RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11905
(317 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 = 49.1 bits (116), Expect = 1e-06
Identities = 40/210 (19%), Positives = 76/210 (36%), Gaps = 46/210 (21%)
Query: 14 WLNKLETIHIQRSDMNKLIMNYLVTEGFKEAAEKFQQESGIT-PSLDLN---TMENRIMI 69
W + +++ +NKL EK +ES I+ PS+ L +EN +
Sbjct: 396 WFDVIKSD--VMVVVNKLHK--------YSLVEKQPKESTISIPSIYLELKVKLENEYAL 445
Query: 70 RDAIQNGRIQEATALVNELYPELLDNDRYIYFHLQQLHLLELIRENKIEEA------LHF 123
+I + T ++L P LD Y Y H+ HL + ++ F
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPPYLDQ--YFYSHIGH-HLKNIEHPERMTLFRMVFLDFRF 502
Query: 124 AQEQLSESGQSDPDILNELERTMALLAFGEPMNSPFGDL--------LNQAHRQKVASQL 175
++++ A A G +N+ L N +++ + +
Sbjct: 503 LEQKIRHDS-------------TAWNASGSILNT-LQQLKFYKPYICDNDPKYERLVNAI 548
Query: 176 NTAILKMEHHESTSPRLLNLLKIILWSQGE 205
+ K+E + S +LL+I L ++ E
Sbjct: 549 LDFLPKIEENLICSKY-TDLLRIALMAEDE 577
Score = 39.5 bits (91), Expect = 0.001
Identities = 37/308 (12%), Positives = 93/308 (30%), Gaps = 89/308 (28%)
Query: 22 HIQRSDMNKLIMNYLVTEGFKEAAEKFQQESGITPSLDLNTMENRIMIRDAIQNGRIQEA 81
H + + Y +K+ F+ + D +++ M + + I
Sbjct: 5 HHMDFETGE--HQY----QYKDILSVFEDA--FVDNFDCKDVQD--MPKSILSKEEIDH- 53
Query: 82 TALVNELYPELLDNDRYIYFHLQQLHLLELIRENKIEEALHFAQEQLSESGQSDPDILNE 141
++ + + +++ L +E +++ F +E L + + L
Sbjct: 54 --IIMS--KDAVSGTLRLFW------TLLSKQEEMVQK---FVEEVL----RINYKFLMS 96
Query: 142 ------LERTMALLAFGEPMNSPFGD--LLNQAH--RQKVASQLNTAILKMEHHESTSPR 191
+ +M + E + + D + + + R + +L A+L++ +
Sbjct: 97 PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAK----- 151
Query: 192 LLNLLKIILWSQGELDKKKIEYPKMRAFSQLCGCHSITGLSFTQSSYLLSLVSSTCNAAT 251
+++ G + G G + + C +
Sbjct: 152 -----NVLI--DG-----------VL------GS----GKT--------WVALDVCLS-- 173
Query: 252 GRYSIKVALNTAI--LKMEHHESTSPRLLNLLKIILWSQGELDKKKIEYPKMVDFSSARL 309
Y ++ ++ I L +++ S L L K L Q +D R+
Sbjct: 174 --YKVQCKMDFKIFWLNLKNCNSPETVLEMLQK--LLYQ--IDPNWTSRSDHSSNIKLRI 227
Query: 310 DSAYTEPK 317
S E +
Sbjct: 228 HSIQAELR 235
>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 = 47.4 bits (112), Expect = 5e-06
Identities = 31/194 (15%), Positives = 58/194 (29%), Gaps = 78/194 (40%)
Query: 87 ELY---P---ELLDN-DRYIYFHLQQ---LHLLELIRENKIEEALHFAQE---QLSE--- 130
+LY ++ + D H + +L+++ N + +HF E ++ E
Sbjct: 1634 DLYKTSKAAQDVWNRADN----HFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYS 1689
Query: 131 --SGQSDPD-------ILNELERTMALLAFGEPMNSPFGDLLNQAHRQKVASQLNTAILK 181
++ D I E+ F LL+ T
Sbjct: 1690 AMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEK-----GLLSA-----------T---- 1729
Query: 182 MEHHESTSPRLLNLLKI----ILWSQGELDKKKI-------EYPKMRAFSQLCGCHSITG 230
+ T P L L++ L S+G + EY + L S+
