RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2644
(119 letters)
>3ose_A Serine/threonine-protein kinase MARK1; kinase associated-1(Ka1)
domain, transferase, lipid binding membrane association;
1.70A {Homo sapiens} PDB: 1ul7_A
Length = 120
Score = 149 bits (378), Expect = 2e-48
Identities = 89/105 (84%), Positives = 93/105 (88%)
Query: 15 NDDQVKPRSLRFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYEQRERFLLLCVHGDPNTD 74
KPRSLRFTWSMKTTSS DPN++M EIRKVLDANNCDYEQ+ERFLL CVHGD D
Sbjct: 16 EGKDSKPRSLRFTWSMKTTSSMDPNDMMREIRKVLDANNCDYEQKERFLLFCVHGDARQD 75
Query: 75 SLVQWEIEVCKLPRLSLNGVRFKRISGTSIGFKNIASKIANELKL 119
SLVQWE+EVCKLPRLSLNGVRFKRISGTSI FKNIASKIANELKL
Sbjct: 76 SLVQWEMEVCKLPRLSLNGVRFKRISGTSIAFKNIASKIANELKL 120
>1v5s_A MAP/microtubule affinity-regulating kinase 3; Ka1 domain, ELKL
motif, MARK3, phosphorylation, structural genomics,
NPPSFA; NMR {Mus musculus} SCOP: d.129.6.1
Length = 126
Score = 141 bits (356), Expect = 6e-45
Identities = 73/105 (69%), Positives = 81/105 (77%), Gaps = 3/105 (2%)
Query: 15 NDDQVKPRSLRFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYEQRERFLLLCVHGDPNTD 74
N D P + + SS ++M EIRKVL ANNCDYEQRERFLL CVHGD + +
Sbjct: 19 NKDYDIPTTENLYFQG---SSGSSGDMMREIRKVLGANNCDYEQRERFLLFCVHGDGHAE 75
Query: 75 SLVQWEIEVCKLPRLSLNGVRFKRISGTSIGFKNIASKIANELKL 119
+LVQWE+EVCKLPRLSLNGVRFKRISGTSI FKNIASKIANELKL
Sbjct: 76 NLVQWEMEVCKLPRLSLNGVRFKRISGTSIAFKNIASKIANELKL 120
>2y94_A 5'-AMP-activated protein kinase catalytic subunit; transferase,
nucleotide-binding, staurosporine-binding,
serine/threonine-protein kinase; HET: TPO STU AMP; 3.24A
{Rattus norvegicus}
Length = 476
Score = 43.2 bits (102), Expect = 3e-06
Identities = 18/101 (17%), Positives = 45/101 (44%), Gaps = 4/101 (3%)
Query: 3 PVPKHNVVSNAVNDDQVKPRSL-RFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYEQRER 61
P+ + +N + K + + + W + S PN+IMAE+ + + + +++
Sbjct: 372 ETPRARHTLDELNPQKSKHQGVRKAKWHLGIRSQSRPNDIMAEVCRAIKQLDYEWKVVNP 431
Query: 62 FLLLCVHGDPNTDSLVQWEIEVCKL-PRLSLNGVRFKRISG 101
+ L +P T + + +++ ++ R L + F+ I
Sbjct: 432 YYLRVRRKNPVTSTFSKMSLQLYQVDSRTYL--LDFRSIDD 470
>4eai_A 5'-AMP-activated protein kinase catalytic subunit linker,
5'-AMP-activated protein...; AMPK, transferase; HET:
AMP; 2.29A {Rattus norvegicus} PDB: 4eaj_A* 4eak_A*
4eal_A*
Length = 106
Score = 34.1 bits (78), Expect = 0.002
Identities = 18/102 (17%), Positives = 42/102 (41%), Gaps = 11/102 (10%)
Query: 25 RFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYEQRERFLLLCVHGDPNTDSLVQWEIEVC 84
W + S PN+IMAE+ + + + +++ + L +P T + + +++
