Class information for:
Level 1: PHOTOACTIVE YELLOW PROTEIN//PHOTOACTIVE YELLOW PROTEIN PYP//XANTHOPSINS

Basic class information
Class id #P Avg. number of
references		 Database coverage
of references
20149 474 41.7 88%


Bar chart of Publication_year

Last years might be incomplete

Hierarchy of classes
The table includes all classes above and classes immediately below the current class.


Cluster id Level Cluster label #P
3 4 PLANT SCIENCES//AGRONOMY//FOOD SCIENCE & TECHNOLOGY 1882812
7 3       PLANT SCIENCES//PLANT PHYSIOLOGY//ARABIDOPSIS 149859
2289 2             PHYTOCHROME//PHOTOTROPIN//PHOTOMORPHOGENESIS 4572
20149 1                   PHOTOACTIVE YELLOW PROTEIN//PHOTOACTIVE YELLOW PROTEIN PYP//XANTHOPSINS 474

Terms with highest relevance score


rank Term termType Chi square Shr. of publ. in
class containing
term		 Class's shr. of
term's tot. occurrences		 #P with
term in
class
1 PHOTOACTIVE YELLOW PROTEIN authKW 1944722 8% 75% 40
2 PHOTOACTIVE YELLOW PROTEIN PYP authKW 350726 1% 78% 7
3 XANTHOPSINS authKW 257678 1% 100% 4
4 PYP authKW 257674 1% 67% 6
5 ECTOTHIORHODOSPIRA HALOPHILA authKW 231906 1% 60% 6
6 LOW BARRIER HYDROGEN BOND LBHB authKW 128839 0% 100% 2
7 PYP CHROMOPHORE authKW 128839 0% 100% 2
8 OXYGEN MICROSCOPY COMI address 85891 0% 67% 2
9 PHOTORECEPTOR PROTEIN authKW 85891 0% 67% 2
10 PHOTOACTIVE PROTEINS authKW 82822 1% 43% 3

Web of Science journal categories


Rank Term Chi square Shr. of publ. in
class containing
term		 Class's shr. of
term's tot. occurrences		 #P with
term in
class
1 Biophysics 2398 26% 0% 124
2 Biochemistry & Molecular Biology 1238 43% 0% 206
3 Chemistry, Physical 1117 34% 0% 159
4 Physics, Atomic, Molecular & Chemical 957 19% 0% 88
5 Chemistry, Multidisciplinary 61 10% 0% 49
6 Crystallography 28 3% 0% 13
7 Biochemical Research Methods 16 3% 0% 14
8 Nanoscience & Nanotechnology 5 2% 0% 10
9 Cell Biology 4 4% 0% 18
10 Spectroscopy 4 1% 0% 7

Address terms


Rank Term Chi square Shr. of publ. in
class containing
term		 Class's shr. of
term's tot. occurrences		 #P with
term in
class
1 OXYGEN MICROSCOPY COMI 85891 0% 67% 2
2 BIOL INFORMAT PROC CELLULAR SIGNALLING 1 64420 0% 100% 1
3 C TVENTURE BUSINESS 64420 0% 100% 1
4 ELEMENTS STRATEGY CATALYSTS BATTERIES 64420 0% 100% 1
5 EXPT ANDEWANDTE PHYS 2 64420 0% 100% 1
6 FCSRU 64420 0% 100% 1
7 GRP PHOTOCHIM ULTRAR IDE 64420 0% 100% 1
8 HOLLAND MOL CHEM 64420 0% 100% 1
9 INTERDISCIPINARY BASIC SCI 64420 0% 100% 1
10 MICROBIOL SILS 64420 0% 100% 1

Journals


Rank Term Chi square Shr. of publ. in
class containing
term		 Class's shr. of
term's tot. occurrences		 #P with
term in
class
1 PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES 4636 3% 1% 14
2 BIOCHEMISTRY 4174 12% 0% 59
3 BIOPHYSICAL JOURNAL 3792 7% 0% 34
4 PHOTOCHEMISTRY AND PHOTOBIOLOGY 3705 5% 0% 22
5 JOURNAL OF PHYSICAL CHEMISTRY B 2517 8% 0% 39
6 JOURNAL OF PHYSICAL CHEMISTRY LETTERS 1056 2% 0% 9
7 PHYSICAL CHEMISTRY CHEMICAL PHYSICS 836 4% 0% 19
8 NATURE STRUCTURAL BIOLOGY 647 1% 0% 4
9 STRUCTURAL DYNAMICS 563 0% 1% 1
10 PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS 483 1% 0% 7

