RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14285
(443 letters)
>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 = 54.3 bits (130), Expect = 6e-08
Identities = 65/361 (18%), Positives = 109/361 (30%), Gaps = 126/361 (34%)
Query: 20 VQEANFLAEEMGRQTKFSVTLQIPPANLSPNRRWNCVIQVDICNALFTIPSCTWSELTRK 79
+Q A+++ + L P L + + A+ + +W
Sbjct: 244 IQLAHYVV--------TAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVS 295
Query: 80 IELWVDIL-------------------ELNDAGDYTPVEVTPSRAPDMLTQIIILNVTLC 120
+ + +L L D+ + E PS P ML+ I N+T
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENN--EGVPS--P-MLS---ISNLTQE 347
Query: 121 YVNKTVGGHPRVERCRGLHAGRSHSLPRARHADGVDILELNDAGDYTPVEVT-PSRAPDM 179
V V + LP + V+I +N A + V V+ P ++
Sbjct: 348 QVQD------YVNKTN-------SHLPAGKQ---VEISLVNGAKNL--V-VSGPPQS--- 385
Query: 180 LTGGTYQLR---------QGQ----QRRIQVLVR--PVT---NS----GTLPIICESVGS 217
L G LR Q + +R+++ R PV +S +I + +
Sbjct: 386 LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVK 445
Query: 218 IAVGSVCLRSRLQKPLDSYQEEDLAVLREKWSDALVRRRQYLDQQIQRL-INKQDKSEQD 276
V +Q P+ Y D + LR S ++ R + I RL +
Sbjct: 446 NNV--SFNAKDIQIPV--YDTFDGSDLRVL-SGSISER---IVDCIIRLPVK-------- 489
Query: 277 IEREQSLEEQWVNLTEER-NAVLVPAPG--SG----------------IPGAPADWNPPS 317
W T+ + +L PG SG I D NP
Sbjct: 490 ----------WETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDD 539
Query: 318 D 318
D
Sbjct: 540 D 540
Score = 35.4 bits (81), Expect = 0.041
Identities = 76/532 (14%), Positives = 140/532 (26%), Gaps = 210/532 (39%)
Query: 3 RRSLGQLKEDIVRAN---AFVQEANFLAEEMGRQTKF----------SVTLQIPPANLSP 49
L + + + N A A L E K + + P S
Sbjct: 85 NLCLTEFENCYLEGNDIHALA--AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSN 142
Query: 50 NRRWNCVI--QVDICNALF----TIPSCTWSELTRKIELWVDILELNDAGDYTP-VEVTP 102
+ + V + A+F + EL R +L+ Y V
Sbjct: 143 SALFRAVGEGNAQLV-AIFGGQGNTDDY-FEEL-R--DLY---------QTYHVLVGDLI 188
Query: 103 SRAPDMLTQIIILNVTLCYVNKTVGGHPRVERCRGLHAGRSHSLPRARHADGVDILE-LN 161
+ + L+++I R+ G++ILE L
Sbjct: 189 KFSAETLSELI----------------------------RTTLDAEKVFTQGLNILEWLE 220
Query: 162 DAG-----DYT---PV--------------------EVTPSRAPDMLTGGTYQLRQGQQR 193
+ DY P+ TP L G T G +
Sbjct: 221 NPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT-----GHSQ 275
Query: 194 RIQVLVRPVTNSGTLPIICESVGSIA---------VGSVCLRSRLQKPLDSYQEED---- 240
+ V + + + ES +G C + L ED
Sbjct: 276 GL-VTAVAIAETDSW----ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLEN 330
Query: 241 --------LAVLREKWSDALVRRRQYLDQQIQRLI---NKQDKSEQDIEREQSLEEQWVN 289
L++ +Q+Q + N + + +E SL VN
Sbjct: 331 NEGVPSPMLSI------------SNLTQEQVQDYVNKTNSHLPAGKQVE--ISL----VN 372
Query: 290 LTEERNAVLVPAPGSGIPGAPADWNPPSD---------KSEQDIEREQSLVEQWVNLTEE 340
+N V+ SG PP K++ +QS + E
Sbjct: 373 --GAKNLVV-----SG---------PPQSLYGLNLTLRKAKAPSGLDQSRIP-----FSE 411
Query: 341 RNAVLVPAPGSGIP-GAP--ADWNPPSGMEPHIPVLFLDLNADDLSASNSGPELDYPVAG 397
R +P +P + + P ++ DL +++S + ++ PV
Sbjct: 412 RKLKFS---NRFLPVASPFHSHL-----LVPASDLINKDLVKNNVSF--NAKDIQIPV-- 459
Query: 398 LHSILPKEHGTKFYNLPLVRHLNQEVG-----AVAT----WDSSVH-DSQHL 439
+L R L+ + + W+++ + H+
Sbjct: 460 -------YDTFDGSDL---RVLSGSISERIVDCIIRLPVKWETTTQFKATHI 501
>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 = 41.0 bits (95), Expect = 9e-04