Sbjct: 5 GAKWHLGIRSQSRPNDIMAEVCRAIKQLDYEWKVVNPYYLRVRRKNPVTSTFSKMSLQLY 64
Query: 85 KL-PRLSLNGVRFKRI--------SGTSIGFKNIASKIANEL 117
++ R L + F+ I +I F + + + L
Sbjct: 65 QVDSRTYL--LDFRSIDDGGGGGGGSHTIEFFEMCANLIKIL 104
>2y8l_A 5'-AMP-activated protein kinase catalytic subunit; transferase,
nucleotide-binding, serine/threonine-protein KI; HET:
ADP AMP; 2.50A {Rattus norvegicus} PDB: 2y8q_A* 2ya3_A*
Length = 173
Score = 34.1 bits (77), Expect = 0.005
Identities = 13/80 (16%), Positives = 34/80 (42%), Gaps = 1/80 (1%)
Query: 25 RFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYEQRERFLLLCVHGDPNTDSLVQWEIEVC 84
W + S PN+IMAE+ + + + +++ + L +P T + + +++
Sbjct: 16 SMAWHLGIRSQSRPNDIMAEVCRAIKQLDYEWKVVNPYYLRVRRKNPVTSTFSKMSLQLY 75
Query: 85 KLPRLSLNGVRFKRISGTSI 104
++ + + F+ I
Sbjct: 76 QVDSRTYL-LDFRSIDDEIT 94
>2v8q_A 5'-AMP-activated protein kinase catalytic subunit; phosphorylation,
nucleotide-binding, serine/threonine-protei kinase,
magnesium, CBS domain; HET: AMP; 2.10A {Rattus
norvegicus} SCOP: d.129.6.2 PDB: 2v92_A* 2v9j_A* 2y94_C*
Length = 157
Score = 33.3 bits (75), Expect = 0.009
Identities = 13/74 (17%), Positives = 34/74 (45%), Gaps = 1/74 (1%)
Query: 28 WSMKTTSSRDPNEIMAEIRKVLDANNCDYEQRERFLLLCVHGDPNTDSLVQWEIEVCKLP 87
W + S PN+IMAE+ + + + +++ + L +P T + + +++ ++
Sbjct: 5 WHLGIRSQSRPNDIMAEVCRAIKQLDYEWKVVNPYYLRVRRKNPVTSTFSKMSLQLYQVD 64
Query: 88 RLSLNGVRFKRISG 101
+ + F+ I
Sbjct: 65 SRTYL-LDFRSIDD 77
>2f7v_A Aectylcitrulline deacetylase; alpha/beta, hydrolase; 1.75A
{Xanthomonas campestris} PDB: 2f8h_A
Length = 369
Score = 31.1 bits (71), Expect = 0.061
Identities = 10/81 (12%), Positives = 22/81 (27%), Gaps = 10/81 (12%)
Query: 6 KHNVVSNAVNDDQVKPRSLRFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYEQRERFLLL 65
K N++ + + + S D + ++A D +E+ R L
Sbjct: 236 KANMI----------APAAELRFGFRPLPSMDVDGLLATFAGFADPAAAHFEETFRGPSL 285
Query: 66 CVHGDPNTDSLVQWEIEVCKL 86
+ +V
Sbjct: 286 PSGDIARAEERRLAARDVADA 306
>3ct9_A Acetylornithine deacetylase; NP_812461.1, A putative zinc
peptidase, peptidase family M20 structural genomics;
2.31A {Bacteroides thetaiotaomicron vpi-5482}
Length = 356
Score = 31.0 bits (71), Expect = 0.064
Identities = 12/61 (19%), Positives = 20/61 (32%), Gaps = 7/61 (11%)
Query: 3 PVPKHNVVS----NAVNDDQVKPRSLRFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYEQ 58
K +V N V P F +++ ++ AEIRK + +
Sbjct: 221 GPVKMSVTVINAGTQHN---VVPDKCTFVVDIRSNELYSNEDLFAEIRKHIACDAKARSF 277
Query: 59 R 59
R
Sbjct: 278 R 278
>4eag_A EG:132E8.2 protein; AMPK, transferase; HET: ATP TAM; 2.70A
{Drosophila melanogaster}
