 177002
Number of successful extensions: 523
Number of sequences better than 10.0: 1
Number of HSP's gapped: 520
Number of HSP's successfully gapped: 36
Length of query: 480
Length of database: 5,693,230
Length adjustment: 96
Effective length of query: 384
Effective length of database: 3,365,806
Effective search space: 1292469504
Effective search space used: 1292469504
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.3 bits)