RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2168
(516 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 = 52.7 bits (126), Expect = 3e-07
Identities = 66/430 (15%), Positives = 125/430 (29%), Gaps = 133/430 (30%)
Query: 148 GELAEMSYVYGTKSLVYNLTLRKPFFGPIDSMLSGSLLRQVNEMPASSCKLLEQGLILDY 207
G L E + T S L++ F + G +E P + +L+ + L Y
Sbjct: 14 GSL-EHVLLVPTASFFIASQLQEQFNKILPEPTEG--FAADDE-PTTPAELVGK--FLGY 67
Query: 208 AILFPTIKNSIEWNGLIREIQPASRGTPFAIRESAGYTLKSSLK--------------FI 253
+ ++P+ G + L L
Sbjct: 68 ---------------VSSLVEPSKVGQFDQV-------LNLCLTEFENCYLEGNDIHALA 105
Query: 254 TSLDKRDDKILPRHGQFCQGSVEFAGLGGDVGFQKYSSLHRVVHRYTLKSSLKFITSLDK 313
L + +D L + + + ++ + KS+ ++ +
Sbjct: 106 AKLLQENDTTLVKTKELIK--------------NYITARIMAKRPFDKKSNSALFRAVGE 151
Query: 314 RDDKILPRHGQFC-QGSVEFAGLGGDVGFQKYSSLFQVNYP--LGPYITAQASLDAGLL- 369
+ ++ F QG+ + F++ L+Q Y +G I A + L+
Sbjct: 152 GNAQL---VAIFGGQGNTD-------DYFEELRDLYQT-YHVLVGDLIKFSAETLSELIR 200
Query: 370 GSFSQDKTFTL-CD-RFFLGGP------------------LGLRGFAHY-------GIGP 402
+ +K FT + +L P +G+ AHY G P
Sbjct: 201 TTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTP 260
Query: 403 KSGGSSL-GGTVYWQGAYHIYTPLPFTK-PTKGSFSDNF----RLNFFANAGSIQDMSAS 456
S L G T + QG + T + + + SF + + FF + +
Sbjct: 261 GELRSYLKGATGHSQG---LVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT 317
Query: 457 EITSKWRKLGEELRISYGIG-----LAIRFAGLARVEI-------NYCFPYSYQ------ 498
+ + E G L+I L + ++ N P Q
Sbjct: 318 SLPPSILEDSLE----NNEGVPSPMLSIS--NLTQEQVQDYVNKTNSHLPAGKQVEISLV 371
Query: 499 --RDDSVVPG 506
+ VV G
Sbjct: 372 NGAKNLVVSG 381
Score = 31.2 bits (70), Expect = 1.1
Identities = 47/256 (18%), Positives = 80/256 (31%), Gaps = 100/256 (39%)
Query: 46 RTYDDIITDSIKQTEIFKSSTFGQLIFQCHEVRNQLERLQCFQQVQIEIDAS---KGPDA 102
+TY ++ D IK + + T +L +R L+ + F Q ++ + P
Sbjct: 178 QTYHVLVGDLIKFS----AETLSEL------IRTTLDAEKVFTQG---LNILEWLENPSN 224
Query: 103 TPEHGYEITFRVKELKRYRAGVTTSIGNNEGSVVVWGKMPNLYGRGELAEMSYVYGTKSL 162
TP+ Y L + S P L G +LA YV K L
Sbjct: 225 TPDKDY--------L----LSIPIS-------------CP-LIGVIQLA--HYVVTAKLL 256
Query: 163 VYNLTLRKPFFGPIDSMLSGSLLRQVNEMPASSCKLLEQGLILDYAI--------LFPTI 214
+ P G + S L G A+ QGL+ AI F ++
Sbjct: 257 GFT-----P--GELRSYLKG----------ATGHS---QGLVTAVAIAETDSWESFFVSV 296
Query: 215 KNSIE---WNGL---------------IREIQPASRGTP---FAIRESAGYTLKSSLKFI 253
+ +I + G+ + + + G P +I T + ++
Sbjct: 297 RKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS---NLTQEQVQDYV 353
Query: 254 TSLDKRDDKILPRHGQ 269
+ LP Q
Sbjct: 354 NKTNSH----LPAGKQ 365
Score = 28.5 bits (63), Expect = 8.1
Identities = 42/251 (16%), Positives = 75/251 (29%), Gaps = 69/251 (27%)
Query: 35 RVDRVKVEGIGRTYDDIITDSIKQTEIFKSSTFGQLIFQCHEVRNQLERLQCFQQVQIEI 94
R D + G + DI+ ++ I G+ I R + V ++
Sbjct: 1648 RADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRI------RENYSAMIFETIVDGKL 1701
Query: 95 DASKGPDATPEHGYEITFR--VKELKRYRAGVT--TSIGNNEGSVVVWGKMPNLYGRGEL 150
K EH TFR L T T P L
Sbjct: 1702 KTEKIFKEINEHSTSYTFRSEKGLLSA-----TQFTQ--------------PAL-----T 1737