Length = 130
Score = 30.0 bits (67), Expect = 0.10
Identities = 9/59 (15%), Positives = 25/59 (42%)
Query: 25 RFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYEQRERFLLLCVHGDPNTDSLVQWEIEV 83
W + S PN+IM E+ + + A + +++ + + + T + +++
Sbjct: 5 GAKWHLGIRSQSKPNDIMLEVYRAMKALSYEWKIINPYHVRVRRQNVKTGKFSKMSLQL 63
>3aia_A UPF0217 protein MJ1640; DUF358, rRNA methyltransferase, spout-class
fold, transferas; HET: SAM; 1.40A {Methanocaldococcus
jannaschii} PDB: 3ai9_X*
Length = 211
Score = 29.6 bits (66), Expect = 0.19
Identities = 15/91 (16%), Positives = 30/91 (32%), Gaps = 5/91 (5%)
Query: 21 PRSLRFTWSMKTTSSRDPNEIMAEIRKVLDANNC-----DYEQRERFLLLCVHGDPNTDS 75
P ++F S S D I I+K L + + + V +
Sbjct: 69 PVCIKFVGSELKKVSPDERNIAIFIKKALKKFEELDEEQRKDWNQSTPGIYVRRLGFRNL 128
Query: 76 LVQWEIEVCKLPRLSLNGVRFKRISGTSIGF 106
+++ E + L +NG + + + F
Sbjct: 129 VLEKLEEGKNIYYLHMNGEDVENVDIENPVF 159
>2h3g_X Biosynthetic protein; pantothenate kinase, anthrax, type III
pantothenate kinase, COAX, COAA, askha; 2.00A {Bacillus
anthracis str}
Length = 268
Score = 29.2 bits (66), Expect = 0.24
Identities = 9/44 (20%), Positives = 21/44 (47%)
Query: 24 LRFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYEQRERFLLLCV 67
LR W M+T + +E ++++L+ +E + ++ V
Sbjct: 22 LRQHWRMETDRHKTEDEYGMLVKQLLEHEGLSFEDVKGIIVSSV 65
>3t4n_A Carbon catabolite-derepressing protein kinase; CBS domain,
nucleotide binding, cytosol, protein binding; HET: ADP;
2.30A {Saccharomyces cerevisiae} PDB: 3tdh_A* 3te5_A*
2qlv_A
Length = 179
Score = 29.0 bits (64), Expect = 0.28
Identities = 9/79 (11%), Positives = 26/79 (32%), Gaps = 12/79 (15%)
Query: 20 KPRSLRFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYE------------QRERFLLLCV 67
+ + W S P ++M EI L ++ + + +
Sbjct: 43 VTKKSKTRWHFGIRSRSYPLDVMGEIYIALKNLGAEWAKPSEEDLWTIKLRWKYDIGNKT 102
Query: 68 HGDPNTDSLVQWEIEVCKL 86
+ + L++ I++ ++
Sbjct: 103 NTNEKIPDLMKMVIQLFQI 121
>2rb7_A Peptidase, M20/M25/M40 family; YP_387682.1, CO-catalytic
metallopeptidase, peptidase family M20/M25/M40,
structural genomics; HET: MSE PGE PG4; 1.60A
{Desulfovibrio desulfuricans subsp}
Length = 364
Score = 29.1 bits (66), Expect = 0.32
Identities = 8/40 (20%), Positives = 17/40 (42%), Gaps = 3/40 (7%)
Query: 12 NAVNDDQVKPRSLRFTWSMKTTSSRDPNEIMAEIRKVLDA 51
+ N P ++++ T DP ++ +IRK +
Sbjct: 236 ESTN---KVPDVAEGWFNIRVTEHDDPGALIDKIRKTVSG 272
>2qrd_A SNF1-like protein kinase SSP2; AMPK, ADP, ATP-binding, kinase,
nucleotide-binding, serine/T protein kinase,
transferase, CBS domain; HET: ADP ATP; 2.41A
{Schizosaccharomyces pombe} SCOP: d.129.6.2 PDB:
