RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12804
(182 letters)
>1ea0_A Glutamate synthase [NADPH] large chain; oxidoreductase, iron
sulphur flavoprotein; HET: OMT FMN AKG; 3.0A
{Azospirillum brasilense} SCOP: b.80.4.1 c.1.4.1
d.153.1.1 PDB: 2vdc_A*
Length = 1479
Score = 108 bits (272), Expect = 6e-28
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 3/83 (3%)
Query: 59 SAGIGEVARNSEPFMRQVFLTGKQ--DEEEFKRQIYVLRKVSTHKIPKPGQR-FYICSLS 115
IGE A + P + Q+ + + +E+F+ +Y++R+ + FYICSLS
Sbjct: 114 VDIIGEKANATRPEIEQIIVGNNKGVSDEQFELDLYIIRRRIEKAVKGEQINDFYICSLS 173
Query: 116 NRIVVYKGQFTADQLWKYFTDLN 138
R ++YKG F A+QL ++ DL
Sbjct: 174 ARSIIYKGMFLAEQLTTFYPDLL 196
Score = 70.2 bits (173), Expect = 1e-14
Identities = 15/44 (34%), Positives = 25/44 (56%)
Query: 139 IIEDAEKLSMRMNHRGACACDNDSGDGAGVLVAIPHAFYIQKLR 182
++E + + HRGA D +GDGAG+ VA+P F+ ++
Sbjct: 17 VVEKGIEALKAVWHRGAVDADGKTGDGAGIHVAVPQKFFKDHVK 60
Score = 34.0 bits (79), Expect = 0.021
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 43 CGVGFIVAIDRKRSHK 58
CGVGFI AID K
Sbjct: 1 CGVGFIAAIDGKPRRS 16
>1ofd_A Ferredoxin-dependent glutamate synthase 2; oxidoreductase, complex
enzyme, substrate channeling, amidotransferase,
flavoprotein, iron-sulphur; HET: FMN AKG; 2.00A
{Synechocystis SP} SCOP: b.80.4.1 c.1.4.1 d.153.1.1 PDB:
1llz_A* 1lm1_A* 1llw_A* 1ofe_A*
Length = 1520
Score = 107 bits (270), Expect = 1e-27
Identities = 25/82 (30%), Positives = 46/82 (56%), Gaps = 5/82 (6%)
Query: 59 SAGIGEVARNSEPFMRQVFLTGKQ--DEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSN 116
S +G A+N++P + Q+ +T + +E R++Y+ R + K+ + FY+CS S
Sbjct: 114 SDVLGIQAKNNQPHIEQILVTCPEGCAGDELDRRLYIARSIIGKKL---AEDFYVCSFSC 170
Query: 117 RIVVYKGQFTADQLWKYFTDLN 138
R +VYKG + L +++ DL
Sbjct: 171 RTIVYKGMVRSIILGEFYLDLK 192
Score = 59.9 bits (146), Expect = 4e-11
Identities = 22/44 (50%), Positives = 26/44 (59%)
Query: 139 IIEDAEKLSMRMNHRGACACDNDSGDGAGVLVAIPHAFYIQKLR 182
++E A K M HRG C+ DNDSGDGAGV+ AIP Q
Sbjct: 17 LVEQALKALGCMEHRGGCSADNDSGDGAGVMTAIPRELLAQWFN 60
Score = 33.3 bits (77), Expect = 0.043
Identities = 8/16 (50%), Positives = 9/16 (56%)
Query: 43 CGVGFIVAIDRKRSHK 58
CGVGFI + K H
Sbjct: 1 CGVGFIANLRGKPDHT 16
>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 = 32.5 bits (73), Expect = 0.073
Identities = 27/180 (15%), Positives = 55/180 (30%), Gaps = 50/180 (27%)
Query: 5 TMTAEQSTAVESVVEEV------------RDEYLGPAA-SGLYDPANEREACGVGFIVAI 51
T+ ++Q V+ VEEV + E P+ + +Y +R
Sbjct: 70 TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY 129
Query: 52 DRKRSHKSAGIGEVARNSEPFMRQVFL-----TGKQDEEEFKRQIYVLRKVSTHKIPKPG 106
+ R + + P + V + +GK L ++K+
Sbjct: 130 NVSRLQPYLKLRQALLELRP-AKNVLIDGVLGSGKT--------WVALDVCLSYKV---- 176
Query: 107 QRFYICSLSNRIVVYKGQFTADQLW----KYFTDLNIIEDAEKLSMRMNHRGACACDNDS 162
C + +I F W + ++E +KL +++ D+ S
Sbjct: 177 ----QCKMDFKI------F-----WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221
>3p1a_A MYT1 kinase, membrane-associated tyrosine- and threonine-speci
inhibitory kinase; structural genomics, structural
genomics consortium, SGC; 1.70A {Homo sapiens}
Length = 311
Score = 31.1 bits (71), Expect = 0.16
Identities = 15/75 (20%), Positives = 21/75 (28%), Gaps = 21/75 (28%)
