RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5648
(327 letters)
>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 = 54.1 bits (129), Expect = 4e-08
Identities = 37/288 (12%), Positives = 84/288 (29%), Gaps = 65/288 (22%)
Query: 16 SPQPIK-FKSRKKNLRTRKDSSEEEDSEEEMEALKKLEEMKSLQKL-----RQR------ 63
+P+ + ++ D+ + + ++ ++ SL L R+
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES-----SLNVLEPAEYRKMFDRLSV 380
Query: 64 -PNGVSI----ISLTVGEKVAEEDELLVKDPFKIKSGGLVNMSALKSGQVKKVDDAYDTG 118
P I +SL + + + ++V L S ++ K
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNK--------LHKYSLVE-----KQPKESTIS 427
Query: 119 IGTQFSAETNKRDEDEEMMKYIEEQLSKRKKGEETKEGGQGEEGGVNYCSPEEAALQAVP 178
I + + K + + + + I + + K + + Y +
Sbjct: 428 IPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD---QY------FYSHIG 478
Query: 179 DHLRQSSTHQSEEMLSNQMLSGIPEVDLG-IEAKIRNIEATEEAK---LKLLWD-----R 229
HL+ + + L D +E KIR+ A L L
Sbjct: 479 HHLKNIEHPERMTLFRMVFL------DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP 532
Query: 230 HNKKDGPSQFVPTNMAVNFVQ---HN--RCKYSD-PQLGTFLFYHYVY 271
+ + P N ++F+ N KY+D ++ ++
Sbjct: 533 YICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIF 580
Score = 53.7 bits (128), Expect = 4e-08
Identities = 50/362 (13%), Positives = 93/362 (25%), Gaps = 128/362 (35%)
Query: 36 SEEEDSEEEMEALKKLEEMKSLQKLRQRPNGVSIISLTVGEKVAEEDELLVKDPFKIKSG 95
E +E L+KL + R + S I L + AE LL P++
Sbjct: 190 KNCNSPETVLEMLQKLL-YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN--- 245
Query: 96 GLVNMSALKSGQVKKVDDAYDTG----IGTQFSAETNKRDEDEEMMKYIEEQLSKRKKGE 151
L+ + +++ K +A++ + T+F T+ L
Sbjct: 246 CLLVLLNVQN---AKAWNAFNLSCKILLTTRFKQVTDFLSAA----TTTHISLDHHSMTL 298
Query: 152 ETKEGGQGEEGGVNYCSPEEAALQAVPDHLRQSSTHQSEEMLSNQMLSGIP--------- 202
E +L + L ++L+ P
Sbjct: 299 TPDEV---------------KSLLL-------KYLDCRPQDLPREVLTTNPRRLSIIAES 336
Query: 203 -----------------EVDLGIEAKIRNIEATE------------------EAKLKLLW 227
++ IE+ + +E E L L+W
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW 396
Query: 228 DRHNKKDGPSQFVPTNMAVNFVQHNRCKYS----DPQLGTFLFYHYVYFLLLQYSEAILV 283
D + KYS P+ T +Y L E
Sbjct: 397 F-----DVIKS-DVMVVVNKL-----HKYSLVEKQPKESTI-SIPSIYLELKVKLENEYA 444
Query: 284 M-----------RKYCNW--SKFFADGTYFFASVGNSGENHFAG-------------FLE 317
+ + + + + D YF++ +G +H FL+
Sbjct: 445 LHRSIVDHYNIPKTFDSDDLIPPYLDQ-YFYSHIG----HHLKNIEHPERMTLFRMVFLD 499
Query: 318 FK 319
F+
Sbjct: 500 FR 501
Score = 37.5 bits (86), Expect = 0.006
Identities = 44/275 (16%), Positives = 91/275 (33%), Gaps = 71/275 (25%)
Query: 1 MSEEGSSQHIKSEDSSP--QPIKFKSRKKNLRTRKDSSEEEDSEEEMEALKKLEEMKSLQ 58
M E + +D + F N D + +D + L K EE+ +
Sbjct: 7 MDFETGEHQYQYKDILSVFED-AFV---DNF----DCKDVQDMPKS--ILSK-EEIDHII 55
Query: 59 KLRQRPNGVSIISLTVGEKVAEEDELLVKDPFKIKSGGLVNMSALKSGQVKKVDDAYDTG 118