Identities = 73/491 (14%), Positives = 131/491 (26%), Gaps = 162/491 (32%)
Query: 81 ELWVDILELNDAGDYTPVEVTPSR-------APDMLTQIIILNVTLC-----YVNKTVGG 128
+ +VD + D D P + + D ++ + L TL V K V
Sbjct: 27 DAFVDNFDCKDVQDM-PKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEE 85
Query: 129 HPR------VERCRGLHAGRSHSLPRARHADGVDILELNDAGDYTPVEVTPSRAPDM--L 180
R + + R S+ + + D L ND + V+ R L
Sbjct: 86 VLRINYKFLMSPIK--TEQRQPSMMTRMYIEQRDRLY-NDNQVFAKYNVS--RLQPYLKL 140
Query: 181 TGGTYQLRQGQQRRI--------QVLVRPVTNSGTLPIICESVGSI---AVGSVC----- 224
+LR + I + V S + C+ I + +
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVALDVCLS--YKVQCKMDFKIFWLNLKNCNSPETV 198
Query: 225 ------LRSRLQKPLDSYQE--------------------------EDLAVLREKWSDAL 252
L ++ S + L VL +
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258
Query: 253 VRRRQYLDQQIQRLINKQDKSEQDI-----EREQSLEEQWVNLTEE-------------- 293
+ + L+ + K D SL+ + LT +
Sbjct: 259 WN---AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP 315
Query: 294 ----RNAVLV-PAPGSGIPGAPADWNPPSDKSEQ-DIEREQSLVEQWVNL---TEERN-- 342
R + P S I + D D + + ++ +++E +N+ E R
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF 375
Query: 343 ---AVLVPAPGSGIPGA--PADWNPPSGMEP----------------------HIPVLFL 375
+V P P + IP W + IP ++L
Sbjct: 376 DRLSVF-P-PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL 433
Query: 376 DL--NADDLSASNSGPELDYPVAGLHSILPKEHGTKFYNLPLVRHLNQEVGAVATWDSSV 433
+L ++ A LH + +H YN+P + + + D
Sbjct: 434 ELKVKLENEYA-------------LHRSI-VDH----YNIP--KTFDSDDLIPPYLDQYF 473
Query: 434 --HDSQHLNKI 442
H HL I
Sbjct: 474 YSHIGHHLKNI 484
>3owr_A Uncharacterized hypothetical protein; carbohydrate metabolism,
putative glycoside hydrolase, IG-LI structural genomics;
HET: PG4; 1.81A {Bacteroides fragilis} PDB: 3p69_A
Length = 134
Score = 30.2 bits (67), Expect = 0.63
Identities = 22/131 (16%), Positives = 43/131 (32%), Gaps = 25/131 (19%)
Query: 233 LDSYQEEDLAVLREKWSDALVRRRQYLDQQIQRLINKQDKSEQDIEREQSLEEQWVNLTE 292
L +Y+E ++ + + + + +E++++R +++ + T
Sbjct: 6 LPAYEEAEITKVGAYHR--------FYSGDKDAITGENIVAEKELDRTNNIDSEHGVAT- 56
Query: 293 ERNAVLVPAPGSGIPGAPADWNPPSDKSEQDIEREQSLVEQWVNLTEERNAVLVPAPGSG 352
+PA G A + SL V + A + P GS
Sbjct: 57 --AVFTIPAAGGKFTEA--------------ERAKVSLSNLVVYVNVSTAARVTPLDGSP 100
Query: 353 IPGAPADWNPP 363
G PADW
Sbjct: 101 KFGVPADWTRE 111
>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 = 30.3 bits (67), Expect = 0.76
Identities = 9/51 (17%), Positives = 15/51 (29%), Gaps = 31/51 (60%)
Query: 261 QQIQRLINKQDKSEQDIEREQSLEEQWVNLTEERNAVLVPAPGSGIPGAPA 311
Q +++L + SL+ + A S APA
Sbjct: 20 QALKKL-------------QASLK--------------LYADDS----APA 39
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 31.3 bits (71), Expect = 0.77
Identities = 16/119 (13%), Positives = 40/119 (33%), Gaps = 20/119 (16%)
Query: 225 LRSRLQKPLDSYQEEDLAVLREKWSDALVRRRQYLDQQIQRLINKQDKSEQDIEREQSLE 284
+R L Q + +R+ S + + ++ L + +D + S+
Sbjct: 334 FPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEML----REDIKDYYTDLSIL 389
Query: 285 EQWVNLTEERNAVLVPAPGSGIPGAPADWNPPSDKSEQDIER--EQSLVEQWVNLTEER 341
++ V + + VL W+ +++ E ++ +SL+ N
Sbjct: 390 QKDVKVPTKVLCVL--------------WDLETEEVEDILQEFVNKSLLFCNRNGKSFC 434