Author Key Words


Rank Term Chi square Shr. of publ. in
class containing
term		 Class's shr. of
term's tot. occurrences		 #P with
term in
class		 LCSH search Wikipedia search
1 PHOTOACTIVE YELLOW PROTEIN 1944722 8% 75% 40 Search PHOTOACTIVE+YELLOW+PROTEIN Search PHOTOACTIVE+YELLOW+PROTEIN
2 PHOTOACTIVE YELLOW PROTEIN PYP 350726 1% 78% 7 Search PHOTOACTIVE+YELLOW+PROTEIN+PYP Search PHOTOACTIVE+YELLOW+PROTEIN+PYP
3 XANTHOPSINS 257678 1% 100% 4 Search XANTHOPSINS Search XANTHOPSINS
4 PYP 257674 1% 67% 6 Search PYP Search PYP
5 ECTOTHIORHODOSPIRA HALOPHILA 231906 1% 60% 6 Search ECTOTHIORHODOSPIRA+HALOPHILA Search ECTOTHIORHODOSPIRA+HALOPHILA
6 LOW BARRIER HYDROGEN BOND LBHB 128839 0% 100% 2 Search LOW+BARRIER+HYDROGEN+BOND+LBHB Search LOW+BARRIER+HYDROGEN+BOND+LBHB
7 PYP CHROMOPHORE 128839 0% 100% 2 Search PYP+CHROMOPHORE Search PYP+CHROMOPHORE
8 PHOTORECEPTOR PROTEIN 85891 0% 67% 2 Search PHOTORECEPTOR+PROTEIN Search PHOTORECEPTOR+PROTEIN
9 PHOTOACTIVE PROTEINS 82822 1% 43% 3 Search PHOTOACTIVE+PROTEINS Search PHOTOACTIVE+PROTEINS
10 TIME RESOLVED CRYSTALLOGRAPHY 67096 1% 21% 5 Search TIME+RESOLVED+CRYSTALLOGRAPHY Search TIME+RESOLVED+CRYSTALLOGRAPHY

Core articles
The table includes core articles in the class. The following variables is taken into account for the relevance score of an article in a cluster c:
(1) Number of references referring to publications in the class.
(2) Share of total number of active references referring to publications in the class.
(3) Age of the article. New articles get higher score than old articles.
(4) Citation rate, normalized to year.