Query: 151 AEMSYVYGTKSLVYNLTLRKPFFGPIDSMLSG-SL-----LRQVNE-MP-ASSCKLLEQ- 201
M + L+ P D+ +G SL L + + M S +++
Sbjct: 1738 L-MEKA------AFED-LKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYR 1789
Query: 202 GLILDYAILFPTIKNSIEWNGLIREIQPASRGTPFAIRESAGYTLKSSLKFITSLDKRDD 261
G+ + A+ P + G+I I P F+ + +L+++ +
Sbjct: 1790 GMTMQVAV--PRDELGRSNYGMI-AINPGRVAASFS---------QEALQYVV------E 1831
Query: 262 KILPRHGQFCQ 272
++ R G +
Sbjct: 1832 RVGKRTGWLVE 1842
>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 = 48.7 bits (115), Expect = 4e-06
Identities = 75/511 (14%), Positives = 127/511 (24%), Gaps = 164/511 (32%)
Query: 12 QPYDELDS-----DPNDAMLGHVMVAPARVDRVKVEGIGRTYDDIITDSIKQTEIFKSST 66
QPY +L P +L ++ G G+T+ + D ++
Sbjct: 135 QPYLKLRQALLELRPAKNVLIDGVL-----------GSGKTW--VALDVCLSYKVQCKMD 181
Query: 67 FGQLIF-----QCHEVRNQLERLQCFQQVQIEIDASKGPDATPEHGYEITFRVKELKRYR 121
F IF C+ LE LQ QI+ + + D H I R+ ++
Sbjct: 182 FK--IFWLNLKNCNSPETVLEMLQKL-LYQIDPNWTSRSD----HSSNIKLRIHSIQAEL 234
Query: 122 AGVTTSIGNNEGSVVVWGKMPNLYGRGELAEMSYVYGTKSL-----VYNLTLRKPF-FGP 175
R L Y L V N F
Sbjct: 235 -------------------------RRLLKSKPYE---NCLLVLLNVQNAKAWNAFNLS- 265
Query: 176 IDSMLSGSLLRQVNEMPASSCKLLEQGLILDYAILFPTIKNSIEWNGLIREIQPASRGTP 235
CK IL T + + A+
Sbjct: 266 --------------------CK-----------ILLTTRFKQV-----TDFLSAATTTHI 289
Query: 236 FAIRESAGYTLKSSLK-FITSLDKRDDKILPRHGQFCQGS-VEFAGLGGDV-------GF 286
S T + LD R LPR + + + + +
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQD-LPR--EVLTTNPRRLSIIAESIRDGLATWDN 346
Query: 287 QKYSSLHRVVHRYTLKSSLKFITSLDKR-----------DDKILPRH----------GQF 325
K+ + ++ ++SSL + + R I P
Sbjct: 347 WKHVNCDKLTT--IIESSLNVLEPAEYRKMFDRLSVFPPSAHI-PTILLSLIWFDVIKSD 403
Query: 326 CQGSVEFAGLGGDVGFQKYSSLFQVNYPLGPYITAQASLDAGLLGSFSQDKTF--TLCDR 383
V KYS + + I S+ L + ++ D
Sbjct: 404 VMVVVN--------KLHKYSLVEKQPKESTISIP---SIYLELKVKLENEYALHRSIVDH 452
Query: 384 FFLGGPLGLRGFAHYGIGPKSGGSSLGGTVYWQGAYHIYTPLPFTKPTKGSFSDNFRLNF 443
+ + + F + P L Y +H+ + T F F L+F
Sbjct: 453 YNI-----PKTFDSDDLIPP----YLDQYFYSHIGHHLKNIEHPERMT--LFRMVF-LDF 500
Query: 444 -FANAGSIQDMSASEITSKWRKLGEELRISY 473
F D +A + ++L+ Y
Sbjct: 501 RFLEQKIRHDSTAWNASGSILNTLQQLKF-Y 530
>2qdz_A TPSB transporter FHAC; beta barrel, potra domain, membrane, protein
transport; 3.15A {Bordetella pertussis} PDB: 3njt_A
Length = 554
Score = 36.7 bits (84), Expect = 0.018
Identities = 18/184 (9%), Positives = 51/184 (27%), Gaps = 22/184 (11%)
Query: 332 FAGLGGDVGFQKYSSLFQVNYPLGPYITAQASLDAGLLGSFSQDKTFTLCDRFFLGGPLG 391
+ G +++ + + L +S+ + + +G
Sbjct: 391 YDERGPQGNVSRFNGSLAWTRYM-ALAGQPIQWASQLGFQYSRQQLLNS-YQITVGDEYT 448
Query: 392 LRGFAHYGIGPKSGGSSLGGTVYWQGAYHIYTPLPFTKPTKGSFSDNFRLNFFANAGSIQ 451
+RG+ + +S G + + P+ F+ K + + A+ G+++
Sbjct: 449 VRGY--------NLRTSQSGDSGVYLSNTLTVPVQFSLLGKQA---SVAPFVGADVGALK 497
Query: 452 DMSASEITSKWRKLGEELRISYGIGLAIRFAGLARVEINYCFPYSYQRDDSVVPGMQFGF 511
++ ++ G+ R+ Y P Q + +
Sbjct: 498 SNHPD---ARTIRM-----AGLAAGVRFDLPYA-RMSFTYSKPVGAQPGGAPRAPVWLYI 548
Query: 512 GITF 515
Sbjct: 549 NAGL 552
