RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781059|ref|YP_003065472.1| cysteine desulfurase activator
complex subunit SufB [Candidatus Liberibacter asiaticus str. psy62]
(489 letters)
>1vh4_A SUFD protein; structural genomics, protein binding protein; 1.75A
{Escherichia coli} SCOP: b.80.6.1 PDB: 2zu0_A*
Length = 435
Score = 174 bits (440), Expect = 6e-44
Identities = 73/403 (18%), Positives = 133/403 (33%), Gaps = 33/403 (8%)
Query: 109 LRTYEKLGIPIREQEI-----LAGVQTSKVAVDAVFDSVSVVTTFKEELKKSGVIFMP-- 161
L+ + G+P R+ E L G+ S+ A S L ++F+
Sbjct: 35 LQQLLRTGLPTRKHENWKYTPLEGLINSQFVSIAGEISPQQRDALALTLDSVRLVFVDGR 94
Query: 162 ISEAICEHPDLVK-------KYLSTVVPVGDNFYAALNSAVFTDGSFVYIPKGVRCPMEL 214
A+ + + + + L ++ + + + +G R L
Sbjct: 95 YVPALSDATEGSGYEVSINDDRQGLPDAIQAEVFLHLTESLAQSVTHIAVKRGQRPAKPL 154
Query: 215 STYF----RINEKGTGQFERTLIIADEGSYVSYLEGCTAPQRDENQLHAAVVELVALDNA 270
E+ R + EG+ + +E + A + NA
Sbjct: 155 LLMHITQGVAGEEVNTAHYRHHLDLAEGAEATVIEHFVSLNDA-RHFTGARFTINVAANA 213
Query: 271 EIKYSTVQNWYPGDSQGKGGIYNFVTKRGDCRGMRSKISWTQLETGSAITWKYPSCLLRG 330
+++ + P + + G A+ S L G
Sbjct: 214 HLQHIKLAFENPL--------SHHFAHNDLLLAEDATAFSHSFLLGGAVLRHNTSTQLNG 265
Query: 331 EQSCGEFYSIAISNGFQQIDSGTKMLHLAKNTTSRIVSKGISAGFSNNTYRGKVSVHRGA 390
E S S+A+ + D+ T + H SR + K I + + G ++V + A
Sbjct: 266 ENSTLRINSLAMPVKNEVCDTRTWLEHNKGFCNSRQLHKTIVSDKGRAVFNGLINVAQHA 325
Query: 391 AHSRNFTQCDSLLIGNNCGAHTIPYIESKNSSCNLEHEATTSKISDEHLFYCLQRGIPEE 450
+ ++LL+G T P +E H AT +I DE +FY RGI ++
Sbjct: 326 IKTDGQMTNNNLLMGKLAEVDTKPQLEIYADDVKCSHGATVGRIDDEQIFYLRSRGINQQ 385
Query: 451 AAIALIVNGFVREVLQKLPME------FAVEAQKLIDISLEGS 487
A +I+ F E+ + L E A Q+L + EG
Sbjct: 386 DAQQMIIYAFAAELTEALRDEGLKQQVLARIGQRLPGGAREGG 428
>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 = 58.0 bits (140), Expect = 5e-09
Identities = 81/483 (16%), Positives = 148/483 (30%), Gaps = 196/483 (40%)
Query: 64 RWLTMKDPSWARIRY----PAIDFDDLYYYAAP------KSIVGP-QSL-DDVDP----E 107
R LT+ S + + P ++ A+ K + P + D +P E
Sbjct: 7 RPLTL---SHGSLEHVLLVPT----ASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE 59
Query: 108 LLRTYEKLGIPIREQEILAGVQTS---KVAVDAVFDSV--------SVVTTFKEELKKSG 156
L+ + LG E Q + + F++ ++ +E +
Sbjct: 60 LVGKF--LGYVSSLVEPSKVGQFDQVLNLCLTE-FENCYLEGNDIHALAAKLLQENDTT- 115
Query: 157 VIFMPISEAICEHPDLVKKYLSTVVPVGDNFYAALNSAVF---TDGSFVYIPKGVRCPME 213
+ + +L+K Y++ + F NSA+F +G+ +
Sbjct: 116 ---------LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNA-----------Q 155