>1r8e_A Multidrug-efflux transporter regulator; protein-DNA complex,
MERR-family transcription activator, MU binding protein;
HET: P4P; 2.40A {Bacillus subtilis} SCOP: a.6.1.3
d.60.1.1 PDB: 1exi_A* 1exj_A* 3iao_A 3q5p_A* 3d71_A*
3q3d_A* 3q1m_A* 3q2y_A* 3q5r_A* 3q5s_A* 3d70_A 3d6z_A*
3d6y_A* 1bow_A 2bow_A*
Length = 278
Score = 29.4 bits (66), Expect = 2.4
Identities = 9/88 (10%), Positives = 27/88 (30%), Gaps = 4/88 (4%)
Query: 246 EKWSDALVRRRQYLDQQIQRLINKQDKSEQDIEREQSLEEQWVNLTEERNAVLVPAPGSG 305
E+ + + + +++ L EQ I + ++ + ++
Sbjct: 78 EELFAFYTEQERQIREKLDFL----SALEQTISLVKKRMKRQMEYPALGEVFVLDEEEIR 133
Query: 306 IPGAPADWNPPSDKSEQDIEREQSLVEQ 333
I A+ P + + + +E
Sbjct: 134 IIQTEAEGIGPENVLNASYSKLKKFIES 161
>3r6f_A HIT family protein; structural genomics, seattle structural
genomics center for infectious disease, ssgcid,
protozoan parasite; 1.85A {Encephalitozoon cuniculi}
Length = 135
Score = 28.1 bits (63), Expect = 3.2
Identities = 7/38 (18%), Positives = 16/38 (42%), Gaps = 3/38 (7%)
Query: 393 YPVAGLHS-ILPKEHGTKFYNLP--LVRHLNQEVGAVA 427
YP++ H ++PK H +N + + + +
Sbjct: 34 YPLSKGHFLVIPKAHHPYLHNYKPEELSGVLDTIRHLV 71
>2vkl_A RV0948C/MT0975; helical, intracellular, chorismate mutase,
isomerase; 1.65A {Mycobacterium tuberculosis} PDB:
2qbv_A 2w19_C 2w1a_C*
Length = 90
Score = 27.4 bits (61), Expect = 3.4
Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 6/70 (8%)
Query: 230 QKPLDSYQEEDLAVLREK--WSD----ALVRRRQYLDQQIQRLINKQDKSEQDIEREQSL 283
+ L+S ++ LRE+ D ALV+RR + + I + + RE +
Sbjct: 3 LEMLESQPVPEIDTLREEIDRLDAEILALVKRRAEVSKAIGKARMASGGTRLVHSREMKV 62
Query: 284 EEQWVNLTEE 293
E++ L +
Sbjct: 63 IERYSELGPD 72
>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil
(dimeric, parallel), familial hypertrophic
cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo
sapiens} SCOP: h.1.26.1 PDB: 2fxm_A
Length = 129
Score = 27.9 bits (62), Expect = 3.5
Identities = 12/62 (19%), Positives = 32/62 (51%), Gaps = 5/62 (8%)
Query: 238 EEDLAVLREKWSDALVRRRQYLDQQIQRLINKQDKSEQDIEREQSL----EEQWVNLTEE 293
+E+ L+E + RR++ L++++ L+ +++ + ++ EQ EE+ L +
Sbjct: 19 KEEFTRLKEALEKSEARRKE-LEEKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKN 77
Query: 294 RN 295
+
Sbjct: 78 KI 79
>3mpk_A Virulence sensor protein BVGS; venus flytrap, sensor domain,
signaling protein; 2.04A {Bordetella pertussis} PDB:
3mpl_A
Length = 267
Score = 28.1 bits (63), Expect = 5.9
Identities = 13/66 (19%), Positives = 27/66 (40%), Gaps = 10/66 (15%)
Query: 185 YQLRQGQQRRIQVLVRPVTNSGTLPIICESVGSIAV--GSVCLRSRLQKPLDSYQEEDLA 242
Y + + ++++ + L + + +A G L S L K L S ++LA
Sbjct: 193 YYVNRYFAGKLRI-------ASALDLPPAEIA-LATTRGQTELMSILNKALYSISNDELA 244
Query: 243 VLREKW 248
+ +W
Sbjct: 245 SIISRW 250
>3bas_A Myosin heavy chain, striated muscle/general control protein GCN4
chimera; alpha-helical coiled coil, disorder, salt
links; 2.30A {Argopecten irradians} SCOP: h.1.26.1 PDB:
1nkn_A 3bat_A
Length = 89
Score = 26.5 bits (58), Expect = 6.3
Identities = 11/39 (28%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 257 QYLDQQIQRLINKQDKSEQDIEREQSLEEQWVNLTEERN 295
+ +Q+ ++ K+E+ ++ LEEQ V L E++N
Sbjct: 17 KEQLKQMDKMKEDLAKTER---IKKELEEQNVTLLEQKN 52
