F/N: Six-bit storage of information in BOTH D/RNA codons and CaMKII-Micro Tubule “bytes”? Coincidence?
|April 2, 2012||Posted by kairosfocus under Intelligent Design|
A few days back, Dr Hunter highlighted here and at his own blog, a suggestion in PLoS that CaMKII-MT “bytes” are used in neurons to store six-bit coded information. (BTW, “byte” can be used for short bit arrays, not just eight-bit ones.)
Let’s look at an illustration:
Memory is understood as strengthened synaptic connections among neurons. Paradoxically components of synaptic membranes are relatively short-lived and frequently re-cycled while memories can last a lifetime. This suggests synaptic information is encoded at a deeper, finer-grained scale of molecular information within post-synaptic neurons. Long-term memory requires genetic expression, protein synthesis, and delivery of new synaptic components. How are these changes guided on the molecular level? The calcium-calmodulin dependent protein kinase II (CaMKII) has been heavily implicated in the strengthening of active neural connections. CaMKII interacts with various substrates including microtubules (MTs). MTs maintain cellular structure, and facilitate cellular cargo transport, effectively controlling neural architecture. Memory formation requires reorientation of this network. Could CaMKII-MT interactions be the molecular level encoding required to orchestrate neural plasticity? Using molecular modeling and electrostatic profiling, we show a precise matching between the spatial dimensions, geometry and electrostatics of CaMKII and MTs, and calculate the potential information capacity and bio-energetic parameters of such interactions. Results suggest signaling and encoding in MTs offers rapid, robust information processing with a large potential for memory storage, reflecting a general code for MT-based memory in neurons and other eukaryotic cells.
[“Cytoskeletal Signaling: Is Memory Encoded in Microtubule Lattices by CaMKII Phosphorylation?” Link. PLoS Computational Biology, March 2012]
In effect, on this model:
In long-term potentiation (LTP), a cellular and molecular model for memory, post-synaptic calcium ion (Ca2+) flux activates the hexagonal Ca2+-calmodulin dependent kinase II (CaMKII), a dodacameric holoenzyme containing 2 hexagonal sets of 6 kinase domains. Each kinase domain can either phosphorylate substrate proteins, or not (i.e. encoding one bit). Thus each set of extended CaMKII kinases can potentially encode synaptic Ca2+ information via phosphorylation as ordered arrays of binary ‘bits’. Candidate sites for CaMKII phosphorylation-encoded molecular memory include microtubules (MTs), cylindrical organelles whose surfaces represent a regular lattice with a pattern of hexagonal polymers of the protein tubulin. Using molecular mechanics modeling and electrostatic profiling, we find that spatial dimensions and geometry of the extended CaMKII kinase domains precisely match those of MT hexagonal lattices. This suggests sets of six CaMKII kinase domains phosphorylate hexagonal MT lattice neighborhoods collectively, e.g. conveying synaptic information as ordered arrays of six “bits”, and thus “bytes”, with 64 to 5,281 possible bit states per CaMKII-MT byte. Signaling and encoding in MTs and other cytoskeletal structures offer rapid, robust solid-state information processing which may reflect a general code for MT-based memory and information processing within neurons and other eukaryotic cells.
Six-bit hexagonal ring arrays of proteins being used to store six bits based on phosphoryllation or not? Quite interesting. And, six bits per unit rings a bell.
Oddly enough, the three-letter codons in D/RNA, with four states per digit are also six-bit units.
64 possibilities per codon unit:
Sure would be convenient, though.
But at any rate, we see here a candidate for binary coded storage in our nerve cells, that would control microtubules, which in turn govern synaptic behaviour, which is known to be connected with memory and learning, given the processing power of neural networks to drive outputs based on nested weighted sums of inputs; making them great for pattern-recognition and decision-making. Clipping Wiki for a handy 101:
The term neural network was traditionally used to refer to a network or circuit of biological neurons. The modern usage of the term often refers to artificial neural networks, which are composed of artificial neurons or nodes. Thus the term has two distinct usages:
- Biological neural networks are made up of real biological neurons that are connected or functionally related in a nervous system. In the field of neuroscience, they are often identified as groups of neurons that perform a specific physiological function in laboratory analysis.
- Artificial neural networks are composed of interconnecting artificial neurons (programming constructs that mimic the properties of biological neurons). Artificial neural networks may either be used to gain an understanding of biological neural networks, or for solving artificial intelligence problems without necessarily creating a model of a real biological system. The real, biological nervous system is highly complex: artificial neural network algorithms attempt to abstract this complexity and focus on what may hypothetically matter most from an information processing point of view . . . .
A biological neural network is composed of a group or groups of chemically connected or functionally associated neurons. A single neuron may be connected to many other neurons and the total number of neurons and connections in a network may be extensive. Connections, called synapses, are usually formed from axons to dendrites, though dendrodendritic microcircuits and other connections are possible. Apart from the electrical signaling, there are other forms of signaling that arise from neurotransmitter diffusion.
So, we have an interesting set of suggestions.
(Please note the use of question marks. That is almost always a sign of guessing, or suggesting, in a scientific context.)
In any case, the astonishing, co-ordinated and integrated, functionally specific, information-rich complexity involved in biological systems is further underscored.
Cue the “just because it is complex, co-ordinated and functionally specific does not mean it was designed” objection in 5, 4, 3, 2 . . . seconds.
Okay, folks, just for fun. END