Rank Reference # ref.
in cl.		 Shr. of ref. in
cl.		 Citations
1 IMAMOTO, Y , KATAOKA, M , (2007) STRUCTURE AND PHOTOREACTION OF PHOTOACTIVE YELLOW PROTEIN, A STRUCTURAL PROTOTYPE OF THE PAS DOMAIN SUPERFAMILY.PHOTOCHEMISTRY AND PHOTOBIOLOGY. VOL. 83. ISSUE 1. P. 40-49 85 94% 30
2 KUMAUCHI, M , HARA, MT , STALCUP, P , XIE, AH , HOFF, WD , (2008) IDENTIFICATION OF SIX NEW PHOTOACTIVE YELLOW PROTEINS - DIVERSITY AND STRUCTURE-FUNCTION RELATIONSHIPS IN A BACTERIAL BLUE LIGHT PHOTORECEPTOR.PHOTOCHEMISTRY AND PHOTOBIOLOGY. VOL. 84. ISSUE 4. P. 956 -969 86 82% 22
3 HOSPES, M , HENDRIKS, J , HELLINGWERF, KJ , (2013) TRYPTOPHAN FLUORESCENCE AS A REPORTER FOR STRUCTURAL CHANGES IN PHOTOACTIVE YELLOW PROTEIN ELICITED BY PHOTO-ACTIVATION.PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES. VOL. 12. ISSUE 3. P. 479-488 65 90% 4
4 WEI, LL , WANG, HJ , CHEN, XB , FANG, WH , WANG, HB , (2014) A COMPREHENSIVE STUDY OF ISOMERIZATION AND PROTONATION REACTIONS IN THE PHOTOCYCLE OF THE PHOTOACTIVE YELLOW PROTEIN.PHYSICAL CHEMISTRY CHEMICAL PHYSICS. VOL. 16. ISSUE 46. P. 25263 -25272 62 81% 3
5 CHANGENET-BARRET, P , PLAZA, P , MARTIN, MM , CHOSROWJAN, H , TANIGUCHI, S , MATAGA, N , IMAMOTO, Y , KATAOKA, M , (2009) STRUCTURAL EFFECTS ON THE ULTRAFAST PHOTOISOMERIZATION OF PHOTOACTIVE YELLOW PROTEIN. TRANSIENT ABSORPTION SPECTROSCOPY OF TWO POINT MUTANTS.JOURNAL OF PHYSICAL CHEMISTRY C. VOL. 113. ISSUE 27. P. 11605-11613 59 91% 23
6 ZHU, JY , VREEDE, J , HOSPES, M , ARENTS, J , KENNIS, JTM , VAN STOKKUM, IHM , HELLINGWERF, KJ , GROOT, ML , (2015) SHORT HYDROGEN BONDS AND NEGATIVE CHARGE IN PHOTOACTIVE YELLOW PROTEIN PROMOTE FAST ISOMERIZATION BUT NOT HIGH QUANTUM YIELD.JOURNAL OF PHYSICAL CHEMISTRY B. VOL. 119. ISSUE 6. P. 2372 -2383 59 78% 4
7 MENDONCA, L , HACHE, F , CHANGENET-BARRET, P , PLAZA, P , CHOSROWJAN, H , TANIGUCHI, S , IMAMOTO, Y , (2013) ULTRAFAST CARBONYL MOTION OF THE PHOTOACTIVE YELLOW PROTEIN CHROMOPHORE PROBED BY FEMTOSECOND CIRCULAR DICHROISM.JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. VOL. 135. ISSUE 39. P. 14637-14643 52 87% 7
8 GROMOV, EV , (2014) UNVEILING THE MECHANISM OF PHOTOINDUCED ISOMERIZATION OF THE PHOTOACTIVE YELLOW PROTEIN (PYP) CHROMOPHORE.JOURNAL OF CHEMICAL PHYSICS. VOL. 141. ISSUE 22. P. - 51 85% 5
9 HELLINGWERF, KJ , HENDRIKS, J , GENSCH, T , (2003) PHOTOACTIVE YELLOW PROTEIN, A NEW TYPE OF PHOTORECEPTOR PROTEIN: WILL THIS "YELLOW LAB" BRING US WHERE WE WANT TO GO?.JOURNAL OF PHYSICAL CHEMISTRY A. VOL. 107. ISSUE 8. P. 1082-1094 71 65% 180
10 KYNDT, JA , MEYER, TE , OLSON, KT , VAN BEEUMEN, J , CUSANOVICH, MA , (2013) PHOTOKINETIC, BIOCHEMICAL AND STRUCTURAL FEATURES OF CHIMERIC PHOTOACTIVE YELLOW PROTEIN CONSTRUCTS.PHOTOCHEMISTRY AND PHOTOBIOLOGY. VOL. 89. ISSUE 2. P. 349-360 49 91% 1

Classes with closest relation at Level 1


Rank Class id link
1 7757 PHOTOTROPIN//CHLOROPLAST MOVEMENT//LOV DOMAIN
2 15810 LAUE DIFFRACTION//JOURNAL OF APPLIED CRYSTALLOGRAPHY//UPR 9015
3 20560 MOL MOVIES//SPECT ULTRAR IDE//TIME OLVED DIFFRACT
4 3579 RHODOPSIN//RETINAL//BATHORHODOPSIN
5 18042 CO2 SOLUBILIZATION//PHOTOACOUSTIC CALORIMETRY//PHOTOACOUSTIC
6 162 BACTERIORHODOPSIN//PURPLE MEMBRANE//PHOTOCYCLE
7 19864 FIXL//COOA//GAS SENSOR PROTEINS
8 9648 CONICAL INTERSECTIONS//DIABATIC STATES//NONADIABATIC COUPLING TERMS
9 14403 KETOSTEROID ISOMERASE//LOW BARRIER HYDROGEN BOND//JULIUS SPOKOJNY BIOORGAN CHEM
10 1814 ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY//MACROMOLECULAR CRYSTALLOGRAPHY//ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY

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