2ooy_A* 2qr1_A* 2qrc_A* 2oox_A* 2qre_A*
Length = 137
Score = 27.4 bits (60), Expect = 0.98
Identities = 7/38 (18%), Positives = 13/38 (34%)
Query: 20 KPRSLRFTWSMKTTSSRDPNEIMAEIRKVLDANNCDYE 57
+ +S R W D EI+ + + L +
Sbjct: 5 RKKSRRNKWHFGVRCRGDAPEILLAVYRALQRAGAQFT 42
>1ll7_A Chitinase 1; beta-alpha barrel, hydrolase; 2.00A {Coccidioides
immitis} SCOP: c.1.8.5 d.26.3.1 PDB: 1d2k_A 1ll4_A*
1ll6_A
Length = 392
Score = 26.1 bits (58), Expect = 3.6
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 42 MAEIRKVLDANNCDYEQRERFLL 64
+ R+ LDA + + ++FLL
Sbjct: 151 LKACREALDAYSAKHPNGKKFLL 173
>3beo_A UDP-N-acetylglucosamine 2-epimerase; UDP-GLCNAC, allosteric,
regulation, isomerase; HET: UD1 UDP; 1.70A {Bacillus
anthracis} PDB: 1o6c_A
Length = 375
Score = 25.5 bits (57), Expect = 4.5
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 8/33 (24%)
Query: 41 IMAEIRKVLDANNCDYEQRERFLLLCVHGDPNT 73
+ + KV+ D ++ VHGD T
Sbjct: 83 GLEGLDKVMKEAKPD--------IVLVHGDTTT 107
>3dzc_A UDP-N-acetylglucosamine 2-epimerase; structural genomics, in
diseases, isomerase, center for structural genomics of
INFE diseases, csgid; 2.35A {Vibrio cholerae}
Length = 396
Score = 25.6 bits (57), Expect = 4.6
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 8/33 (24%)
Query: 41 IMAEIRKVLDANNCDYEQRERFLLLCVHGDPNT 73
I+ +++VL + D ++ VHGD T
Sbjct: 99 ILLGMQQVLSSEQPD--------VVLVHGDTAT 123
>1vgv_A UDP-N-acetylglucosamine 2-epimerase; structural genomics,
isomerase; HET: UD1; 2.31A {Escherichia coli} SCOP:
c.87.1.3 PDB: 1f6d_A*
Length = 384
Score = 25.1 bits (56), Expect = 6.2
Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 8/33 (24%)
Query: 41 IMAEIRKVLDANNCDYEQRERFLLLCVHGDPNT 73
I+ ++ +L D ++ VHGD T
Sbjct: 74 ILEGLKPILAEFKPD--------VVLVHGDTTT 98
>2i06_A DNA replication terminus site-binding protein; protein-DNA complex,
replication-DNA complex; HET: DNA; 2.20A {Escherichia
coli} SCOP: e.2.1.1 PDB: 2ewj_A* 1ecr_A* 2i05_A* 1sut_A
Length = 309
Score = 25.0 bits (54), Expect = 6.8
Identities = 10/33 (30%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 21 PRSLRFTWSMKTTSSR-DPNEIMAEIRKVLDAN 52
P +LRF W+ K +E++A++ K L +
Sbjct: 165 PATLRFGWANKHIIKNLHRDEVLAQLEKSLKSP 197
>2nap_A Protein (periplasmic nitrate reductase); nitrogenous acceptor,
dissimilatory nitrate reductase; HET: MGD MES; 1.90A
{Desulfovibrio desulfuricans} SCOP: b.52.2.2 c.81.1.1
PDB: 2jim_A* 2jir_A* 2jip_A* 2v45_A* 2v3v_A* 2jiq_A*
2jio_A*
Length = 723
Score = 25.2 bits (56), Expect = 7.0
Identities = 5/21 (23%), Positives = 9/21 (42%)
Query: 36 RDPNEIMAEIRKVLDANNCDY 56