>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil,
alanine, axial stagger, radius, SIDE-chain packing,
crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1
Length = 147
Score = 27.3 bits (60), Expect = 6.3
Identities = 12/60 (20%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 238 EEDLAVLREKWSDALVRRRQYLDQQIQRLINK----QDKSEQDIEREQSLEEQWVNLTEE 293
E DL E+ + + + L+++++ + N +DK E+ + + LE + L +
Sbjct: 86 ESDLERAEERAELSEGKCAE-LEEELKTVTNNLKSLEDKVEELLSKNYHLENEVARLKKL 144
>1rwh_A Chondroitin AC lyase; chondroitinase, chondroitin lyase; HET: ASG
GCT GAD; 1.25A {Arthrobacter aurescens} SCOP: a.102.3.2
b.24.1.1 b.30.5.2 PDB: 1rwc_A* 1rwf_A* 1rwg_A* 1rwa_A*
1rw9_A
Length = 757
Score = 28.2 bits (62), Expect = 6.4
Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 6/68 (8%)
Query: 235 SYQEEDLAVLREKWSDALVRRRQY--LDQQIQRLINKQDKSEQD----IEREQSLEEQWV 288
+ A LR +W D + R D + I + D ++ +
Sbjct: 3 EPGAAEFAALRNRWVDQITGRNVIQAGDPDFAKAITALNNKAADSLAKLDAAAGRTSVFT 62
Query: 289 NLTEERNA 296
+L+ ++A
Sbjct: 63 DLSLAKDA 70
>3rmi_A Chorismate mutase protein; emerald biostructures, structural
genomics, seattle structur genomics center for
infectious disease, ssgcid; 2.40A {Bartonella henselae}
Length = 114
Score = 26.7 bits (59), Expect = 8.6
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 6/63 (9%)
Query: 239 EDLAVLREKWSD------ALVRRRQYLDQQIQRLINKQDKSEQDIEREQSLEEQWVNLTE 292
+LA LR+ + ++ R Q I RL + + D REQ ++ L
Sbjct: 12 SELAYLRQSIDNFDITLIHILAERFRCTQAIGRLKARYNLPAVDPLREQYQIKRLRKLAI 71
Query: 293 ERN 295
+ +
Sbjct: 72 DTH 74
>1x79_B RAB GTPase binding effector protein 1; rabaptin5, GGA protein, GAT
domain, intracellular trafficking, protein transport;
2.41A {Homo sapiens} SCOP: h.1.27.2
Length = 112
Score = 26.4 bits (57), Expect = 9.2
Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 2/75 (2%)
Query: 225 LRSRLQKPLDSYQEEDLAVLREKWSDALVRRRQYLDQQIQRLINKQDKSEQDIEREQSLE 284
L+ L++ D E +++ D + + + QI L+ + SE +E Q
Sbjct: 11 LQLMLRQANDQL--EKTMKDKQELEDFIKQSSEDSSHQISALVLRAQASEILLEELQQGL 68
Query: 285 EQWVNLTEERNAVLV 299
Q +E+ AVL+
Sbjct: 69 SQAKRDVQEQMAVLM 83
>3nzt_A Glutamate--cysteine ligase; structural genomics, center for
structural genomics of infec diseases, csgid, alpha and
beta proteins; HET: AMP; 2.00A {Francisella tularensis
subsp}
Length = 525
Score = 27.5 bits (60), Expect = 10.0
Identities = 6/64 (9%), Positives = 21/64 (32%), Gaps = 2/64 (3%)
Query: 225 LRSRLQKPLDSYQEEDLAVLREK--WSDALVRRRQYLDQQIQRLINKQDKSEQDIEREQS 282
+ ++ + + + + R+ L R+ Q + ++ + QS
Sbjct: 436 QKRKVLDISQTPSAKIIELARQHGYKKFILDISRRVSQQFRSYELPAAIVAKLKDQAGQS 495
Query: 283 LEEQ 286
+ +
Sbjct: 496 VAAE 499
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
0.316 0.134 0.404
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,964,108
Number of extensions: 423610
Number of successful extensions: 768
Number of sequences better than 10.0: 1
Number of HSP's gapped: 759
Number of HSP's successfully gapped: 33
Length of query: 443
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 346
Effective length of database: 3,993,456
Effective search space: 1381735776
Effective search space used: 1381735776
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: 59 (27.2 bits)