RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy768
(475 letters)
>3c37_A Peptidase, M48 family; Q74D82, GSR143A, structural genomics,
protein structure initiative, northeast structural
genomics consortium; 1.70A {Geobacter sulfurreducens
pca}
Length = 253
Score = 164 bits (417), Expect = 7e-48
Identities = 53/262 (20%), Positives = 107/262 (40%), Gaps = 37/262 (14%)
Query: 184 PITGRQKFIIVKPNQLNDVTQIAYDNFIEEHGNQVLPLGHPA-YKRVGAVVKRLIDANKV 242
+T + F ++ Q ++ ++ P+ P + V V KRL+
Sbjct: 4 SMTDIKGFNMISIEQEKELGNKFAVEIEKQQQ----PVNDPEVQRYVDKVGKRLLSG--- 56
Query: 243 YMEHNNFKYPITIIDDPLINAFVFPDGRIFMFTGMFQLCQTDDELATVLSHELSHTLLKH 302
F Y ++ D +NAF P GR+++ TG+ + + ELA VL+HE++H + +H
Sbjct: 57 -ARAVEFDYVFKVVKDDSVNAFAIPGGRVYVHTGLLKAADNETELAGVLAHEINHAVARH 115
Query: 303 VAEKLSNKTFLEILYIVPLMIIWFLLPDLGAIVTQVLLDDLKSIIFELPFEREMETEADE 362
+++ + ++ L ++ P++ A + L
Sbjct: 116 GTRQMTQEYGYSLV----LSLVLGDNPNMLAQLAGQLF---------------------- 149
Query: 363 SIIFELPFEREMETEADEVGLKLMARACYDVRVAPLFWQKMALKETQDQVGPKMEEYLST 422
+ + RE E +AD +G++ M +A Y+ F+QK+ + Q + ST
Sbjct: 150 GKAGMMSYSREYENQADFLGVETMYKAGYNPNGLTSFFQKLNAMDGGTQSNV--ARFFST 207
Query: 423 HPSHENRANNLESKMKEALDIR 444
HP R +++++ + R
Sbjct: 208 HPLTSERIQRVQAEIAKLPPQR 229
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 46.8 bits (110), Expect = 1e-05
Identities = 71/532 (13%), Positives = 145/532 (27%), Gaps = 167/532 (31%)
Query: 10 DNLDDLLRYIGHTSPECLETLDTPRNIPASR------SSINTELEQDTIGCILSCDKKYS 63
D + +C + D P++I + S + + L K+
Sbjct: 24 VFEDAFVDNF-----DCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTL-LSKQEE 77
Query: 64 TCLNFQITGHQDKH--LTRVLFHQSANHQL--QVFNIRVLRCFHTSQPKNALPGFIYLIF 119
F + + L + + + +++ + R ++ +Q +
Sbjct: 78 MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV--FAKYNVS-RL 134
Query: 120 KPILRVVGAIVIARISRKWWSKLSPDQKKIILSQIKKHQDKIAGIT-LTSIGLA------ 172
+P L++ R+ +L P K +++ +G T +
Sbjct: 135 QPYLKL----------RQALLELRP-AKNVLI-----DGVLGSGKTWVALDVCLSYKVQC 178
Query: 173 ----YIYYFLHLETCPITGRQKFIIVKPNQLNDVTQIAYDNFIEEHGNQVLPLGHPAYKR 228
I++ L+L+ C + ++ +L QI + + + L R
Sbjct: 179 KMDFKIFW-LNLKNC---NSPETVLEMLQKLL--YQIDPNWTSRSDHSSNIKL------R 226
Query: 229 VGAVVKRLIDANKVYMEHNNFKYPITIIDD----PLINAFVFPDGRIFMFTGMFQLCQT- 283
+ ++ L + ++ ++ + ++ + NAF + C+
Sbjct: 227 IHSIQAEL----RRLLKSKPYENCLLVLLNVQNAKAWNAF---NLS----------CKIL 269
Query: 284 ----DDELATVLS-HELSHTLLKHVAEKLSNKTFLEIL----------------YIVPLM 322
++ LS +H L H + L+ +L P
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 323 I--IWFLLPDLGAIVT---QVLLDDLKSIIFELPFEREMETEADESIIFELPFEREMETE 377
+ I + D A V D L +II ES + L E