R+ ++ E R V D+
Sbjct: 515 RNAEDVWNEWRMVSKGTTYDF 535
>1w9p_A Chitinase; peptide inhibitors, argifin, argadin, glycosidase,
hydrolase; 1.7A {Aspergillus fumigatus} SCOP: c.1.8.5
d.26.3.1 PDB: 1w9u_A* 1w9v_A* 2a3a_A* 2a3b_A* 2a3c_A*
2a3e_A* 2iuz_A* 3ch9_A 3chc_A* 3chd_A* 3che_A* 3chf_A*
1wno_A*
Length = 433
Score = 25.0 bits (55), Expect = 7.3
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 42 MAEIRKVLDANNCDYEQRERFLL 64
+ E+R LD+ + + FLL
Sbjct: 192 LKEVRTALDSYSAANAGGQHFLL 214
>2h6r_A Triosephosphate isomerase; beta-alpha barrel; 2.30A
{Methanocaldococcus jannaschii}
Length = 219
Score = 24.9 bits (55), Expect = 8.4
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 31 KTTSSRDPNEIMAEIRKVLDANN 53
S +P + +R V + N
Sbjct: 147 IPVSKANPEVVEGTVRAVKEINK 169
>3nzq_A ADC, biosynthetic arginine decarboxylase; alpha-beta protein,
structural genomics, PSI-biology, protei structure
initiative; 3.10A {Escherichia coli}
Length = 666
Score = 24.9 bits (54), Expect = 8.5
Identities = 7/27 (25%), Positives = 15/27 (55%)
Query: 37 DPNEIMAEIRKVLDANNCDYEQRERFL 63
DP ++ + R + + D E +++FL
Sbjct: 616 DPKTLLTQFRDQVKKTDLDAELQQQFL 642
>2h7c_A Liver carboxylesterase 1; enzyme, cholesteryl esterase, hydrolase;
HET: NAG NDG SIA COA; 2.00A {Homo sapiens} SCOP:
c.69.1.1 PDB: 2dqy_A* 2dr0_A* 2dqz_A* 1mx1_A* 1mx5_A*
1mx9_A* 4ab1_A* 1ya4_A* 1yah_A* 1yaj_A* 1ya8_A* 2hrr_A*
2hrq_A* 3k9b_A* 1k4y_A*
Length = 542
Score = 24.7 bits (54), Expect = 9.4
Identities = 5/13 (38%), Positives = 8/13 (61%)
Query: 68 HGDPNTDSLVQWE 80
+G+PN + L W
Sbjct: 487 NGNPNGEGLPHWP 499
>3vmk_A 3-isopropylmalate dehydrogenase; oxidoreductase, decarboxylating
dehydrogenase; HET: IPM; 1.48A {Shewanella benthica}
PDB: 3vmj_A* 3vl2_A* 3vkz_A* 3vl4_A* 3vl6_A* 3vl7_A*
3vl3_A*
Length = 375
Score = 24.8 bits (55), Expect = 9.4
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 40 EIMAEIRKVLDA 51
E+MAE RKVL A
Sbjct: 27 EVMAEARKVLAA 38
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
0.318 0.133 0.395
Gapped
Lambda K H
0.267 0.0599 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,753,280
Number of extensions: 89631
Number of successful extensions: 306
Number of sequences better than 10.0: 1
Number of HSP's gapped: 305
Number of HSP's successfully gapped: 43
Length of query: 119
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 38
Effective length of database: 4,440,192
Effective search space: 168727296
Effective search space used: 168727296
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 (21.7 bits)
S2: 51 (23.7 bits)