+ +G + T+ K E + V++ +I L MS +K+ Q + +
Sbjct: 56 MSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL--MSPIKTEQRQP------SM 107
Query: 119 IGTQFSAETNKRDEDEEMM-KY---IEEQLSKRKKG-EETKE---------GGQGE---- 160
+ + + ++ D ++ KY + K ++ E + G G+
Sbjct: 108 MTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVA 167
Query: 161 -------------EGGV------NYCSPEE--AALQAVPDHLRQSSTHQSEEMLSNQMLS 199
+ + N SPE LQ + + + T +S+ S
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS------S 221
Query: 200 GIPEVDLGIEAKIRNIEATEEAKLKLL-----WDR 229
I I+A++R + ++ + LL +
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA 256
>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 = 32.6 bits (73), Expect = 0.087
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 6/33 (18%)
Query: 44 EMEALKKLEEMKSLQKLRQRPNGVSIISL--TV 74
E +ALKKL+ SL KL + +++ T+
Sbjct: 18 EKQALKKLQ--ASL-KLYA-DDSAPALAIKATM 46
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.3 bits (70), Expect = 0.25
Identities = 14/112 (12%), Positives = 32/112 (28%), Gaps = 36/112 (32%)
Query: 36 SEEEDSEEEMEALKKLEEMKSLQKLRQRPNGVSIISLTVGEKVAEEDELLVKDPFKIKSG 95
++ + +E E+++K E QR +++ E D
Sbjct: 75 AQADRLTQEPESIRKWRE-------EQR------------KRLQELDAASKVM------- 108
Query: 96 GLVNMSALKSGQVKKVDDAYDTGIGTQFSAETNK---RDEDEEMMKYIEEQL 144
+ K +++ E NK R D+ + + +
Sbjct: 109 ----EQEWREKAKKDLEEWNQR---QSEQVEKNKINNRIADKAFYQQPDADI 153
Score = 29.7 bits (66), Expect = 0.94
Identities = 15/79 (18%), Positives = 35/79 (44%), Gaps = 17/79 (21%)
Query: 17 PQPIKF--KSRKKNLRTRKDSSEEEDSEEEMEALKKLEEM-----KSLQKLRQRPNGVSI 69
P+ I+ + ++K L+ +S+ + E +A K LEE + ++K + N ++
Sbjct: 84 PESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKIN-NRIA- 141
Query: 70 ISLTVGEK--VAEEDELLV 86
+K + D ++
Sbjct: 142 ------DKAFYQQPDADII 154
Score = 29.0 bits (64), Expect = 1.6
Identities = 9/45 (20%), Positives = 17/45 (37%), Gaps = 8/45 (17%)
Query: 124 SAETNKRDEDEEMMKYIEEQ---LSKR-----KKGEETKEGGQGE 160
+ E E + K+ EEQ L + +E +E + +
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKD 119
>2lrn_A Thiol:disulfide interchange protein; structural genomics,
thioredoxin-like, NEW YORK structural G research
consortium, oxidoreductase; NMR {Bacteroides SP}
Length = 152
Score = 28.8 bits (65), Expect = 1.2
Identities = 18/111 (16%), Positives = 36/111 (32%), Gaps = 14/111 (12%)
Query: 52 EEMKSLQKL--RQRPNGVSIISLTVGEKVAEEDELLVKDPFKIKSGGLVNMSALKSGQVK 109
+E L K + G +I ++ + E K + + K VK
Sbjct: 46 KETPYLLKTYNAFKDKGFTIYGVST-----DRREEDWKKAIEEDKSYWNQVLLQK-DDVK 99
Query: 110 KVDDAYD-TGIGTQF--SAE---TNKRDEDEEMMKYIEEQLSKRKKGEETK 154
V ++Y G E K +++ +E+ ++ K+G
Sbjct: 100 DVLESYCIVGFPHIILVDPEGKIVAKELRGDDLYNTVEKFVNGAKEGHHHH 150
>2xjp_A Flocculin-5, flocculation protein FLO5; cell adhesion, greenbeard,
PA14-domain, carbohydrate binding interaction; HET: MAN