Sbjct: 1730 ----QFTQPALT-LMEKAAFEDLKSKGLIPADATFAGHSLGEY------AALA---SLAD 1775
Query: 231 -LSFTQSSYLLSLV 243
+S L+ +V
Sbjct: 1776 VMSIES---LVEVV 1786
Score = 33.9 bits (77), Expect = 0.090
Identities = 37/268 (13%), Positives = 67/268 (25%), Gaps = 100/268 (37%)
Query: 73 IQNGRIQEATALVNELYPELLDNDRYIYFHLQQLHLLELIRENKIEEALHFAQ--EQLSE 130
+ +G + E LV P +F QL +E F + + +E
Sbjct: 11 LSHGSL-EHVLLV----PTAS------FFIASQL------QEQ-------FNKILPEPTE 46
Query: 131 SGQSDPDILNELERTMALLAFGEPMNSPFGDLLNQAHRQKVASQLNTAILKMEHHESTSP 190
+D + E L + V+S + S
Sbjct: 47 GFAADDEPTTPAELVGKFLGY-------------------VSSLV---------EPSKVG 78
Query: 191 RLLNLLKIILWSQGELDKKKIEYPKMRAFSQLCG--CHSITGLSFTQSSYLLSLVSSTCN 248
+ +L + L E + L G H++ ++ L
Sbjct: 79 QFDQVLNLCLTE--------FE----NCY--LEGNDIHALAAKLLQENDTTLVKTKELIK 124
Query: 249 AATGRYSIKVALNTAILKMEHHESTSPRLLNLL---KIILWS----QG-------ELDKK 294
+ ++ K S L + L + QG EL +
Sbjct: 125 NY---ITARIMAKRPFDK--KSNS---ALFRAVGEGNAQLVAIFGGQGNTDDYFEEL--R 174
Query: 295 KI--EYPKMV----DFSSARLDSAYTEP 316
+ Y +V FS+ L
Sbjct: 175 DLYQTYHVLVGDLIKFSAETLSELIRTT 202
>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 = 34.5 bits (78), Expect = 0.019
Identities = 14/55 (25%), Positives = 20/55 (36%), Gaps = 26/55 (47%)
Query: 11 EKTWLNKLETIHIQRSDMNKLIMNYLVTEGFKEAAEKFQQESGITPSLDLN-TME 64
EK L KL+ + + KL Y A + P+L + TME
Sbjct: 18 EKQALKKLQ------ASL-KL---Y--------ADDS-------APALAIKATME 47
Score = 26.8 bits (58), Expect = 5.9
Identities = 6/26 (23%), Positives = 13/26 (50%), Gaps = 7/26 (26%)
Query: 133 QSDPDILNELERTMALLAFGEPMNSP 158
Q+ L +L+ ++ L A ++P
Sbjct: 20 QA----LKKLQASLKLYA---DDSAP 38
>1vyh_C Platelet-activating factor acetylhydrolase IB alpha subunit;
lissencephaly, platelet activacting factor, regulator
of cytoplasmic dynein; 3.4A {Mus musculus} SCOP:
b.69.4.1
Length = 410
Score = 34.5 bits (80), Expect = 0.039
Identities = 12/38 (31%), Positives = 26/38 (68%)
Query: 24 QRSDMNKLIMNYLVTEGFKEAAEKFQQESGITPSLDLN 61
QR ++N+ I +YL + G++EA F++E+ + + +L+
Sbjct: 7 QRDELNRAIADYLRSNGYEEAYSVFKKEAELDMNEELD 44
>1uuj_A Platelet-activating factor acetylhydrolase IB ALP subunit;
mitosis, neuroge cytoskeleton, cell division,
microtubule; 1.75A {Mus musculus} SCOP: a.221.1.1
Length = 88
Score = 31.7 bits (72), Expect = 0.067
Identities = 11/31 (35%), Positives = 22/31 (70%)
Query: 24 QRSDMNKLIMNYLVTEGFKEAAEKFQQESGI 54
QR ++N+ I +YL + G++EA F++E+ +
Sbjct: 9 QRDELNRAIADYLRSNGYEEAYSVFKKEAEL 39
>2xtc_A F-box-like/WD repeat-containing protein TBL1X; transcription;
2.22A {Homo sapiens} PDB: 2xte_A 2xtd_A
Length = 90
Score = 31.2 bits (71), Expect = 0.081
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 21 IHIQRSDMNKLIMNYLVTEGFKEAAEKFQQESGITPS 57
