RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13403
(195 letters)
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 81.5 bits (202), Expect = 2e-18
Identities = 23/87 (26%), Positives = 48/87 (55%), Gaps = 8/87 (9%)
Query: 4 AHAKMHLREHVSEDDVNMAIRMMLESFVDTQKYSVMKQMKQVTGSLPITIRHIESMIRMA 63
A+A+ ++ ++ + A ++ + FV+ +K K + + IT R +E++IR++
Sbjct: 512 AYARKYVTPKITSE----AKNLITDFFVEMRK----KSSETPDSPILITPRQLEALIRIS 563
Query: 64 QAHAKMHLREHVSEDDVNMAIRMMLES 90
+A+AKM L+ V+ +D AI +M
Sbjct: 564 EAYAKMALKAEVTREDAERAINIMRLF 590
Score = 50.7 bits (122), Expect = 5e-08
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 1 MAQAHAKMHLREHVSEDDVNMAIRMMLES 29
+++A+AKM L+ V+ +D AI +M
Sbjct: 562 ISEAYAKMALKAEVTREDAERAINIMRLF 590
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 80.3 bits (198), Expect = 4e-18
Identities = 19/74 (25%), Positives = 40/74 (54%), Gaps = 1/74 (1%)
Query: 20 NMAIRMMLESFVDTQKYSVMKQMKQVTGSLPITIRHIESMIRMAQAHAKMHLREHVSEDD 79
A + + + ++ V +++ +LP+T R +ES+ R+A+AHA+M L + V +D
Sbjct: 417 EEARKRLEHWYETRRE-EVEERLGMGLPTLPVTRRQLESVERLAKAHARMRLSDDVEPED 475
Query: 80 VNMAIRMMLESFVD 93
V++A ++
Sbjct: 476 VDIAAELVDWYLET 489
Score = 49.8 bits (119), Expect = 1e-07
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 1 MAQAHAKMHLREHVSEDDVNMAIRMMLESFVD 32
+A+AHA+M L + V +DV++A ++
Sbjct: 458 LAKAHARMRLSDDVEPEDVDIAAELVDWYLET 489
>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 = 52.5 bits (125), Expect = 2e-08
Identities = 33/195 (16%), Positives = 69/195 (35%), Gaps = 25/195 (12%)
Query: 11 REHVSEDDVNMAI-----RMMLESFVDTQKYSVMKQMKQVTGSLPITIRHIESMIRMAQA 65
H+S D +M + + +L ++D + + +++ P + I IR A
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT---NPRRLSIIAESIRDGLA 342
Query: 66 HAKMHLREHVSEDDVNMAIRMMLESFVDTQKYSVMKQMKQTFQKYLSFKKD---TTELLY 122
+ + HV+ D + I ES ++ + + ++M F + F T LL
Sbjct: 343 TWD-NWK-HVNCDKLTTII----ESSLNVLEPAEYRKM---FDRLSVFPPSAHIPTILLS 393
Query: 123 YILRQMTLDQLIHIPFVSQTFQKYLSFKKDTTELLYYI--LRQMTLDQLMYIRGVHGVVI 180
I + ++ + KY +K E I + +L +H ++
Sbjct: 394 LIWFDVIKSDVMVV---VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV 450
Query: 181 DTVEIHEKDFKEKYS 195
D I + +
Sbjct: 451 DHYNIPKTFDSDDLI 465
Score = 43.7 bits (102), Expect = 2e-05
Identities = 24/194 (12%), Positives = 54/194 (27%), Gaps = 44/194 (22%)
Query: 21 MAIRM---MLESFVDTQKYSVMKQMKQVTGSLPITIRHIESMIRMAQAHAKMHLREH--- 74
+ + + + T ++T + ++ +E R+
Sbjct: 328 RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE----------YRKMFDR 377
Query: 75 --VSEDDVNMAIRMMLESFVDTQKYSVMKQMKQTFQKYLSFKKDTTELLYYI-------L 125
V ++ ++L S + + KY +K E I
Sbjct: 378 LSVFPPSAHIPT-ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK 436
Query: 126 RQMTLDQLIHIPFVSQTFQKYLSFKKDTTELLY---YILRQMTLDQLMYIRGVHGVVIDT 182
++ + +H V + +F D Y Y +I G H +
Sbjct: 437 VKLENEYALHRSIVDH-YNIPKTFDSDDLIPPYLDQYFYS--------HI-GHH---LKN 483
Query: 183 VEIHEKD--FKEKY 194
+E E+ F+ +
Sbjct: 484 IEHPERMTLFRMVF 497
Score = 27.9 bits (61), Expect = 2.8
Identities = 17/104 (16%), Positives = 34/104 (32%), Gaps = 24/104 (23%)
Query: 92 VDTQKYS---VMKQMKQTFQKYLSFKKDTTELLYYILRQMTLDQLIHIP----------- 137
