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91.
Addi R. Fadel Dan Q. Jin Gaetano T. Montelione Ronald M. Levy 《Journal of biomolecular NMR》1995,6(2):221-226
Summary Order parameters for the backbone N–H and C–H bond vectors have been calculated from a 150 ps molecular dynamics (MD) simulation of human type- transforming growth factor in H2O solvent. Two kinds of crankshaft motions of the polypeptide backbone are observed in this MD trajectory. The first involves small-amplitude rocking of the rigid peptide bond due to correlated changes in the backbone dihedral angles i–1 and i. These high-frequency librational crankshaft motions are correlated with systematically smaller values of motional order parameters for backbone N–H bond vectors compared to C–H bond vectors. In addition, infrequent crankshaft flips of the peptide bond from one local minimum to another are observed for several amino acid residues. These MD simulations demonstrate that comparisons of N–H and C–H order parameters provide a useful approach for identifying crank-shaft librational motions in proteins. 相似文献
92.
Molecular dynamics simulations have been performed on three phenylimidazole inhibitor complexes ofP450
cam, utilizing the X-ray structures and the AMBER suite of programs. Compared to their corresponding optimized X-ray structures, very similar features were observed for the 1-phenylimidazole (1-PI) and 2-phenylimidazole (2-PI) complexes during a 100 ps MD simulation. The 1-PI inhibitor binds as a Type II complex with the imidazole nitrogen as a ligand of the heme iron. Analysis of the inhibitor-enzyme interctions during the MD simulations reveals that electrostatic interactions of the imidazole with the heme and van der Waals interactions of the phenyl ring with nearby hydrophobic residues are dominant. By contrast, 2-PI binds as a Type I inhibitor in the substrate binding pocket, but not as a ligand of the iron. The interactions of this inhibitor are qualitatively different from that of the Type II 1-PI, being mainly electrostatic/H-bonding interactions with a bound water and polar residues. Although the third compound, 4-PI, in common with 1-PI, also binds as a Type II inhibitor, with one nitrogen of the imidazole as a ligand to the iron, the MD average binding orientation deviates significantly from the X-ray structure. The most important changes observed include: (1) the rotation of the imidazole ring of this inhibitor by about 90° to enhance electrostatic interactions of the imidazole NH group with the carbonyl group of LEU244, and (2) the rotation of the carbonyl group of ASP251 to form a H-bond with VAL254. An analysis of the H-bonding network surrounding this substrate in the optimized crystal structure revealed that there is no H-bonding partner either for the free polar NH group in the imidazole ring of 4-phenylimidazole or for the polar carbonyl group of the nearby ASP251 residue. The deviation of the dynamically averaged inhibitor-enzyme structure of the 4-PI complex from the optimized crystal structure can therefore be rationalized as a consequence of the optimization of the electrostatic interactions among the polar groups. 相似文献
93.
Molecular clones of the mouse t complex derived from microdissected metaphase chromosomes 总被引:27,自引:0,他引:27
Dan Röhme Howard Fox Bernhard Herrmann Anna-Maria Frischauf Jan-Erik Edström Paul Mains Lee M. Silver Hans Lehrach 《Cell》1984,36(3):783-788
Fragments of the proximal half of mouse chromosome 17 including the t-complex region were microdissected from metaphase spreads. DNA was isolated from a pool of such fragments, and was cloned on microscale. Individual clones were used to probe genomic digests of DNA from a pair of Chinese hamster cell lines with or without mouse chromosome 17, and livers of congenic inbred lines of mice carrying wild-type and/or t-haplotype forms of chromosome 17. The data obtained indicate that 95% of the low copy number microclone inserts recognize DNA sequences present on mouse chromosome 17. It has been possible to use one-third of these clones to identify restriction-fragment-length polymorphisms between wild-type and t-haplotype DNA on a congenic background. These results demonstrate that these clones have been derived from the t-complex or regions closely linked to it. Clones of this type should provide starting points for a molecular analysis of this region of the mouse genome. 相似文献
94.
An algorithm for nucleic acid and protein sequence alignment is presented. It is a non-metric local similarity minimal-difference
algorithm and in the current implementation, assembles the matching regions found into a pseudo-global format. Its strengths
are its speed of execution and the especially convenient presentation of its output. The algorithm is intended for use in
sequence melding and local (small-region) similarity searching. It is not designed to replace a metric Needleman-Wunsch-Sellers-type
similarity algorithm. The program is written in FORTRAN and is designed to be easily transportable to a variety of computer
systems. 相似文献
95.
96.