+ I ++N L+ YL GF +A F ES I+ S
Sbjct: 1 MSITSDEVNFLVYRYLQESGFSHSAFTFGIESHISQS 37
>3csq_A Morphogenesis protein 1; hydrolase, infection, late protein;
1.80A {Bacteriophage phi-29}
Length = 334
Score = 30.2 bits (67), Expect = 0.78
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 8/48 (16%)
Query: 26 SDMN---KLIMNYLVTEGFKEAAEK-----FQQESGITPSLDLNTMEN 65
S+M + I+NYL + G+ + A Q ES I P L N E
Sbjct: 12 SEMKVNAQYILNYLSSNGWTKQAICGMLGNMQSESTINPGLWQNLDEG 59
>3ct5_A Morphogenesis protein 1; cell WALL, hydrolase, infection, late
protein; HET: NAG; 1.37A {Bacteriophage phi-29} PDB:
3csz_A* 3csr_A* 3ct0_A* 3ct1_A*
Length = 159
Score = 28.5 bits (63), Expect = 1.7
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 5/41 (12%)
Query: 30 KLIMNYLVTEGFKEAAEK-----FQQESGITPSLDLNTMEN 65
+ I+NYL + G+ + A Q ES I P L N E
Sbjct: 19 QYILNYLSSNGWTKQAICGMLGNMQSESTINPGLWQNLDEG 59
>3op1_A Macrolide-efflux protein; structural genomics, PSI-2, protein
structure initiative, MI center for structural genomics,
MCSG; HET: PEG; 2.49A {Streptococcus pneumoniae}
Length = 308
Score = 29.0 bits (66), Expect = 1.9
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 39 EGFKEAAEKFQQESGITPSLDLNTMENRI---MIRDAIQNGRIQEATAL 84
+ ++ F E I P ++ + +I IR AI +G ++EA L
Sbjct: 139 KTAEDLKNYFDGEVIIVPPVEDE--KGKISSTRIRQAILDGNVKEAGKL 185
>1kae_A HDH, histidinol dehydrogenase; L-histidinol dehydrogenase,
homodimer, rossman fold, 4 domai L-histidine
biosynthesis, NAD cofactor; HET: HSO NAD; 1.70A
{Escherichia coli} SCOP: c.82.1.2 PDB: 1k75_A* 1kah_A*
1kar_A
Length = 434
Score = 28.6 bits (65), Expect = 2.8
Identities = 7/38 (18%), Positives = 13/38 (34%), Gaps = 6/38 (15%)
Query: 60 LNTMENRIMIRDAIQNGRI------QEATALVNELYPE 91
L + R A+ R+ + + N+ PE
Sbjct: 289 LAELPRAETARQALNASRLIVTKDLAQCVEISNQYGPE 326
>2qe7_H ATP synthase subunit epsilon; blockage of ATP hydrolysis,
F1-ATPase, single analysis, thermoalkaliphilic,
hydrolase; 3.06A {Bacillus SP}
Length = 135
Score = 27.3 bits (61), Expect = 4.4
Identities = 10/41 (24%), Positives = 16/41 (39%), Gaps = 3/41 (7%)
Query: 112 IRENKIEEALHFAQEQLSESGQSDPDILN---ELERTMALL 149
I + ++A + L ++D D L LER L
Sbjct: 88 IDVERAKKAKARHETILKRLDKTDKDYLRHKRALERAEVRL 128
>1q7z_A 5-methyltetrahydrofolate S-homocysteine methyltransferase;
methionine, cobalamin, vitamin B12; 1.70A {Thermotoga
maritima} SCOP: c.1.21.2 c.1.26.1 PDB: 1q7q_A 1q7m_A
1q85_A 1q8a_A 1q8j_A* 3bof_A 3bol_A
Length = 566
Score = 27.9 bits (63), Expect = 4.7
Identities = 4/20 (20%), Positives = 9/20 (45%)
Query: 108 LLELIRENKIEEALHFAQEQ 127
L +++ E + A+ Q
Sbjct: 330 LWAEMQKGNEEIVIKEAKTQ 349