Sbjct: 330 LSIIAESIRDGLATWDNWKHVNCDKLTTII--------------ESSLNVL--------E 367
Query: 378 ADEVGLKLMARACY--------DVRVAP----LFWQKMALKETQDQV-----------GP 414
E R + + L W + + V P
Sbjct: 368 PAEY------RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421
Query: 415 KMEE------YLSTHPSHENRANNLESKMKEALDIRKECNCLPLGPLFIPRL 460
K YL EN L + + +I K L P L
Sbjct: 422 KESTISIPSIYLELKVKLENEY-ALHRSIVDHYNIPK---TFDSDDLIPPYL 469
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 42.3 bits (99), Expect = 3e-04
Identities = 41/271 (15%), Positives = 82/271 (30%), Gaps = 83/271 (30%)
Query: 244 MEHNNFKYPITIIDDPLINAFVFPDGRIFMFTGMFQ-----LCQTDDELATVLSHELSHT 298
+ H + ++ + + A + F + DDE T EL
Sbjct: 11 LSHGSLEHVLLVPTASFFIASQLQEQ----FNKILPEPTEGFAA-DDEPTTPA--ELVGK 63
Query: 299 LLKHVA---EKLSNKTFLEILYIVPLMIIWFLLPDLGAIVTQVLL-DDLKSIIFELPFER 354
L +V+ E F ++L + L L +D+ ++ +L E
Sbjct: 64 FLGYVSSLVEPSKVGQFDQVLNLC-----------LTEFENCYLEGNDIHALAAKLLQEN 112
Query: 355 EMETEADESII---FEL------PFEREMET---EADEVGLKLMARACYDVRVAPLF--- 399
+ + +I PF+++ + A G + ++ +F
Sbjct: 113 DTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG---------NAQLVAIFGGQ 163
Query: 400 -----WQKMALKETQDQ-------VGP---KMEEYLSTHPSHENRANNLESKMKEALDIR 444
+ +E +D VG E LS A + ++ L+I
Sbjct: 164 GNTDDY----FEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ---GLNIL 216
Query: 445 K---------ECNCLPLGPLFIPRLNPLAQL 466
+ + + L P+ P L + QL
Sbjct: 217 EWLENPSNTPDKDYLLSIPISCP-LIGVIQL 246
Score = 42.0 bits (98), Expect = 4e-04
Identities = 74/580 (12%), Positives = 144/580 (24%), Gaps = 239/580 (41%)
Query: 2 AQDSAPDLDNLDDLLRYIGHTSPECLETLDTPRNIPASRSSINTELEQDTIGCILSCDKK 61
A D P + + +++G+ S +E + + E E L
Sbjct: 49 AADDEPT-TPAELVGKFLGYVSSL-VEPSKVGQFDQVLNLCLT-EFENC----YL----- 96
Query: 62 YSTCLNFQITGHQDKH-LTRVLFHQSANHQLQVFNIRVLRCF----------HTSQPKNA 110
D H L L ++ ++ + ++ + + +A
Sbjct: 97 ----------EGNDIHALAAKLLQENDTTLVKTKEL--IKNYITARIMAKRPFDKKSNSA 144
Query: 111 LPGF---------IYLIF--------------------KPILRVVGAIVIARISRKWW-- 139
L F + IF ++ + I +
Sbjct: 145 L--FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDL----IKFSAETLSEL 198
Query: 140 SKLSPDQKKI------ILSQIKKHQDK-------IAGITLTSIGLAYIYYFLH-LETCPI 185
+ + D +K+ IL ++ + I+ IG+ H + T +
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGV---IQLAHYVVTAKL 255
Query: 186 TGRQKFIIVKPNQLNDVTQ--------------IA--------YDN---------FI--- 211
G P +L + IA + + FI
Sbjct: 256 LG------FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVR 309
Query: 212 --EEHGNQVLPL-----------GHPAY-------------KRVGAVVKRLIDANKVYME 245
E + N LP G P+ V L +V