BMA; 0.95A {Saccharomyces cerevisiae} PDB: 2xjq_A
2xjr_A* 2xjs_A* 2xjt_A* 2xju_A* 2xjv_A*
Length = 258
Score = 29.1 bits (64), Expect = 1.7
Identities = 14/87 (16%), Positives = 26/87 (29%)
Query: 236 PSQFVPTNMAVNFVQHNRCKYSDPQLGTFLFYHYVYFLLLQYSEAILVMRKYCNWSKFFA 295
P+ + M +NF Q++ S ++ Y Y L + N +
Sbjct: 18 PAGQRKSGMNINFYQYSLKDSSTYSNAAYMAYGYASKTKLGSVGGQTDISIDYNIPCVSS 77
Query: 296 DGTYFFASVGNSGENHFAGFLEFKPAP 322
GT+ + G G +
Sbjct: 78 SGTFPCPQEDSYGNWGCKGMGACSNSQ 104
>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 = 28.9 bits (64), Expect = 3.2
Identities = 25/124 (20%), Positives = 36/124 (29%), Gaps = 26/124 (20%)
Query: 156 GGQGEEGGVNYCSPEEAALQAVPDHLRQSSTHQSEEMLSNQMLSGIPEVDLGIEAKIRNI 215
GGQG + E L L S E LS L + + NI
Sbjct: 161 GGQGN---TDDYFEELRDLYQTYHVLVGDLIKFSAETLSE--LIRTTLDAEKVFTQGLNI 215
Query: 216 EATEEAKLKLLWDRHNKKDGPSQFVPTNMAVNFVQHNRCKYSDPQLGTFLFYHYVYFL-L 274
W N + P + +++ S P +G HYV L
Sbjct: 216 LE---------W-LENPSNTPDK--------DYLLS--IPISCPLIGVIQLAHYVVTAKL 255
Query: 275 LQYS 278
L ++
Sbjct: 256 LGFT 259
Score = 28.9 bits (64), Expect = 3.4
Identities = 28/162 (17%), Positives = 46/162 (28%), Gaps = 50/162 (30%)
Query: 8 QHIKSEDSSPQP-IKFKSRKKNLRTR-------------KDSSE--EEDSEEEMEALKKL 51
+ K+ Q I F RK R +S+ +D + +
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNA- 452
Query: 52 EEMKSLQK----------LRQRPNGVS------IISLTVG-EKVAEEDE--LLVKDPFKI 92
K +Q LR +S II L V E + +L P
Sbjct: 453 ---KDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGP--- 506
Query: 93 KSGGLVNMSALKSGQVKKVDDAYDTGIGTQFSAETNKRDEDE 134
GG + L + D TG+ + + +D+
Sbjct: 507 --GGASGLGVL----THRNKDG--TGVRVIVAGTLDINPDDD 540
>3jtx_A Aminotransferase; NP_283882.1, structural genomics, joint CE
structural genomics, JCSG, protein structure
initiative; HET: LLP MES; 1.91A {Neisseria meningitidis
Z2491}
Length = 396
Score = 28.3 bits (64), Expect = 3.8
Identities = 5/25 (20%), Positives = 10/25 (40%)
Query: 52 EEMKSLQKLRQRPNGVSIISLTVGE 76
+ + P G+ + L +GE
Sbjct: 15 ARLHEAMQGISAPEGMEAVPLHIGE 39
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 28.2 bits (63), Expect = 5.0
Identities = 22/147 (14%), Positives = 53/147 (36%), Gaps = 22/147 (14%)
Query: 20 IKFKSRKKNLRTRKDSSEEEDSEEEMEALKKLEEMKS------------LQKLRQRPNGV 67
I +++ L+ + D + ++ + +E + LE S L+ +
Sbjct: 924 IGLENKIMQLQRKIDE-QNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNA 982
Query: 68 SIISLTVGEKVAEEDELLVKDPFKIKSGGLVNMSALKSGQVKKVDDAYDTGIGTQFSAET 127
+ L++ E++A+ + L + + K+ K + + T
Sbjct: 983 TNRVLSLQEEIAKLRKELHQTQTEKKT---------IEEWADKYKHETEQLVSELKEQNT 1033
Query: 128 NKRDEDEEMMKYIEEQLSKRKKGEETK 154
+ E EE+ + I +Q + + E K
Sbjct: 1034 LLKTEKEELNRRIHDQAKEITETMEKK 1060
>1xdp_A Polyphosphate kinase; PPK, PPK complex with AMPPNP, AMPPNP,