Query: 214 LSTYFRINEKGTGQFERTLIIADEGSYVSYLEGCTAPQRDENQLHAAVVELVALDNAEIK 273
L F G GQ G+ Y E EL ++
Sbjct: 156 LVAIF-----G-GQ----------GNTDDYFE-----------------EL-----RDL- 176
Query: 274 YSTVQNWYP---GDSQGKGGIYNFVTKRGDC--RGMRSKISWTQLET-G-SAITWKYPSC 326
Y T Y GD + + +R+ + ++ T G + + W
Sbjct: 177 YQT----YHVLVGD---------LIKFSAETLSELIRTTLDAEKVFTQGLNILEW----- 218
Query: 327 LLRGEQSC-GEFY--SIAIS---NGFQQIDSGTKMLHLAKNTTSRIVSKGISAGFSNNTY 380
L + + Y SI IS G Q + H T++++ G + G
Sbjct: 219 -LENPSNTPDKDYLLSIPISCPLIGVIQ------LAHYV--VTAKLL--GFTPG----EL 263
Query: 381 RGKVSVHRGAA-HS-------------------RNFTQCDSLL--IGNNC----GAHTIP 414
R + GA HS + + ++L IG C ++P
Sbjct: 264 RSYLK---GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 415 YIESKNSSCNLEH-EATTS---KISD-------EHLFYCLQRGIPEEA--AIALIVNG-- 459
++S LE+ E S IS+ +++ +P I+L+ NG
Sbjct: 321 PSILEDS---LENNEGVPSPMLSISNLTQEQVQDYVNKTNSH-LPAGKQVEISLV-NGAK 375
Query: 460 -FV 461
V
Sbjct: 376 NLV 378
Score = 48.0 bits (114), Expect = 5e-06
Identities = 51/283 (18%), Positives = 78/283 (27%), Gaps = 119/283 (42%)
Query: 1 MVAVR--------ETVDKV-------RKIDV------DQYK--------YGFETNIQVDK 31
M+++ + V+K +++++ YG ++ K
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397
Query: 32 APKGLNEDIIRFISAKKNEPDWMLEWRLLAYRRWLTMKDPSWARIRYPAIDFDDLYYYAA 91
AP GL++ I F S +K R L P + P F A
Sbjct: 398 APSGLDQSRIPF-SERK--LK--FSNRFL----------P----VASP---FHSHLLVPA 435
Query: 92 PKSIVGPQSLDDVDPELLR-TYEKLGIPIREQEILAGVQTSKVAVDAVFDSVSVVTTFK- 149
I D+ + + + IP V+D TF
Sbjct: 436 SDLI-----NKDLVKNNVSFNAKDIQIP-------------------VYD------TFDG 465
Query: 150 EELKK-SGVIFMPISEAICEHPDLVKKYLSTVVPVGDNFYAALN-SA----VFTDGSFVY 203
+L+ SG I I + I P V + A F G
Sbjct: 466 SDLRVLSGSISERIVDCIIRLP--V------------KWETTTQFKATHILDF--G---- 505
Query: 204 IPKGVRCPMELSTYFRINEKGTGQFERTLIIA---DEGSYVSY 243
P G L N+ GTG R I+A D Y
Sbjct: 506 -PGGASG---LGVLTHRNKDGTGV--RV-IVAGTLDINPDDDY 541
Score = 39.5 bits (92), Expect = 0.002
Identities = 81/435 (18%), Positives = 134/435 (30%), Gaps = 178/435 (40%)
Query: 34 KGLNEDIIRFISAK-----KNEPDWM------LEWRLLAYRRWLTMKDPSWARIRYPAID 82
L D+I+F + + D L +L WL ++PS P D
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN--ILE---WL--ENPS-NT---PDKD 229
Query: 83 FDDLYYYAAPKS--IVGPQSLDDVDPELLR------TYEKLGIPIRE-QEILAGVQT--S 131
Y + P S ++G +++ T + LG E + L G T S
Sbjct: 230 ----YLLSIPISCPLIG----------VIQLAHYVVTAKLLGFTPGELRSYLKGA-TGHS 274
Query: 132 KVAVDAVFDSVSVVTT---FKEELKKS-------GV--------IFMP--ISEAICEH-- 169
+ V AV ++ + F ++K+ GV +P I E E+