Sbjct: 310 CYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVE-- 367
Query: 246 HNNFKYPITIIDDPLINAFVFPDGRIFMFTG----MFQLCQTDDELATVLSHELSHTLLK 301
I+ L+N + + +G ++ L T + + S
Sbjct: 368 -------IS-----LVNG---A--KNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI--P 408
Query: 302 HVAEKLS-NKTFLEILYIVPLMIIWF---LLPDLGAIVTQVLLDDLKSIIFELPFEREM- 356
KL + FL + P F LL + ++ DL + F +
Sbjct: 409 FSERKLKFSNRFLPVA--SP-----FHSHLLVP----ASDLINKDLVKN--NVSFNAKDI 455
Query: 357 -------ETEADESIIFELPFEREMETEADEVGLKLMARACYDVRVAPLFWQKMALKETQ 409
+D L R + + R + P+ W+ +
Sbjct: 456 QIPVYDTFDGSD------L---RVLSGS-------ISERIVDCIIRLPVKWET-TTQFK- 497
Query: 410 DQVGPKMEEYLSTH-----PSHENRANNLESKMKEALDIR 444
+TH P + L + K+ +R
Sbjct: 498 -----------ATHILDFGPGGASGLGVLTHRNKDGTGVR 526
Score = 35.4 bits (81), Expect = 0.055
Identities = 26/136 (19%), Positives = 46/136 (33%), Gaps = 36/136 (26%)
Query: 301 KHVAEKLSNKTFLEILYIV---PL-MIIWFLLPDLGAIVTQVLLDDLKSIIFELPFEREM 356
H + IL IV P+ + I F G + + ++ ++IFE + ++
Sbjct: 1651 NHFKDTYG----FSILDIVINNPVNLTIHF-----GGEKGKRIRENYSAMIFETIVDGKL 1701
Query: 357 ET-----EADE---SIIFELPFEREMETEADEVGLKLMARACYDVRVAPLFWQKMALKET 408
+T E +E S F T+ + L LM +A ++ + L
Sbjct: 1702 KTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFED------LKSKGLIPA 1755
Query: 409 QDQV-----GPKMEEY 419
G EY
Sbjct: 1756 DATFAGHSLG----EY 1767
>3cqb_A Probable protease HTPX homolog; heat shock protein HTPX domain,
PSI-2, protein structure INI structural genomics; HET:
MSE; 1.86A {Vibrio parahaemolyticus rimd 2210633}
Length = 107
Score = 37.2 bits (87), Expect = 0.001
Identities = 23/91 (25%), Positives = 33/91 (36%), Gaps = 17/91 (18%)
Query: 214 HGNQVLPLGHPAYKRVGAVVKRLIDANKVYMEHNNFKYP-ITIIDDPLINAFVFPDGR-- 270
G + + + V R + M P + I D INAF G
Sbjct: 13 GGMVIESPRNETEHWLLETVGRQAQQAGIGM-------PTVAIYDSADINAFA--TGAKR 63
Query: 271 ----IFMFTGMFQLCQTDDELATVLSHELSH 297
+ + TG+ T DE VL+HE+SH
Sbjct: 64 DDSLVAVSTGLLHNM-TRDEAEAVLAHEVSH 93
>4aw6_A CAAX prenyl protease 1 homolog; hydrolase, M48 peptidase, integral
membrane protein, prelami processing, ageing, progeria;
HET: PC1; 3.40A {Homo sapiens}
Length = 482
Score = 38.0 bits (87), Expect = 0.006
Identities = 40/225 (17%), Positives = 63/225 (28%), Gaps = 47/225 (20%)
Query: 236 LIDANKVYMEHNNFKYPITIIDDPLINAFVFPDGRIFMFTGMFQLCQTDDELATVLSHEL 295
L D N +P + Q C ++E+ VL HEL
Sbjct: 279 LFDTLLEEYSVLNKDIQEDSGMEPRNEEEGNSEEIKAKVKNKKQGC-KNEEVLAVLGHEL 337
Query: 296 SHTLLKHVAEKLSNKTFLEILYIVPLMIIWFLLPDLGAIVTQVLLDDLKSIIFELPFERE 355
H L H + + I+ + + +FL +L K + F
Sbjct: 338 GHWKLGHTVKNI-------IISQMNSFLCFFLFA---------VLIGRKELFAAFGFYDS 381