transferase; HET: ATP; 2.50A {Escherichia coli} SCOP:
a.7.15.1 d.322.1.2 d.136.1.4 d.136.1.4 PDB: 1xdo_A*
Length = 687
Score = 27.8 bits (63), Expect = 5.7
Identities = 4/21 (19%), Positives = 10/21 (47%)
Query: 131 DEDEEMMKYIEEQLSKRKKGE 151
+ + +M+ + L +R E
Sbjct: 237 EMEASLMELMSSSLKQRLTAE 257
>2dvz_A BUGE, putative exported protein; periplamsic binding proteins,
carboxylate binding, glutamate, transport protein; HET:
GLU; 2.30A {Bordetella pertussis}
Length = 314
Score = 27.2 bits (61), Expect = 7.4
Identities = 9/23 (39%), Positives = 10/23 (43%), Gaps = 1/23 (4%)
Query: 297 GTYFFASVGNSGENHFAGFLEFK 319
G Y + S G G H G FK
Sbjct: 142 GKYSYGSSGTCGVLHLMGES-FK 163
>2o8r_A Polyphosphate kinase; structural genomics, protein structure
initiative, PSI, nysgrc, NEW YORK structural genomics
research consortium; HET: MSE; 2.70A {Porphyromonas
gingivalis} SCOP: a.7.15.1 d.322.1.2 d.136.1.4 d.136.1.4
Length = 705
Score = 27.5 bits (62), Expect = 7.5
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 131 DEDEEMMKYIEEQLSKRKKGE 151
E++ I +++ RK G
Sbjct: 245 QRPEDLPGEIRKKVKTRKLGA 265
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 27.5 bits (62), Expect = 8.0
Identities = 13/82 (15%), Positives = 33/82 (40%), Gaps = 1/82 (1%)
Query: 1 MSEEGSSQHIKSEDSSPQPIKFKSRKKNLRTRKDSSEEEDSEEEMEALKKLEEMKSLQKL 60
+ E GS ++S + P + + + +R KD++ + E+ +L+ E + +++
Sbjct: 378 IDEAGSKVRLRSFTTPPNLKELEQKLDEVRKEKDAAVQSQEFEKAASLRD-TEQRLREQV 436
Query: 61 RQRPNGVSIISLTVGEKVAEED 82
+V +D
Sbjct: 437 EDTKKSWKEKQGQENSEVTVDD 458
>2qpq_A Protein BUG27; alpha/beta domain, venus flytrap, transport protein;
HET: CIT; 1.92A {Bordetella pertussis}
Length = 301
Score = 27.2 bits (61), Expect = 8.2
Identities = 7/23 (30%), Positives = 8/23 (34%), Gaps = 1/23 (4%)
Query: 297 GTYFFASVGNSGENHFAGFLEFK 319
+ S GN H AG L
Sbjct: 129 TQVTYGSCGNGTPQHLAGEL-LN 150
>2p5z_X Type VI secretion system component; structural genomics, unknown
function, PSI-2, protein struct initiative; 2.60A
{Escherichia coli O6} SCOP: b.40.8.1 b.106.1.1 b.106.1.1
Length = 491
Score = 27.3 bits (61), Expect = 8.3
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 222 KLKLLWDRHNKKDGPS 237
++ L +DR K G
Sbjct: 410 RVNLDFDRDTWKPGYE 425
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
0.311 0.129 0.361
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: 4,867,081
Number of extensions: 297370
Number of successful extensions: 659
Number of sequences better than 10.0: 1
Number of HSP's gapped: 634
Number of HSP's successfully gapped: 42
Length of query: 327
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 233
Effective length of database: 4,077,219
Effective search space: 949992027
Effective search space used: 949992027
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 57 (26.5 bits)