Sbjct: 275 QGLVTAVA--IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNE 332
Query: 170 --P-------DL----VKKYLSTV---VPVGDNFYAAL-NSAVFTDGSFVYIPKGVRCPM 212
P +L V+ Y++ +P G +L N A + V V P
Sbjct: 333 GVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGA----KNLV-----VSGPP 383
Query: 213 E----LSTYFRINEKGTGQ------F-ERTLIIADEGSY----VS------YLEGCTAPQ 251
+ L+ R + +G F ER L S V+ L +
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKF----SNRFLPVASPFHSHLLVPAS--- 436
Query: 252 RDENQLHAAVVELVALDNAEIKYSTVQNWYPGDSQGKGGIYNFVTKRG-DCRGMRSKI-- 308
+ + + +N +Q P +Y+ T G D R + I
Sbjct: 437 -------DLINKDLVKNNVSFNAKDIQ--IP--------VYD--TFDGSDLRVLSGSISE 477
Query: 309 SWTQLETGSAITWKYPSCLLRGEQSCGEFYSIAISNGFQQID------SGTKMLHLAKN- 361
+ W E + +F + I +D SG +L +N
Sbjct: 478 RIVDCIIRLPVKW---------ETTT-QFKATHI------LDFGPGGASGLGVL-THRNK 520
Query: 362 --TTSRIVSKGISAG 374
T R+ I AG
Sbjct: 521 DGTGVRV----IVAG 531
Score = 27.2 bits (60), Expect = 8.3
Identities = 9/55 (16%), Positives = 15/55 (27%), Gaps = 16/55 (29%)
Query: 428 EATTSKISDE------HLF-----YCLQRGIPEEAA-----IALIVNGFVREVLQ 466
E T +D+ L Y P + + L + F L+
Sbjct: 43 EPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLE 97
>2qai_A V-type ATP synthase subunit F; VATF_pyrfu, ATPF, NESG, structural
genomics, PSI-2, protein structure initiative; 2.40A
{Pyrococcus furiosus}
Length = 111
Score = 32.8 bits (75), Expect = 0.18
Identities = 12/64 (18%), Positives = 27/64 (42%), Gaps = 1/64 (1%)
Query: 125 LAGVQTSKVAVDAVFDSVSVVTTFKEELKKSGVIFMPISEAICEH-PDLVKKYLSTVVPV 183
LAGV + +++ +E L++ V + I+E + + L + ++ +
Sbjct: 17 LAGVHEAYEYDESLESVERARNKLRELLERDDVGIILITERLAQRIGSLPEVKFPIILQI 76
Query: 184 GDNF 187
D F
Sbjct: 77 PDKF 80
>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 = 29.6 bits (65), Expect = 1.6
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 7/33 (21%)
Query: 121 EQEILAGVQTS-KVAVDAVFDS---VSVVTTFK 149
E++ L +Q S K+ D DS +++ T +
Sbjct: 18 EKQALKKLQASLKLYAD---DSAPALAIKATME 47
>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase, ATP-
binding, DNA-binding; 2.50A {Geobacillus
stearothermophilus} SCOP: c.37.1.19 c.37.1.19 PDB:
1qhg_A* 3pjr_A* 2pjr_A* 1qhh_B* 1qhh_D* 1qhh_A* 1qhh_C*
2pjr_B*
Length = 724
Score = 28.7 bits (63), Expect = 3.2
Identities = 18/93 (19%), Positives = 32/93 (34%), Gaps = 10/93 (10%)
Query: 24 ETNIQVDKAPKGLNEDIIRFISAKKNEPDWMLEWRLLAYRRWLT--MKDPSWARIRYPAI 81
E NI K I + P+ + Y + ++ ++ +R ++
Sbjct: 131 EKNIDPKKFEPRTILGTISAAKNELLPPEQFAKRASTYYEKVVSDVYQEYQQRLLRNHSL 190