>1iq8_A Archaeosine tRNA-guanine transglycosylase; (alpha/beta)8 barrel,
riken structural genomics/proteomics initiative, RSGI;
2.20A {Pyrococcus horikoshii} SCOP: b.122.1.1 c.1.20.1
d.17.6.1 PDB: 1it7_A* 1it8_A* 1j2b_A
Length = 582
Score = 28.1 bits (63), Expect = 4.7
Identities = 9/54 (16%), Positives = 19/54 (35%), Gaps = 7/54 (12%)
Query: 60 LNTMEN-----RIM--IRDAIQNGRIQEATALVNELYPELLDNDRYIYFHLQQL 106
L + N + ++ AI+ G + +P+L + + H L
Sbjct: 303 LLALHNLWVIKEEIKRVKQAIKEGELWRLVDERARSHPKLYSAYKRLLEHYTFL 356
>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 = 27.9 bits (62), Expect = 6.1
Identities = 17/143 (11%), Positives = 38/143 (26%), Gaps = 20/143 (13%)
Query: 62 TMENRIMIRDAIQNGRIQEATALVNELYPELLDNDRYIYFHLQQLHLLELIRENKIEEAL 121
T +NR ++D + Q ++ Y Y L H+ ++ +
Sbjct: 446 TEKNRSQLQDLHRKMVTQFQRYYQPHTLSPDQEDCMYWYNFLAY-HMASANMHKELCALM 504
Query: 122 HFAQ--EQLSESGQSDPDILNELERTMALLAFGEPMNSPFGDLLNQAHRQKVASQLNTAI 179
+ +E +++E +L V +
Sbjct: 505 FSLDWIKAKTELVGP-AHLIHEFVAYRHIL---------------DEKDCAVCENFQEFL 548
Query: 180 LKMEHHESTSPRLLNLLKIILWS 202
H P N++++ L
Sbjct: 549 SLNGHLLGRQP-FPNIVQLGLCE 570
>2h4r_A MENT, heterochromatin-associated protein MENT; serine protease
inhibitor, serpin, hydrolase inhibitor; 2.70A {Gallus
gallus} PDB: 2dut_A
Length = 415
Score = 27.7 bits (62), Expect = 6.2
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 2/64 (3%)
Query: 117 IEEALHFAQEQLSESGQSDPDILNELERTMALLAFGEP--MNSPFGDLLNQAHRQKVASQ 174
+ E LHF + +ES +R + ++S F +LL ++ +
Sbjct: 59 MAEVLHFTEAVRAESSSVARPSRGRPKRRRMDPEHEQAENIHSGFKELLTAFNKPRNNYS 118
Query: 175 LNTA 178
L +A
Sbjct: 119 LRSA 122
>1mrz_A Riboflavin kinase/FMN adenylyltransferase; rossmann fold, flavin
binding domain, 6-stranded beta barrel nucleotide
binding domain; HET: CIT; 1.90A {Thermotoga maritima}
SCOP: b.43.5.1 c.26.1.3 PDB: 1s4m_A* 1t6x_A* 1t6y_A*
1t6z_A* 2i1l_A
Length = 293
Score = 26.7 bits (60), Expect = 9.7
Identities = 8/34 (23%), Positives = 16/34 (47%), Gaps = 5/34 (14%)
Query: 54 ITPSLDLNTMENRI---MIRDAIQNGRIQEATAL 84
+ + R+ +IR+ +Q GR++E A
Sbjct: 124 EIEDVVVQ--GKRVSSSLIRNLVQEGRVEEIPAY 155
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 0.130 0.364
Gapped
Lambda K H
0.267 0.0630 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,601,794
Number of extensions: 262618
Number of successful extensions: 757
Number of sequences better than 10.0: 1
Number of HSP's gapped: 749
Number of HSP's successfully gapped: 31
Length of query: 317
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 223
Effective length of database: 4,077,219
Effective search space: 909219837
Effective search space used: 909219837
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: 57 (25.9 bits)