+Y ++ + F K D ++ IL + +D +I
Sbjct: 11 TGEHQYQYKDILSVFEDAFVDNFDCK-DVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW 69
Query: 138 -FVSQTFQKYLSFKKDTTELLYYIL--------RQMTLDQLMYI 172
+S+ + F ++ + Y L RQ ++ MYI
Sbjct: 70 TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113
>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 = 41.6 bits (97), Expect = 9e-05
Identities = 21/122 (17%), Positives = 40/122 (32%), Gaps = 30/122 (24%)
Query: 88 LE-SF-VDTQKYSVMKQMKQTFQKYL-----SFKKD-----TTELLYYILRQMTLDQLIH 135
LE V T + + Q+++ F K L F D EL+ L
Sbjct: 16 LEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG--------- 66
Query: 136 IPFVSQTFQKYLSFKKDTTELLYYILRQMTLDQLMYIRG--VHGVVIDTVEIHEKDFKEK 193
+VS + S ++L L + Y+ G +H + ++ ++ +
Sbjct: 67 --YVSSLVEP--SKVGQFDQVLNLCLTEFENC---YLEGNDIHALAAKLLQENDTTLVKT 119
Query: 194 YS 195
Sbjct: 120 KE 121
Score = 26.9 bits (59), Expect = 6.0
Identities = 22/159 (13%), Positives = 47/159 (29%), Gaps = 49/159 (30%)
Query: 42 MKQVTGSLPITIRHIESMIRMAQAHAKMHLREHVSEDDVNMAIRMM--------LESFVD 93
M ++ +T ++ + +H + +S VN + + L
Sbjct: 338 MLSISN---LTQEQVQDYVNKTNSHLPAGKQVEISL--VN-GAKNLVVSGPPQSLYGLNL 391
Query: 94 T-QKYSVMKQMKQTFQKYLSFKKDTTELLYYILRQMTLDQLIHIPFVSQTFQKYLSFKKD 152
T +K + Q+ + S +K + L + PF S L
Sbjct: 392 TLRKAKAPSGLDQSRIPF-SERKLKFSNRF--LP-------VASPFHS----HLL---VP 434
Query: 153 TTELLYYILRQMTLDQLMYIRGVHGVVIDTVEIHEKDFK 191
++L+ +V + V + KD +
Sbjct: 435 ASDLI-----------------NKDLVKNNVSFNAKDIQ 456
>2yxl_A PH0851 protein, 450AA long hypothetical FMU protein; FMU-homolog,
methyltransferase, structural genomics, NPPSFA; HET:
SFG; 2.55A {Pyrococcus horikoshii}
Length = 450
Score = 37.6 bits (88), Expect = 0.001
Identities = 19/129 (14%), Positives = 41/129 (31%), Gaps = 21/129 (16%)
Query: 62 MAQAHAKMHLREHVSEDDVNMAIRMMLESFVDTQKYSVMKQMKQTFQKY-LSFKKD---T 117
M K+ + + + + K S ++ F+K+ +
Sbjct: 1 MEAEKKKLSIPPK------GIRAIIEAIRLGEIIKPSQY-AKREAFKKHDVEEAWLNRVL 53
Query: 118 TELLYYILR-QMTLDQLIHIPFVSQTFQKYLSFKKDTTELLYYILRQMTLDQLMYIRGVH 176
T + Y I++ Q +D++I V T D L LR + +D ++
Sbjct: 54 TMIFYDIMKKQGLIDKVIK-EIVGVTPLI-----LDP--WLRAALR-VAVDIALFHDPSS 104
Query: 177 GVVIDTVEI 185
+ +
Sbjct: 105 QTIKNLRWK 113
>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 = 28.4 bits (62), Expect = 1.1
Identities = 10/60 (16%), Positives = 19/60 (31%), Gaps = 34/60 (56%)
Query: 34 QKYSVMKQMKQVTGSL----PITIRHIESMIRMAQAHAKMHLREHVSEDDVNMAIRMMLE 89
+K + +K++ SL +S A A +AI+ +E
Sbjct: 18 EK----QALKKLQASLKLYAD------DS----APA----------------LAIKATME 47
Score = 27.6 bits (60), Expect = 1.9
Identities = 7/32 (21%), Positives = 16/32 (50%), Gaps = 9/32 (28%)
Query: 95 QKYSVMKQMKQTFQKY-------LSFKKDTTE 119
+K ++ K+++ + + Y L+ K T E
Sbjct: 18 EKQAL-KKLQASLKLYADDSAPALAIKA-TME 47
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 28.9 bits (65), Expect = 1.1
Identities = 10/41 (24%), Positives = 21/41 (51%)
Query: 45 VTGSLPITIRHIESMIRMAQAHAKMHLREHVSEDDVNMAIR 85
G L + +R + ++R A A +++V +DV A++
Sbjct: 333 RKGHLTLRLRDLGGIVRAAGDIAVKKGKKYVEREDVIEAVK 373
>2r44_A Uncharacterized protein; putative ATPase, structural genomics,