Query: 80 GKQDEEEFKRQIYVLRKVSTHKIPKP-----------GQRFYI----C--SLSNRIVVYK 122
G +D ++ KV H P G Y+ C SL +
Sbjct: 96 GPKDRARKLAEVGSHEKVGQH----PCCVRLEQAWEEGGILYLQTELCGPSLQQHCEAWG 151
Query: 123 GQFTADQLWKYFTDL 137
Q+W Y D
Sbjct: 152 ASLPEAQVWGYLRDT 166
>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 = 30.4 bits (68), Expect = 0.37
Identities = 36/240 (15%), Positives = 67/240 (27%), Gaps = 82/240 (34%)
Query: 2 VEQTMTAEQSTAVESVVEEVRDEYLG-----PAASGLYDPANEREACGVGFI-------V 49
VE + + + + E + YL A+ L + I +
Sbjct: 72 VEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARI 131
Query: 50 AIDR--KRSHKSAGIGEVARNSEPFMRQVFLTGKQ--DEEEFK--RQIY----------- 92
R + SA V + + +F G Q ++ F+ R +Y
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQLV-AIF--GGQGNTDDYFEELRDLYQTYHVLVGDLI 188
Query: 93 -----VLRKVSTHKI--------------------PKPGQRFYICS--LS-NRIVVYKGQ 124
L ++ + P + Y+ S +S I V
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD-YLLSIPISCPLIGVI--- 244
Query: 125 FTADQLWKYFTDLNIIEDAEKLSMRMNHRGACACDNDSGDGAGVLVAIPHA-------FY 177
QL Y ++ +R +GA +G G++ A+ A F+
Sbjct: 245 ----QLAHYVVTAKLL-GFTPGELRSYLKGA------TGHSQGLVTAVAIAETDSWESFF 293
Score = 26.6 bits (58), Expect = 6.4
Identities = 16/78 (20%), Positives = 27/78 (34%), Gaps = 15/78 (19%)
Query: 113 SLSNRIVVYKGQ-FTADQLWKYF-------TDLNIIEDAE-----KLSMR-MNHRGACAC 158
SL + ++V F A QL + F T+ D E +L + + + +
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEPTE-GFAADDEPTTPAELVGKFLGYVSSLVE 73
Query: 159 DNDSGDGAGVLVAIPHAF 176
+ G VL F
Sbjct: 74 PSKVGQFDQVLNLCLTEF 91
>2buj_A Serine/threonine-protein kinase 16; transferase, ATP-binding,
lipoprotein, myristate, PA phosphorylation; HET: STU;
2.6A {Homo sapiens}
Length = 317
Score = 27.3 bits (61), Expect = 2.9
Identities = 10/85 (11%), Positives = 24/85 (28%), Gaps = 20/85 (23%)
Query: 73 MRQVFLTGKQDEEEFKRQIYVLRKV----------STHKIPKPGQRFYI----CS----- 113
++++ +QD EE +R+ + R + ++
Sbjct: 59 LKRILCHEQQDREEAQREADMHRLFNHPNILRLVAYCLRERGAKHEAWLLLPFFKRGTLW 118
Query: 114 -LSNRIVVYKGQFTADQLWKYFTDL 137
R+ T DQ+ +
Sbjct: 119 NEIERLKDKGNFLTEDQILWLLLGI 143
>3tfi_A GCVT-like aminomethyltransferase protein; demethylase, THF; 1.60A
{Candidatus pelagibacter ubique} PDB: 3tfh_A 3tfj_A*
Length = 369
Score = 25.6 bits (57), Expect = 9.9
Identities = 18/87 (20%), Positives = 34/87 (39%), Gaps = 17/87 (19%)
Query: 73 MRQVFLTGKQDEEEFKRQIYVLRKVSTHKI--PKPGQRFYICSLSNR------IVVYKGQ 124
RQV ++GK D E ++ ++ + K G+ +Y + VV K
Sbjct: 63 ERQVEISGK-DSAEL------VQLMTCRDLSKSKIGRCYYCPIIDENGNLVNDPVVLK-- 113
Query: 125 FTADQLWKYFTDLNIIEDAEKLSMRMN 151
++ W D ++I A+ L+
Sbjct: 114 LDENKWWISIADSDVIFFAKGLASGHK 140
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
0.319 0.135 0.393
Gapped
Lambda K H
0.267 0.0824 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,781,181
Number of extensions: 160671
Number of successful extensions: 325
Number of sequences better than 10.0: 1
Number of HSP's gapped: 321
Number of HSP's successfully gapped: 16
Length of query: 182
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 94
Effective length of database: 4,244,745
Effective search space: 399006030
Effective search space used: 399006030
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: 54 (24.4 bits)