Query: 82 DFDDLYYYAAPKSIVGPQSLDDVDPELLRTYEK 114
DFDDL L D P++L Y+
Sbjct: 191 DFDDLIMTT--------IQLFDRVPDVLHYYQY 215
>2axq_A Saccharopine dehydrogenase; rossmann fold variant, saccharopine
reductase fold (domain II), alpha/beta protein; 1.70A
{Saccharomyces cerevisiae}
Length = 467
Score = 28.7 bits (63), Expect = 3.4
Identities = 8/32 (25%), Positives = 17/32 (53%)
Query: 93 KSIVGPQSLDDVDPELLRTYEKLGIPIREQEI 124
++ P S + DP + +K GI ++E+ +
Sbjct: 435 PGLLAPYSPEINDPIMKELKDKYGIYLKEKTV 466
>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 = 27.5 bits (60), Expect = 7.1
Identities = 39/181 (21%), Positives = 73/181 (40%), Gaps = 40/181 (22%)
Query: 73 W--ARIRYPAIDFDDLYYYAAPKSIVGPQSLDDVDPELLRTY--EKLGIPIRE---QEIL 125
W ++ + P D D Y SI+ + ++PEL Y EK + I+E +E L
Sbjct: 876 WVDSKTKEPVDDKDVKAKYET--SILEHSGIRLIEPELFNGYNPEKKEM-IQEVIVEEDL 932
Query: 126 AGVQTSKVAVDAVF-----DSVSVVTT-----FKEELKKSGVIFMPISEAICEHPDLVKK 175
+ SK + F D V + + +L K +++P +A+ +
Sbjct: 933 EPFEASKETAEQ-FKHQHGDKVDIFEIPETGEYSVKLLKGATLYIP--KAL-----RFDR 984
Query: 176 YLSTVVPVG---------DNFYAALNS-AVFTDGSFV--YIPKGVRCPMELSTYFRINEK 223
++ +P G D+ + ++ +F S V +I G+ P E+ Y ++E
Sbjct: 985 LVAGQIPTGWNAKTYGISDDIISQVDPITLFVLVSVVEAFIASGITDPYEMYKYVHVSEV 1044
Query: 224 G 224
G
Sbjct: 1045 G 1045
>2j0j_A Focal adhesion kinase 1; cell migration, phosphorylation, FERM,
transferase, ATP-binding, integrin signaling,
nucleotide-binding; HET: 4ST; 2.8A {Gallus gallus} PDB:
2j0k_A*
Length = 656
Score = 27.2 bits (60), Expect = 7.8
Identities = 14/82 (17%), Positives = 27/82 (32%), Gaps = 14/82 (17%)
Query: 39 DIIRFISAKKNEPDWMLEWRLLAYRRWLTMKDPSWAR---IRYPAIDFDDLYYYAAPKSI 95
++ +W E R+ R+L + P ++ ++Y K+
Sbjct: 76 NVREKFELAHPPEEWKYELRI----RYLP---KGFLNQFTEDKPTLN----FFYQQVKND 124
Query: 96 VGPQSLDDVDPELLRTYEKLGI 117
+ D VD E+ L I
Sbjct: 125 YMLEIADQVDQEIALKLGCLEI 146
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
0.318 0.135 0.400
Gapped
Lambda K H
0.267 0.0599 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 4,265,193
Number of extensions: 201934
Number of successful extensions: 534
Number of sequences better than 10.0: 1
Number of HSP's gapped: 529
Number of HSP's successfully gapped: 13
Length of query: 489
Length of database: 5,693,230
Length adjustment: 96
Effective length of query: 393
Effective length of database: 3,365,806
Effective search space: 1322761758
Effective search space used: 1322761758
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 (21.7 bits)
S2: 59 (26.8 bits)