joint center for struc genomics, JCSG; HET: MSE PG4;
2.00A {Cytophaga hutchinsonii atcc 33406}
Length = 331
Score = 27.5 bits (62), Expect = 2.5
Identities = 7/23 (30%), Positives = 16/23 (69%)
Query: 58 SMIRMAQAHAKMHLREHVSEDDV 80
++ R+A+A A + R++V +D+
Sbjct: 268 NLNRVAKAMAFFNNRDYVLPEDI 290
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 27.8 bits (62), Expect = 2.8
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 59 MIRMAQAHAKMHLREHVSEDDV 80
IR+ QA A R V+ D+
Sbjct: 258 AIRLLQASAFFSGRSAVAPVDL 279
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop,
rossman fold, AAA+, photosynthesis, metal transport;
2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB:
2x31_G
Length = 350
Score = 27.4 bits (61), Expect = 3.5
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 59 MIRMAQAHAKMHLREHVSEDDVNMAIRMML 88
++R A+A A + V D + M L
Sbjct: 294 LLRSARALAALEGATAVGRDHLKRVATMAL 323
>1kol_A Formaldehyde dehydrogenase; oxidoreductase; HET: NAD; 1.65A
{Pseudomonas putida} SCOP: b.35.1.2 c.2.1.1
Length = 398
Score = 27.2 bits (61), Expect = 4.0
Identities = 14/124 (11%), Positives = 31/124 (25%), Gaps = 27/124 (21%)
Query: 6 AKMHLREHVSEDDVNMAIRMMLES------------FVDTQKYSVMKQMKQVTGSLPIT- 52
A+ H E + + +++ +V +V K + S+
Sbjct: 266 ARGHGHEGAKHEAPATVLNSLMQVTRVAGKIGIPGLYVTEDPGAVDAAAKIGSLSIRFGL 325
Query: 53 --IRHIESMIRMAQAHAKM---HLREHVSEDDVNMAI-----RMMLESFVDTQKYSVMKQ 102
+ Q L + + D +N+A + L+ Y
Sbjct: 326 GWAKSHS--FHTGQTPVMKYNRALMQAIMWDRINIAEVVGVQVISLDDAPRG--YGEFDA 381
Query: 103 MKQT 106
Sbjct: 382 GVPK 385
>1yqd_A Sinapyl alcohol dehydrogenase; lignin, monolignol, oxidoreductase,
zinc-dependent, plant DE biosynthesis, substrate
inhibition; HET: NAP; 1.65A {Populus tremuloides} PDB:
1yqx_A*
Length = 366
Score = 26.8 bits (60), Expect = 5.4
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 3/62 (4%)
Query: 36 YSVMKQMKQVTGSLPITIRHIESMIRMAQAHAKMHLREHVSEDDVNMAIRMMLESFVDTQ 95
+S++ K V GS ++ + MI A H E +S D +N A+ + ++ V
Sbjct: 293 FSLIAGRKIVAGSGIGGMKETQEMIDFAAKHNITADIEVISTDYLNTAMERLAKNDV--- 349
Query: 96 KY 97
+Y
Sbjct: 350 RY 351
>1taf_A TFIID TBP associated factor 42; transcription initiation, histone
fold, complex (TWO transcr factors); 2.00A {Drosophila
melanogaster} SCOP: a.22.1.3
Length = 68
Score = 24.4 bits (53), Expect = 8.3
Identities = 11/41 (26%), Positives = 23/41 (56%)
Query: 49 LPITIRHIESMIRMAQAHAKMHLREHVSEDDVNMAIRMMLE 89
L T R++ S++ A+ +A ++ + DDV +A + L+
Sbjct: 28 LEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLATEVTLD 68
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
0.324 0.133 0.365
Gapped
Lambda K H
0.267 0.0786 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,899,948
Number of extensions: 163209
Number of successful extensions: 675
Number of sequences better than 10.0: 1
Number of HSP's gapped: 670
Number of HSP's successfully gapped: 35
Length of query: 195
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 106
Effective length of database: 4,216,824
Effective search space: 446983344
Effective search space used: 446983344
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (24.9 bits)