Formation of a 22S mRNA X rRNA X protein complex during translation of globin messenger RNA 总被引:1,自引:0,他引:1
Poly(A)-rich RNA was isolated from rabbit reticulocyte polyribosomes by affinity chromatography on oligo(dT)-cellulose and fractionated in sucrose gradients under non-denaturing conditions. Most of the translatable RNA sedimented in sucrose gradients both as free 9S mRNA and as a 22S complex containing 18S ribosomal RNA and a protein of Mr 66 000. The complex was characterized by identification of the translation products. Experiments with both labelled globin mRNA and Mr-66 000 protein indicate that the complex is not an artefact, but rather that it is formed during the initiation of protein synthesis. The Mr-66 000 protein appears to be a component of the 48S pre-initiation complex and recycles before 80S complex formation. 相似文献
97.
Five ribonuclease activities, separable by polyacrylamide gel electrophoresis, have been detected in erythroid bone marrow cells from anaemic rabbits. Their intracellular distribution has been investigated and compared with that of the ribonucleases in reticulocytes. Both the acid and alkaline ribonuclease activities of reticulocytes are much lower (30--50 fold) than those of bone marrow erythroid cells. The most marked decrease in enzyme activity occurs in the fractions containing ribosomes and mitochondria plus lysosomes. In these subcellular organelles there was also a qualitative change in the ribonuclease electrophoretic pattern, whereas the cytosol enzymes of marrow erythroid cells and reticulocytes remained largely unchanged. Several ribonucleases released from reticulocyte membranes with urea were similar to those present in the lysosomal plus mitochondrial fraction, as shown by detection of enzyme activity after polyacrylamide gel electrophoresis. The decline in ribonuclease activity was found to begin in the orthochromatic cells, which have a highly condensed nucleus and are no longer active in DNA and RNA synthesis, and to coincide with a decrease in acid phosphatase activity and loss of lysosomes. 相似文献
98.
Dan -Eric Nilsson Heimo L. Nilsson 《Journal of comparative physiology. A, Neuroethology, sensory, neural, and behavioral physiology》1981,143(4):503-510
Summary The optical performance of the apposition compound eye of the marine isopodCirolana borealis Lilljeborg (Crustacea) was investigated. The ommatidia comprise large lenses (diam. ca. 150 m), spherical crystalline cones and hypertrophied rhabdoms. The 7 rhabdomeres are fused distally and open proximally. We have designated this rhabdom type as semifused. Distal pigment cells screen neighbouring ommatidia, and a well developed reflecting pigment layer surrounds the rhabdom. The focal length was determined in situ and refractive index measurements, raytracings, and eye mappings were made. The focus was found to lie well below the distal rhabdom tip. A theoretical acceptance function was constructed and a 50% acceptance angle of 45 ° was estimated. The eye parameter (p, according to Snyder 1977) of different ommatidia was between 44 and 14. This together with the anatomy demonstrate an optimation to extremely low light intensities. TheCirolana eye provides an example where acuity is sacrificed for the eye to be able to see at the low light intensities of the inhabitat.The investigation has been supported by a grant from the Swedish Natural Science Research Council (grant no. 2760-103). Our thanks are due to the staff of the marine biological station in Espegrend (Norway). The skilled technical assistance of Miss Inger Norling, Mrs. Rita Wallen, and Miss Maria Walles is gratefully acknowledged. And finally, we would like to express our deep appreciation to Professor Rolf Elofsson for constructive discussions and for his interest and encouragement throughout the investigation. 相似文献
99.
The identification of Tithonia voucher specimens as T. rotundifolia (Mill.) Blake, used for sesquiterpene lactone chemical investigations, have been found to be T. diversifolia (Hemsl.) A. Gray. The compound Ivalin, also is reported for the first time from T. calva Sch. Bip. in Semann. 相似文献
100.
James W. Wallace Kenneth R. Markham David E. Giannasi John T. Mickel Don L. Yopp Luis D. Gomez J. Dan Pittillo Robert Soeder 《American journal of botany》1982,69(3):356-362
A survey for 1,3,6,7-tetrahydroxy-C-glycosylxanthones of representative species within the primitive vascular plants, emphasizing the leptosporangiate ferns, has indicated a limited distribution of these compounds within three leptosporangiate families: Hymenophyllaceae, Aspleniaceae and Marsileaceae. In the Hymenophyllaceae the distribution of these compounds appears to be a useful criterion for segregating species of Mecodium from other species of Hymenophyllum (sensu lato) and suggests that the tubulate vs. the valvate indusial condition may not be an ideal character for separating all species of Hymenophyllum (s.l.) from those of Trichomanes (s.l.). These compounds appear useful for delimiting several species of Elaphoglossum section Pachyglossa and support a relationship among the Aspleniaceae, Athyriaceae, and Elaphoglossaceae. Their presence in Marsilea also raises questions as to the origin of this group of plants. 相似文献