Query: 356 METEADESIIFEL---PFE-----------REMETEADEVGLKL-----MARACYDVRVA 396
T IIF+ P+ R E +AD KL + A
Sbjct: 382 QPTLIGLLIIFQFIFSPYNEVLSFCLTVLSRRFEFQADAFAKKLGKAKDLYSA------- 434
Query: 397 PLFWQKMALKETQDQVGPKMEEYL-STHPSHENRANNLESKMKEA 440
K+ V + +HP R L++ + A
Sbjct: 435 ---LIKLNKDNLGFPVSDWLFSMWHYSHPPLLERLQALKTMKQHA 476
>3u65_B TP33 protein; tetratrico peptide repeat, protein-prote interaction,
syphilis, lipoprotein, transport protein; HET: EDO;
1.40A {Treponema pallidum subsp} PDB: 4di4_B* 4di3_D*
Length = 328
Score = 34.3 bits (79), Expect = 0.067
Identities = 7/45 (15%), Positives = 17/45 (37%), Gaps = 3/45 (6%)
Query: 116 YLIFKPILRVVGAIVIARISRKWWSKLSPDQKKIILSQIKKHQDK 160
Y + I V ++I S W+++ +L + + +
Sbjct: 217 YALDTKICPAVIGMLI---SDGSWARIPSRYHDAMLQAATRVRQR 258
>2pfy_A Putative exported protein; extracytoplasmic solute receptor,
tripartite ATP independent periplasmic transport,
pyroglutamic acid; 1.95A {Bordetella pertussis tohama I}
Length = 301
Score = 32.7 bits (75), Expect = 0.24
Identities = 2/18 (11%), Positives = 11/18 (61%)
Query: 134 ISRKWWSKLSPDQKKIIL 151
+++ + +L + ++ +L
Sbjct: 213 ANKRAFQRLPAEVRQAVL 230
>2hpg_A ABC transporter, periplasmic substrate-binding protein; periplasmic
binding protein, thermophilic proteins, trap- transport;
HET: MSE; 1.90A {Thermotoga maritima}
Length = 327
Score = 32.3 bits (74), Expect = 0.30
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 134 ISRKWWSKLSPDQKKIILSQIKK 156
+S W++ L + +KII ++ K
Sbjct: 233 VSADWFNSLPKEYQKIIEEEMDK 255
>2pfz_A Putative exported protein; extracytoplasmic solute receptor,
tripartite ATP independent periplasmic transport,
pyroglutamic acid; 1.80A {Bordetella pertussis tohama I}
Length = 301
Score = 32.3 bits (74), Expect = 0.31
Identities = 3/18 (16%), Positives = 10/18 (55%)
Query: 134 ISRKWWSKLSPDQKKIIL 151
+++K + L P ++ +
Sbjct: 212 VNKKAFDALDPATQQALK 229
>2vpn_A Periplasmic substrate binding protein; ectoine, hydroxyectoine,
trap-transporter, periplasmic binding protein,
transport; HET: 4CS; 1.55A {Halomonas elongata} PDB:
2vpo_A* 3gyy_A
Length = 316
Score = 31.9 bits (73), Expect = 0.44
Identities = 2/18 (11%), Positives = 11/18 (61%)
Query: 134 ISRKWWSKLSPDQKKIIL 151
++ ++ LS + ++++
Sbjct: 215 ANQDFYEGLSEEDQQLVQ 232
>2xwv_A Sialic acid-binding periplasmic protein SIAP; transport protein,
trap, sugar transport; HET: SLB; 1.05A {Haemophilus
influenzae} PDB: 2xxk_A* 2xa5_A* 2wyp_A* 2wx9_A* 2xwo_A*
2xwk_A* 2v4c_A* 2wyk_A* 2xwi_A* 3b50_A* 2cey_A 2cex_A
Length = 312
Score = 31.9 bits (73), Expect = 0.44
Identities = 4/18 (22%), Positives = 11/18 (61%)