>3q6b_A Outer membrane protein assembly complex, YAET Pro; potra fold,
insertion of outer membrane proteins, protein BI; 1.50A
{Escherichia coli} PDB: 3og5_A
Length = 189
Score = 30.4 bits (69), Expect = 1.1
Identities = 16/84 (19%), Positives = 35/84 (41%), Gaps = 9/84 (10%)
Query: 33 PARVDRVKVEGIGRTYDDIITDSIKQTEIFKSSTFGQLIFQCHEVRNQLERLQCFQQVQI 92
V +++ EG + D ++ ++Q E + G + + + +L RL F+ V
Sbjct: 115 RFYVRKIRFEGNDTSKDAVLRREMRQME---GAWLGSDLVD--QGKERLNRLGFFETVDT 169
Query: 93 EIDASKGPDATPEHGYEITFRVKE 116
+ G ++ ++VKE
Sbjct: 170 DTQRVPGSPDQ----VDVVYKVKE 189
>2x8x_X TLR1789 protein, OMP85; chaperone, TOC75, protein targeting; 1.97A
{Thermosynechococcus elongatus}
Length = 235
Score = 30.4 bits (69), Expect = 1.1
Identities = 13/84 (15%), Positives = 28/84 (33%), Gaps = 14/84 (16%)
Query: 35 RVDRVKVEGIGRTYDDIITDSIKQTE--IFKSSTFGQLIFQCHEVRNQLERLQCFQQVQI 92
+++ RT D +I+ + + T +L L F+ VQ+
Sbjct: 161 FLNKEGEPTKQRTRDFVISREMDTQPGVVLNQKTVQA-------DLRRLFELGLFEDVQV 213
Query: 93 EIDASKGPDATPEHGYEITFRVKE 116
++ + P + +KE
Sbjct: 214 ALEPGQNPRRV-----NLILNIKE 232
>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 = 29.9 bits (66), Expect = 1.2
Identities = 7/26 (26%), Positives = 13/26 (50%), Gaps = 8/26 (30%)
Query: 82 ERLQCFQQVQIEIDAS-K--GPDATP 104
E+ Q ++ ++ AS K D+ P
Sbjct: 18 EK----QALK-KLQASLKLYADDSAP 38
>2j3t_D Trafficking protein particle complex subunit 4; trapp, palmitate,
transport, lipoprotein, ER-golgi transport apparatus,
protein transport; HET: PLM; 2.4A {Homo sapiens} PDB:
2zmv_A 2jsn_A
Length = 219
Score = 27.8 bits (61), Expect = 7.1
Identities = 15/108 (13%), Positives = 35/108 (32%), Gaps = 2/108 (1%)
Query: 213 TIKNSIEWNGLIREIQPASRGTPFAIRESAGYTLKSSLKFITSLDKRDDKILPRHGQFCQ 272
+ NG+ + + G S++F ++K++
Sbjct: 59 VGHAVLAINGMDVNGRYTADGKEVLEYLGNPANYPVSIRFGRPRLTSNEKLMLASMFHSL 118
Query: 273 GSV--EFAGLGGDVGFQKYSSLHRVVHRYTLKSSLKFITSLDKRDDKI 318
++ + + G G + + +H Y + +KF+ D R I
Sbjct: 119 FAIGSQLSPEQGSSGIEMLETDTFKLHCYQTLTGIKFVVLADPRQAGI 166
>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase,
ATP-binding cassette, ATP-binding, endosome, MEM
nucleotide-binding; 2.70A {Saccharomyces cerevisiae}
PDB: 3eih_A* 2rko_A 3mhv_C
Length = 322
Score = 27.7 bits (62), Expect = 9.4
Identities = 9/28 (32%), Positives = 15/28 (53%), Gaps = 7/28 (25%)
Query: 442 NFFANAGSIQDMSASEITSKWRKLGEEL 469
FF+ +S+S++ SKW E+L
Sbjct: 78 TFFS-------VSSSDLVSKWMGESEKL 98
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
0.321 0.139 0.419
Gapped
Lambda K H
0.267 0.0723 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,947,936
Number of extensions: 479268
Number of successful extensions: 699
Number of sequences better than 10.0: 1
Number of HSP's gapped: 693
Number of HSP's successfully gapped: 13
Length of query: 516
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 418
Effective length of database: 3,965,535
Effective search space: 1657593630
Effective search space used: 1657593630
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 (21.8 bits)
S2: 59 (26.5 bits)