Query: 134 ISRKWWSKLSPDQKKIIL 151
+S + + +L D +K++
Sbjct: 218 VSNETYKELPEDLQKVVK 235
>3fxb_A Trap dicarboxylate transporter, DCTP subunit; periplasmic substrate
binding protein, selectivity helix, TR membrane; HET:
4CS; 2.90A {Silicibacter pomeroyi dss-3}
Length = 326
Score = 31.5 bits (72), Expect = 0.53
Identities = 2/18 (11%), Positives = 11/18 (61%)
Query: 134 ISRKWWSKLSPDQKKIIL 151
++ ++ LS + ++++
Sbjct: 229 ANKDFYDGLSAEDQQLVQ 246
>3qta_A Chemotaxis protein CHEC; CHEC-like, 3-layer(ABA) sandwich,
structural genomics, joint for structural genomics,
JCSG; HET: MSE; 2.00A {Haloarcula marismortui}
Length = 233
Score = 30.3 bits (68), Expect = 1.1
Identities = 14/100 (14%), Positives = 32/100 (32%), Gaps = 1/100 (1%)
Query: 285 DELATVLSHELSHTLLKHVAEKLSNKTFLEILYIVPLMIIWFLLPDLGAIVTQVLLDDLK 344
+L E+ + L + ++N I P ++ ++ V D
Sbjct: 102 TQLHESALQEMCNILTSGFIDGIANTLNATINMGTPTVVQDDATEIADKALSHVRRDS-L 160
Query: 345 SIIFELPFEREMETEADESIIFELPFEREMETEADEVGLK 384
+I+ + + + A IF +P D++
Sbjct: 161 TIVLDSLVDIKESDVAFSLRIFLIPDPGSFVHLIDQLDYD 200
>1xkr_A Chemotaxis protein CHEC; signal transduction, protein phosphatase,
attractant; 1.75A {Thermotoga maritima} SCOP: d.252.1.1
PDB: 2f9z_A
Length = 206
Score = 29.9 bits (67), Expect = 1.4
Identities = 15/94 (15%), Positives = 34/94 (36%), Gaps = 2/94 (2%)
Query: 285 DELATVLSHELSHTLLKHVAEKLSNKTFLEILYIVPLMIIWFLLPDLGAIVTQVLLDDLK 344
DE + E+ + + L++ +I + P ++I + + L D+ +
Sbjct: 104 DEFSASALREIGNIMCGTYVSALADFLGFKIDTLPPQLVIDMISAIFAEASIEELEDNSE 163
Query: 345 S--IIFELPFEREMETEADESIIFELPFEREMET 376
+ E + E E E S + +P +
Sbjct: 164 DQIVFVETLLKVEEEEEPLTSYMMMIPKPGYLVK 197
>2zzv_A ABC transporter, solute-binding protein; periplasmic substrate
binding protein, calcium, lactate, trap transporter,
transport protein; 1.40A {Thermus thermophilus} PDB:
2zzw_A 2zzx_A
Length = 361
Score = 28.2 bits (63), Expect = 5.9
Identities = 3/17 (17%), Positives = 6/17 (35%)
Query: 134 ISRKWWSKLSPDQKKII 150
I+ W L ++
Sbjct: 256 INLNRWRSLPKPLQERF 272
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.323 0.139 0.418
Gapped
Lambda K H
0.267 0.0457 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,191,441
Number of extensions: 437560
Number of successful extensions: 892
Number of sequences better than 10.0: 1
Number of HSP's gapped: 883
Number of HSP's successfully gapped: 24
Length of query: 475
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 378
Effective length of database: 3,993,456
Effective search space: 1509526368
Effective search space used: 1509526368
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 59 (27.2 bits)